diff --git a/.nojekyll b/.nojekyll new file mode 100644 index 0000000..e69de29 diff --git a/_sources/exercises.md.txt b/_sources/exercises.md.txt new file mode 100644 index 0000000..61028b9 --- /dev/null +++ b/_sources/exercises.md.txt @@ -0,0 +1,12 @@ +# List of exercises + +## Full list + +This is a list of all exercises and solutions in this lesson, mainly +as a reference for helpers and instructors. This list is +automatically generated from all of the other pages in the lesson. +Any single teaching event will probably cover only a subset of these, +depending on their interests. + +```{exerciselist} +``` diff --git a/_sources/gh-pages.md.txt b/_sources/gh-pages.md.txt new file mode 100644 index 0000000..ee4e51c --- /dev/null +++ b/_sources/gh-pages.md.txt @@ -0,0 +1,62 @@ +(gh-pages)= + +# Hosting websites/homepages on GitHub Pages + + +## Often we don't need more than a static website + +You can host your personal homepage or group webpage or project website on +GitHub using [GitHub Pages](https://pages.github.com/). +[GitLab](https://about.gitlab.com/features/pages/) and +[Bitbucket](https://confluence.atlassian.com/bitbucket/publishing-a-website-on-bitbucket-cloud-221449776.html) +also offer a very similar solution. + +Unless you need user authentication or a sophisticated database behind your +website, [GitHub Pages](https://pages.github.com/) can be a very nice +alternative to running your own web servers. This is how all +[https://coderefinery.org](https://coderefinery.org) material is hosted. + + +## How to find the website URL + +Here below, NAMESPACE can either be a username or an organizational account. + +**Personal homepage or organizational homepage** +- Generated URL: https://**NAMESPACE**.github.io +- Generated from: https://github.com/**NAMESPACE**/**NAMESPACE**.github.io (main branch) + +**Project website** +- Generated URL: https://**NAMESPACE**.github.io/**REPOSITORY** +- Generated from: https://github.com/**NAMESPACE**/**REPOSITORY** (gh-pages branch) + + +## Exercise - Your own website on GitHub Pages + +```{exercise} GH-Pages-2: Host your own github page +- Deploy own website reusing a template: + - Follow the steps from GitHub Pages . + The documentation there is very good so there is no need for us to duplicate the screenshots. + - Select "Project site". + - Select "Choose a theme". + - Follow the instructions on . + - Browse your page on https://**USERNAME**.github.io/**REPOSITORY** (adjust "USERNAME" and "REPOSITORY"). +- Make a change to the repository after the webpage has been deployed for the first time. +- Please wait few minutes and then verify that the change shows up on the website. +``` + +```{callout} Real-life examples +- CodeRefinery website (built using [Zola](https://www.getzola.org/)) + - [Source](https://raw.githubusercontent.com/coderefinery/coderefinery.org/main/content/lessons/core.md) + - Result: +- This lesson (built using [Sphinx](https://www.sphinx-doc.org/) + and [MyST](https://myst-parser.readthedocs.io/) + and [sphinx-lesson](https://coderefinery.github.io/sphinx-lesson/)) + - [Source](https://raw.githubusercontent.com/coderefinery/documentation/main/content/gh-pages.md) + - Result: this page +``` + +```{note} +- You can use HTML directly or another static site generator if you prefer + to not use the default [Jekyll](https://jekyllrb.com/). +- It is no problem to use a custom domain instead of `*.github.io`. +``` diff --git a/_sources/gh_workflow.md.txt b/_sources/gh_workflow.md.txt new file mode 100644 index 0000000..90bc2c4 --- /dev/null +++ b/_sources/gh_workflow.md.txt @@ -0,0 +1,129 @@ +# Deploying Sphinx documentation to GitHub Pages + +```{objectives} +- Create a basic workflow which you can take home and adapt for your project. +``` + +## [GitHub Pages](https://pages.github.com/) + +- Serve websites from a GitHub repository. +- It is no problem to serve using your own URL `https://myproject.org` instead of `https://myuser.github.io/myproject`. + + +## [GitHub Actions](https://github.com/features/actions/) + +- Automatically runs code when your repository changes. +- We will let it run `sphinx-build` and make the result available to GitHub Pages. + + +## Our goal: putting it all together + +- Host source code with documentation sources on a public Git repository. +- Each time we `git push` to the repository, a GitHub action triggers to + rebuild the documentation. +- The documentation is pushed to a separate branch called 'gh-pages'. + +--- + +## Exercise - Deploy Sphinx documentation to GitHub Pages + +````{exercise} GH-Pages-1: Deploy Sphinx documentation to GitHub Pages +In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages. + +**Step 1**: Go to the [documentation-example](https://github.com/coderefinery/documentation-example/generate) project template +on GitHub and create a copy to your namespace. +- Give it a name, for instance "documentation-example". +- You don't need to "Include all branches" +- Click on "Create a repository". + +**Step 2**: Browse the new repository. +- It will look very familar to the previous episode. +- However, we have moved the documentation part under `doc/` (many projects do it this + way). But it is still a Sphinx documentation project. +- The source code for your project could then go under `src/`. + + +**Step 3**: Add the GitHub Action to your new Git repository. +- Add a new file at `.github/workflows/documentation.yml` (either through terminal or web interface), containing: +```yaml +name: documentation + +on: [push, pull_request, workflow_dispatch] + +permissions: + contents: write + +jobs: + docs: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v4 + - uses: actions/setup-python@v5 + - name: Install dependencies + run: | + pip install sphinx sphinx_rtd_theme myst_parser + - name: Sphinx build + run: | + sphinx-build doc _build + - name: Deploy to GitHub Pages + uses: peaceiris/actions-gh-pages@v3 + if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }} + with: + publish_branch: gh-pages + github_token: ${{ secrets.GITHUB_TOKEN }} + publish_dir: _build/ + force_orphan: true +``` +- You don't need to understand all of the above, but you + might spot familiar commands in the `run:` sections. +- After the file has been committed (and pushed), + check the action at `https://github.com/USER/documentation-example/actions` + (replace `USER` with your GitHub username). + +**Step 4**: Enable GitHub Pages +- On GitHub go to "Settings" -> "Pages". +- In the "Source" section, choose "Deploy from a branch" in the dropdown menu. +- In the "Branch" section choose "gh-pages" and "/root" in the dropdown menus and click + save. +- You should now be able to verify the pages deployment in the Actions list). + +**Step 5**: Verify the result +- Your site should now be live on `https://USER.github.io/documentation-example/` (replace USER). + +**Step 6**: Verify refreshing the documentation +- Commit some changes to your documentation +- Verify that the documentation website refreshes after your changes (can take few seconds or a minute) +```` + + +## Alternatives to GitHub Pages + +- [GitLab Pages](https://docs.gitlab.com/ee/user/project/pages/) + and [GitLab CI](https://docs.gitlab.com/ee/ci/) can create a very similar workflow. + +- [Read the Docs](https://readthedocs.org) is the most common alternative to + hosting in GitHub Pages. + +- Sphinx builds HTML files (this is what static site generators do), and you + can host them anywhere, for example your university's web space or own web server. + + +## Migrating your own documentation to Sphinx + +- First convert your documentation to Markdown using [Pandoc](https://pandoc.org). +- Create a file `index.rst` which lists all other Markdown files and provides the + table of contents. +- Add a `conf.py` file. You can generate a starting point for `conf.py` and + `index.rst` with `sphinx-quickstart`, or you can take the examples in this + lesson as inspiration. +- Test building the documentation locally with `sphinx-build`. +- Once this works, follow the above steps to build and deploy to GitHub Pages or some other web space. + +--- + +```{keypoints} +- Sphinx makes simple HTML (and more) files, so it is easy to find a place to host them. +- Github Pages + Github Actions provides a convenient way to make + sites and host them on the web. +``` diff --git a/_sources/guide.md.txt b/_sources/guide.md.txt new file mode 100644 index 0000000..2334e18 --- /dev/null +++ b/_sources/guide.md.txt @@ -0,0 +1,125 @@ +# Instructor guide + + +## Why we teach this lesson + +Everyone should document their code, even if they're working alone. + +These are the main points: +- Code documentation has to be versionnable and branchable +- Code documentation should be tracked together with the source code +- README is often enough + +**Please do not skim over the two above points**. Please take few minutes to +explain why documentation (sources) should be tracked together with the source +code. Please discuss this aspect with workshop participants and connect it to +**reproducibility**. This is for me (Radovan) the most important take-home +message. + +Specific motivations: + +- Code documentation becomes quickly unmanageable if not part of the source code. +- It helps people to quickly use your code thus reducing the time spent to explain over and again to new users. +- It helps people to collaborate. +- It improves the design of your code. + + +## Intended learning outcomes + +By the end of this lesson, learners should: +- Understand the importance of writing code documentation together with the source code +- Know what makes a good documentation +- Learn what tools can be used for writing documentation +- Be able to motivate a balanced decision: sometimes READMEs are absolutely enough + + +## Timing + +As an instructor you should prepare all bullet points but do not go through +each bullet point in detail. Only highlight the main points and rather give +time for a discussion. Leave details for a later lecture for those who want to +find out more. If you go through each bullet point in detail, the motivation +can easily take up 30 minutes and you will run out of time. + +The lesson does not fit into 1.5 hours if you go through everything. Optimize +for discussions and prepare well to be able to jump over bullet points which +can be left for a later lecture. Some sections can be skipped if needed (see +below). However, we recommend to have a discussion with your learners to make +them aware of what the training material contains. + +- Do not insist on practicing Markdown or RST syntax. +- The section *Rendering (LaTeX) math equations* may be optional if your + attendees do not have to deal with equations. +- In the GitHub Pages episode, the + goal is not anymore to write code documentation but to show how to build + project website with GitHub. If time is tight, the GitHub pages episode can be + skipped or can be done as demonstration instead of exercise. + + +## Detailed schedule + +- 09:00 - 09:10 Motivation and tools + - create a wishlist in collaborative notes +- 09:10 - 09:20 Writing good README files + - brief discussion +- 09:20 - 09:40 **Exercises**: README-1, README-2, README-3 (choose one or multiple) +- 09:40 - 10:00 Sphinx and Markdown: Sphinx-1 as type along + +- 10:00 - 10:10 Break + +- 10:10 - 10:40 **Exercises**, Sphinx-2, Sphinx-3, GH-Pages-1 +- 10:40 - 11:00 Discussion, GH Pages, Summary + + +## Place this lesson towards the end of the workshop + +Reason is that with collaborative Git we can create more interesting +documentation exercises. Currently there are some elements of forking and +pushing and this is only really introduced on day two. We have tried this +lesson on day one and it felt too early and disconnected/abrupt. It works best +after the reproducibility lesson since we then reuse the example and it feels +familiar. + + +## Troubleshooting + +### Character encoding issues + +Can arise when using non-utf8 characters in `conf.py`. Diagnose this with `file -i conf.py` +and `locale`. + + +## Live better than reading the website material + +It is better to demonstrate the commands live and type-along. Ideally connecting +to examples discussed earlier. + +In online workshops most of the type-along becomes group exercise work where groups +can share screen and discuss. + + +## Field reports + +### 2022 September + +We were pressed for time (we started 5-10 minutes late, relative to +the schedule below), so we made most of the first lessons fast. In +the schedule below, note that we had the first 10 minutes for +"Motivation" *and* "Popular tools", which we didn't fully realize so +that put us even further behind. Doing these introduction +parts quickly was hard but was probably worth it since we had plenty +of time in the end. For the "tools", one person summarized the point +of each section on the page quickly. The README episode was done +quickly, we basically skipped the exercises to get to Sphinx, and this +put us back on schedule. + +For Sphinx, we did it a lot like you see in the schedule: first +exercise (the basic setup) was type-along, but it was a bit too much +to do in the 10 minutes we had allotted (we typed too fast). But, +people then had a nice long time to make it up and do everything. It +seemed to work well. The GitHub pages deployment could then be done +as a nice, slow demo, and we had plenty of time to ask questions. + +Overall, I think this was the right track, but we could have practiced +doing the first parts even faster, and warned people that we focus on +the Sphinx exercises. diff --git a/_sources/in-code-documentation.md.txt b/_sources/in-code-documentation.md.txt new file mode 100644 index 0000000..44274ad --- /dev/null +++ b/_sources/in-code-documentation.md.txt @@ -0,0 +1,184 @@ +(in-code-documentation)= + +# In-code documentation + +```{questions} +- What can I do to make my code more easily understandable? +- What information should go into comments? +- What are docstrings and what information should go into docstrings? +``` + +In this episode we will learn how to write good documentation inside your code. + + +## Exercise - Writing good comments + +````{exercise} In-code-1: Comments + Let's take a look at two example comments (comments in Python start with `#`): + + **Comment A** + ```python + # now we check if temperature is below -50 + if temperature < -50: + print("ERROR: temperature is too low") + ``` + + **Comment B** + ```python + # we regard temperatures below -50 degrees as measurement errors + if temperature < -50: + print("ERROR: temperature is too low") + ``` + Which of these comments is more useful? Can you explain why? + + ```{solution} Solution + - Comment A describes **what** happens in this piece of code. This can be + useful for somebody who has never seen Python or a program, but for somebody + who has, it can feel like a redundant commentary. + + - Comment B is probably more useful as it describes **why** this piece of code + is there, i.e. its **purpose**. + ``` +```` + + +## Sometimes version control is better than a comment + +````{admonition} Examples for code comments where Git is a better solution + **Keeping zombie code** "just in case" (rather use version control): + ```python + # do not run this code! + # if temperature > 0: + # print("It is warm") + ``` + Instead: Remove the code, you can always find it back in a previous version of your code in Git. + + **Emulating version control**: + ```python + # John Doe: threshold changed from 0 to 15 on August 5, 2013 + if temperature > 15: + print("It is warm") + ``` + Instead: You can get this information from `git log` or `git show` or `git + annotate` or similar. +```` + + +## What are "docstrings" and how can they be useful? + +Here is function `fahrenheit_to_celsius` which converts temperature in +Fahrenheit to Celsius, implemented in a couple of different languages. +Your language is missing? Please contribute an example. + +The first set of examples uses **regular comments**: +````{tabs} + ```{group-tab} Python + ```{literalinclude} code/fahrenheit_to_celsius.py + :language: python + ``` + ``` + + ```{group-tab} R + ```{literalinclude} code/fahrenheit_to_celsius.R + :language: R + ``` + ``` + + ```{group-tab} Julia + ```{literalinclude} code/fahrenheit_to_celsius.jl + :language: Julia + ``` + ``` + + ```{group-tab} Fortran + ```{literalinclude} code/fahrenheit_to_celsius.f90 + :language: fortran + ``` + ``` + + ```{group-tab} C++ + ```{literalinclude} code/fahrenheit_to_celsius.cpp + :language: C++ + ``` + ``` + + ```{group-tab} Rust + ```{literalinclude} code/fahrenheit_to_celsius.rs + :language: rust + ``` + ``` +```` + +The second set uses **docstrings or similar concepts**. Please compare the two +(above and below): +````{tabs} + ```{group-tab} Python + ```{literalinclude} code/fahrenheit_to_celsius_docstring.py + :language: python + ``` + Read more: + ``` + + ```{group-tab} R + ```{literalinclude} code/fahrenheit_to_celsius_docstring.R + :language: R + ``` + Read more: + ``` + + ```{group-tab} Julia + ```{literalinclude} code/fahrenheit_to_celsius_docstring.jl + :language: Julia + ``` + Read more: + ``` + + ```{group-tab} Fortran + ```{literalinclude} code/fahrenheit_to_celsius_docstring.f90 + :language: fortran + ``` + Read more: + ``` + + ```{group-tab} C++ + ```{literalinclude} code/fahrenheit_to_celsius_docstring.cpp + :language: C++ + ``` + Read more: + ``` + + ```{group-tab} Rust + ```{literalinclude} code/fahrenheit_to_celsius_docstring.rs + :language: rust + ``` + Read more: + ``` +```` + +Docstrings can do a bit more than just comments: +- Tools can generate help text automatically from the docstrings. +- Tools can generate documentation pages automatically from code. + +It is common to write docstrings for functions, classes, and modules. + +Good docstrings describe: +- What the function does +- What goes in (including the type of the input variables) +- What goes out (including the return type) + +**Naming is documentation**: +Giving explicit, descriptive names to your code segments (functions, classes, +variables) already provides very useful and important documentation. In +practice you will find that for simple functions it is unnecessary to add a +docstring when the function name and variable names already give enough +information. + +--- + +```{keypoints} +- Comments should describe the why for your code not the what. +- Writing docstrings can be a good way to write documentation while you type + code since it also makes it possible + to query that information from outside the code or to auto-generate + documentation pages. +``` diff --git a/_sources/index.md.txt b/_sources/index.md.txt new file mode 100644 index 0000000..916977a --- /dev/null +++ b/_sources/index.md.txt @@ -0,0 +1,77 @@ +# How to document your research software + +In this lesson we will discuss different solutions for implementing and +deploying code documentation. + +We will start with a discussion about **what makes a good README**. For many +projects, a README is more than enough. + +We will then learn how to build documentation with the +**documentation generator** [Sphinx](https://www.sphinx-doc.org) (and compare it +with others) and how to +deploy it to [Read the Docs](https://readthedocs.org), a service which hosts +open documentation for free. + +This demonstration will be **independent of programming languages**. + +We will also learn how +to deploy a **project website or personal homepage** to [GitHub Pages](https://pages.github.com). +The approach that we will learn will be transferable to +[GitLab Pages](https://about.gitlab.com/features/pages/) and +[Bitbucket Pages](https://pages.bitbucket.io). + +```{prereq} +1. Basic understanding of Git. + +2. For the Sphinx part, You need to have + [sphinx](https://www.sphinx-doc.org) and [sphinx_rtd_theme](https://sphinx-rtd-theme.readthedocs.io/) installed + (they are part of the [coderefinery environment](https://coderefinery.github.io/installation/conda-environment/)). + +3. For the [GitHub Pages](https://pages.github.com) part you need a [GitHub](https://github.com) account. +``` + +```{csv-table} +:widths: auto +:delim: ; + +10 min ; {doc}`wishlist` +10 min ; {doc}`tools` +20 min ; {doc}`in-code-documentation` +30 min ; {doc}`writing-readme-files` +30 min ; {doc}`sphinx` +20 min ; {doc}`gh_workflow` +20 min ; {doc}`gh-pages` +5 min ; {doc}`summary` +``` + +```{toctree} +:maxdepth: 1 +:caption: The lesson + +wishlist.md +tools.md +in-code-documentation.md +writing-readme-files.md +sphinx.md +gh_workflow.md +gh-pages.md +summary.md +``` + +```{toctree} +:maxdepth: 1 +:caption: Reference + +exercises.md +guide.md +license.md +``` + +```{toctree} +:maxdepth: 1 +:caption: About + +All lessons +CodeRefinery +Reusing +``` diff --git a/_sources/license.md.txt b/_sources/license.md.txt new file mode 100644 index 0000000..d261f28 --- /dev/null +++ b/_sources/license.md.txt @@ -0,0 +1,45 @@ +# Credit and license + +This material is provided by CodeRefinery under the licenses stated below. + + +## Website template + +The website template is maintained by [CodeRefinery](https://coderefinery.org/) +and rendered with [sphinx-lesson: structured lessons with Sphinx](https://coderefinery.github.io/sphinx-lesson/). + + +## Instructional material + +All CodeRefinery instructional material is made available under the +[Creative Commons Attribution license (CC-BY-4.0)](https://creativecommons.org/licenses/by/4.0/). +The following is a human-readable summary of (and not a substitute for) +the [full legal text of the CC-BY-4.0 license](https://creativecommons.org/licenses/by/4.0/legalcode). + +You are free: + +- to **Share** - copy and redistribute the material in any medium or format +- to **Adapt** - remix, transform, and build upon the material + +for any purpose, even commercially. The licensor cannot revoke these freedoms as long as you follow these license terms: + +- **Attribution** - You must give appropriate credit + (mentioning that your work is derived from work that is Copyright + (c) CodeRefinery and, where practical, linking to + , provide + a [link to the license](https://creativecommons.org/licenses/by/4.0/), + and indicate if changes were made. You may do so in any + reasonable manner, but not in any way that suggests the licensor + endorses you or your use. + +**No additional restrictions** - You may not apply legal terms or technological +measures that legally restrict others from doing anything the license permits. +With the understanding that: + +- You do not have to comply with the license for elements of the material in + the public domain or where your use is permitted by an applicable exception + or limitation. +- No warranties are given. The license may not give you all of the + permissions necessary for your intended use. For example, other + rights such as publicity, privacy, or moral rights may limit how + you use the material. diff --git a/_sources/sphinx.md.txt b/_sources/sphinx.md.txt new file mode 100644 index 0000000..f6d0b62 --- /dev/null +++ b/_sources/sphinx.md.txt @@ -0,0 +1,423 @@ +(sphinx)= + +# Sphinx and Markdown + +```{objectives} +- Understand how static site generators build websites out of plain + text files. +- Create example Sphinx documentation and learn some Markdown along the way. +``` + +We will take the first steps in creating documentation using Sphinx, and learn some +MyST flavored Markdown syntax along the way. + +```{discussion} This lesson is built with Sphinx +Try to compare the [source +code](https://raw.githubusercontent.com/coderefinery/documentation/main/content/sphinx.md) +and the result side by side. +``` + +Our goal in this episode is to build HTML pages locally on our computers. + +````{prereq} Before we start, let us verify whether we have the software we need + + You may need to activate your CodeRefinery conda environment we set up + in the installation instructions. This was covered as part of the + installation instructions, but the most usual command to do this is: + ```console + $ conda activate coderefinery + ``` + + Check whether Python is available + (you should see a version; precise version is not so important): + ```console + $ python --version + + Python 3.11.5 + ``` + + Check whether Sphinx is available + (you should see a version; precise version is not so important): + ```console + $ sphinx-build --version + + sphinx-build 5.3.0 + ``` + + Check whether the quickstart tool is available + (you should see a version; precise version is not so important): + ```console + $ sphinx-quickstart --version + + sphinx-quickstart 5.3.0 + ``` + + Check whether MyST parser is available + (you should see no output): + ```console + $ python -c "import myst_parser" + ``` + +If the above commands produce an error +(**command not found** or **module not found** or **ModuleNotFoundError**), +please follow our +[installation instructions](https://coderefinery.github.io/installation/conda-environment/). +But please don't give up if you don't have these - the episodes after this one will work even without these +tools. +```` + + +## Exercise: Sphinx quickstart + +````{exercise} Sphinx-1: Generate the basic documentation template + +Create a directory for the example documentation, step into it, and inside +generate the basic documentation template: + +```console +$ mkdir doc-example +$ cd doc-example +$ sphinx-quickstart +``` + +The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release: + +``` +> Separate source and build directories (y/n) [n]: +> Project name: +> Author name(s): +> Project release []: 0.1 +> Project language [en]: +``` + +A couple of files and directories are created: + +| File/directory | Contents | +| -------------- | -------- | +| conf.py | Documentation configuration file | +| index.rst | Main file in Sphinx | +| _build/ | Directory where docs are built (you can decide the name) | +| _templates/ | Your own HTML templates | +| _static/ | Static files (images, styles, etc.) copied to output directory on build | +| Makefile | Makefile to build documentation using make | +| make.bat | Makefile to build documentation using make (Windows) | + +`Makefile` and `make.bat` (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly. + +Let's have a look at the `index.rst` file, which is the main file of your documentation: + +```rst +.. myproject documentation master file, created by + sphinx-quickstart on Sat Sep 23 17:35:26 2023. + You can adapt this file completely to your liking, but it should at least + contain the root `toctree` directive. + +Welcome to myproject's documentation! +===================================== + +.. toctree:: + :maxdepth: 2 + :caption: Contents: + + +Indices and tables +================== + +* :ref:`genindex` +* :ref:`modindex` +* :ref:`search` +``` + +- We will not use the `Indices and tables` section now, so remove it and everything below. +- The top four lines, starting with `..`, are a comment. +- The next lines are the table of contents. We can add content below: + +```rst +.. toctree:: + :maxdepth: 2 + :caption: Contents: + + some-feature.md +``` +Note that `some-feature.md` needs to be indented to align with `:caption:`. + +We now need to tell Sphinx to use markdown files. To do this, we open +`conf.py` and replace the line: +```python +extensions = [] +``` + +with this line so that Sphinx can parse Markdown files: +```python +extensions = ['myst_parser'] +``` + +Let's create the file `some-feature.md` (in Markdown format) which we have just listed in +`index.rst` (which uses reStructured Text format). + +```md +# Some feature + +## Subsection + +Exciting documentation in here. +Let's make a list (empty surrounding lines required): + +- item 1 + + - nested item 1 + - nested item 2 + +- item 2 +- item 3 +``` + +We now build the site: + +```console +$ ls -1 + +_static +_templates +conf.py +index.rst +make.bat +Makefile +some-feature.md + +$ sphinx-build . _build + +... lots of output ... +build succeeded. + +The HTML pages are in _build. + +$ ls -1 _build + +_sources +_static +genindex.html +index.html +objects.inv +search.html +searchindex.js +some-feature.html +``` + +Now open the file `_build/index.html` in your browser. +- Linux users, type: + ```console + $ xdg-open _build/index.html + ``` +- macOS users, type: + ```console + $ open _build/index.html + ``` +- Windows users, type: + ```console + $ start _build/index.html + ``` +- If the above does not work: + Enter `file:///home/user/doc-example/_build/index.html` in your browser (adapting the path to your case). + +Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere. + +Note that you can change the styling by editing `conf.py` and changing the value `html_theme` +(for instance you can set it to `sphinx_rtd_theme` (if you have that Python package installed) +to have the Read the Docs look). +```` + + +## Exercise: Adding more Sphinx content + +`````{exercise} Sphinx-2: Add more content to your example documentation + +1. Add a entry below `some-feature.md` labeled `another-feature.md` (or a better name) to the `index.rst` file. +2. Create a file `another-feature.md` in the same directory as the `index.rst` file. +3. Add some content to `another-feature.md`, rebuild with `sphinx-build . _build`, and refresh the browser to look at the results. +4. Use the [MyST Typography](https://myst-parser.readthedocs.io/en/latest/syntax/typography.html) page as help. + +Experiment with the following Markdown syntax: + +- \*Emphasized text\* and \*\*bold text\*\* + +- Headings: +```md +# Level 1 + +## Level 2 + +### Level 3 + +#### Level 4 +``` + +- An image: `![alt text](image.png)` + +- `[A link](https://www.example.org)` + +- Numbered lists (numbers adjusted automatically): +```md +1. item 1 +2. item 2 +3. item 3 +1. item 4 +1. item 5 +``` + +- Simple tables: +```md +| No. | Prime | +| ---- | ------ | +| 1 | No | +| 2 | Yes | +| 3 | Yes | +| 4 | No | +``` + +- Code blocks: +````markdown +The following is a Python code block: +```python + def hello(): + print("Hello world") +``` + +And this is a C code block: +```c +#include +int main() +{ + printf("Hello, World!"); + return 0; +} +``` +```` + +- You could include an external file (here we assume a file called "example.py" + exists; at the same time we highlight lines 2 and 3): +````markdown +```{literalinclude} example.py +:language: python +:emphasize-lines: 2-3 +``` +```` + +- We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the + [myst-nb](https://myst-nb.readthedocs.io/) extension to be installed. +````` + + +## Exercise: Sphinx and LaTeX + +`````{exercise} Sphinx-3: Rendering (LaTeX) math equations + +Math equations should work out of the box. In some older versions, you might need +to edit `conf.py` and add `sphinx.ext.mathjax`: +```python +extensions = ['myst_parser', 'sphinx.ext.mathjax'] +``` + +Try this (result below): +````markdown +This creates an equation: +```{math} +a^2 + b^2 = c^2 +``` + +This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text. +```` + +This creates an equation: +```{math} +a^2 + b^2 = c^2 +``` + +This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text. +````` + + +## Exercise: Sphinx autodoc + +`````{exercise} (optional) Sphinx-4: Auto-generating documentation from Python docstrings + +1. Write some docstrings in functions and/or class definitions of an `example` python module: +```python +def multiply(a: float, b: float) -> float: + """ + Multiply two numbers. + + :param a: First number. + :param b: Second number. + :return: The product of a and b. + """ + return a * b +``` + +2. In the file `conf.py` modify "extensions" and add 3 lines: +```python +extensions = ['myst_parser', "sphinx.ext.autodoc"] + +autodoc2_packages = [ + "multiply.py" +] +``` + +4. List `apidocs/index` in the toctree in `index.rst`. +```rst +.. toctree:: + :maxdepth: 2 + :caption: Contents: + + some-feature.md + apidocs/index +``` + +5. Re-build the documentation and check the "API reference" section. +````` + + +## Confused about reStructuredText vs. Markdown vs. MyST? + +- At the beginning there was reStructuredText and Sphinx was built for reStructuredText. +- Independently, Markdown was invented and evolved into a couple of flavors. +- Markdown became more and more popular but was limited compared to reStructuredText. +- Later, [MyST](https://myst-parser.readthedocs.io/en/latest/syntax/typography.html) + was invented to be able to write + something that looks like Markdown but in addition can do everything that + reStructuredText can do with extra directives. + + +## Good to know + +- The `_build` directory is a generated directory + and should not be part of the Git repository. We recommend to add `_build` + to `.gitignore` to prevent you from accidentally adding files below + `_build` to the Git repository. +- [sphinx-autobuild](https://pypi.org/project/sphinx-autobuild/) + provides a local web server that will automatically refresh your view + every time you save a file - which makes writing and testing much easier. +- This is useful if you want to check the integrity of all internal and external links: + ```console + $ sphinx-build . -W -b linkcheck _build + ``` + + +## References + +- [Sphinx documentation](https://www.sphinx-doc.org/) +- [Sphinx + ReadTheDocs guide](https://sphinx-rtd-tutorial.readthedocs.io/en/latest/index.html) +- For more Markdown functionality, see the [Markdown guide](https://www.markdownguide.org/basic-syntax/). +- For Sphinx additions, see [Sphinx Markup Constructs](https://www.sphinx-doc.org/en/master/markup/index.html). +- [https://docs.python-guide.org/writing/documentation/](https://docs.python-guide.org/writing/documentation/) + +```{keypoints} +- Sphinx and Markdown is a powerful duo for writing documentation. +- Another option is to use reStructuredText, see the [Sphinx documentation](https://www.sphinx-doc.org/en/stable/rest.html) + and the [quick-reference](https://docutils.sourceforge.net/docs/user/rst/quickref.html) +- In the next episode we will learn how to deploy the documentation to a cloud service and update it + upon every `git push`. +``` diff --git a/_sources/summary.md.txt b/_sources/summary.md.txt new file mode 100644 index 0000000..4428247 --- /dev/null +++ b/_sources/summary.md.txt @@ -0,0 +1,46 @@ +# Summary + +```{questions} +- What recommendations can we take home? +``` + +--- + +## There is not the one right way: it is always a balance + + +**Jupyter notebooks can be good documentation for scripts** + +- For simple scripts and post-processing, Jupyter notebooks can form a nice + self-documenting pipeline. +- They can be a nice way to accompany a paper that analyzed some data. + + +**READMEs or Sphinx?** + +- For smaller projects READMEs can be absolutely enough. +- If the code is closed-source (and hence nobody can see the README), you + probably prefer Sphinx (or similar). +- If you need math equations, Sphinx might be a good fit. + + +**How to make sure that code changes come together with documentation changes?** + +- Make documentation part of your code review. + + +**Read the Docs or GitHub pages or both?** + +- GitHub pages typically serves one version (one branch). However, it is possible to build + several or all branches as part of a workflow. +- Read the Docs can serve several versions (several branches/tags) at the same time. +- Some projects use both. + + +**Consider making your development tutorial-driven** + +- Writing documentation is as important as writing software. +- Focus on how you use the software. +- If there is no tutorial on it, the feature "doesn't exist". +- Don't keep tutorial in sync with code, keep code in sync with tutorial - change the tutorial first. +- Read more in this [fantastic slide-deck](https://virtual.oxfordabstracts.com/#/event/public/3101/submission/11) about tutorial-driven development. diff --git a/_sources/tools.md.txt b/_sources/tools.md.txt new file mode 100644 index 0000000..cff8afd --- /dev/null +++ b/_sources/tools.md.txt @@ -0,0 +1,169 @@ +# Popular tools and solutions + +```{questions} +- What tools are out there? +- What are their pros and cons? +``` + +```{objectives} +- Choose the right tool for the right reason. +``` + +--- + +## In-code documentation + +- Comments, function docstrings, ... +- Advantages + - Good for programmers + - Version controlled alongside code + - Can be used to auto-generate documentation for functions/classes +- Disadvantage + - Probably not enough for users of the code + +We will have a closer look at this in the {ref}`in-code-documentation` episode. + +--- + +## README files + +- Advantages + - Versioned (goes with the code development) + - It is often good enough to have a `README.md` or `README.rst` along with your code/script +- If you use README files, use either + [RST](https://docutils.sourceforge.net/rst.html) or + [Markdown](https://commonmark.org/help/) +- A great guide to README files: [MakeaREADME](https://www.makeareadme.com/) + +We will have a closer look at this in the {ref}`writing-readme-files` episode. + +--- + +## reStructuredText and Markdown + +```markdown +# This is a section in Markdown This is a section in RST + ======================== + +## This is a subsection This is a subsection + -------------------- + +Nothing special needed for Nothing special needed for +a normal paragraph. a normal paragraph. + + :: + + This is a code block This is a code block + + +**Bold** and *emphasized*. **Bold** and *emphasized*. + +A list: A list: +- this is an item - this is an item +- another item - another item + +There is more: images, There is more: images, +tables, links, ... tables, links, ... +``` + +- Two of the most popular lightweight markup languages. +- reStructuredText (RST) has more features than Markdown but the choice is a matter of taste. +- There are (unfortunately) [many flavors of Markdown](https://github.com/jgm/CommonMark/wiki/Markdown-Flavors). +- Motivation to stick to a standard text-based format: **They make it easier to move the documentation to other tools + which also expect a standard format, as the project/organization grows**. +- We will use [MyST](https://myst-parser.readthedocs.io/en/latest/) + flavored Markdown in the {ref}`sphinx` episode and the + {ref}`gh-pages` example. +- Nice resource to learn Markdown: [Learn Markdown in 60 seconds](https://commonmark.org/help/) +- [Pandoc](https://pandoc.org/) can convert between MD and RST (and many other formats). + +--- + +## HTML static site generators + +There are many tools that can turn RST or Markdown into beautiful HTML pages: + +- [Sphinx](https://www.sphinx-doc.org) **← we will exercise this, this is how this lesson material is built** + - Generate HTML/PDF/LaTeX from RST and Markdown. + - Basically all Python projects use Sphinx but **Sphinx is not limited to Python**. + - [Read the docs](https://readthedocs.org) + hosts public Sphinx documentation for free! + - Also hostable anywhere else, like Github pages. + - API documentation possible. + +- [Jekyll](https://jekyllrb.com) + - Generates HTML from Markdown. + - GitHub supports this without adding extra build steps. + +- [pkgdown](https://pkgdown.r-lib.org/) + - Popular in the R community + +- [MkDocs](https://www.mkdocs.org/) +- [GitBook](https://www.gitbook.com/) +- [Hugo](https://gohugo.io) +- [Hexo](https://hexo.io) +- [Zola](https://www.getzola.org/) **<- this is what we use for our project website and workshop websites** +- There are many more ... + +GitHub, GitLab, and Bitbucket make it possible to serve HTML pages: +- [GitHub Pages](https://pages.github.com) +- [Bitbucket Pages](https://pages.bitbucket.io/) +- [GitLab Pages](https://pages.gitlab.io) + +--- + +## Wikis + +- Popular solutions (but many others exist): + - [MediaWiki](https://www.mediawiki.org) + - [Dokuwiki](https://www.dokuwiki.org) +- Advantage + - Barrier to write and edit is low +- Disadvantages + - Typically disconnected from source code repository (**reproducibility**) + - Difficult to serve multiple versions + - Difficult to check out a specific old version + - Typically needs to be hosted and maintained + +--- + +## LaTeX/PDF + +- Advantage + - Popular and familiar in the physics and mathematics community +- Disadvantages + - PDF format is not ideal for copy-pasting of examples + - Possible, but not trivial to automate rebuilding documentation after every Git push + +--- + +## Doxygen + +- Auto-generates API documentation +- Documented directly in the source code +- Popular in the C++ community +- Has support for C, Fortran, Python, Java, etc., + see [Doxygen Github Repo](https://github.com/doxygen/doxygen) +- Many keywords are understood by Doxygen: + [Doxygen special commands](https://www.doxygen.nl/manual/commands.html) +- Can be used to also generate higher-level ("human") documentation +- Can be deployed to GiHub/GitLab/Bitbucket Pages + +--- + +## Other tools + +- Fortran + - [Fortran Documenter (FORD)](https://github.com/Fortran-FOSS-Programmers/ford) + +- Julia + - [Franklin](https://franklinjl.org/): static site generator + - [Documenter.jl](https://juliadocs.github.io/Documenter.jl/stable/) + +- [Quarto](https://quarto.org/) converts markdown to websites, pdfs, ebooks and many other things + +--- + +```{keypoints} +- Some popular solutions make reproducibility and maintenance of multiple code versions difficult. +``` diff --git a/_sources/wishlist.md.txt b/_sources/wishlist.md.txt new file mode 100644 index 0000000..100748f --- /dev/null +++ b/_sources/wishlist.md.txt @@ -0,0 +1,142 @@ +# Motivation and wishlist + +## Motivation + +```{discussion} Motivation-1: Why documenting code? + +**Use the collaborative document**: +- Is project documentation important? Why? +- How would you describe a useful documentation? +- How can you motivate your colleagues to contribute to the documentation? +``` + +```{solution} Our motivation (but let us brainstorm first) + +- You will probably use your code in the future and may forget details. +- You may want others to use your code (almost impossible without documentation). +- You may want others to contribute to the code. +- Shield your limited time and let the documentation answer FAQs. +``` + + +## What do we expect from a suitably good documentation? + +```{note} Documentation comes in different forms - what *is* documentation? + + - **Tutorials**: learning-oriented, allows the newcomer to get started + - **How-to guides**: goal-oriented, shows how to solve a specific problem + - **Explanation**: understanding-oriented, explains a concept + - **Reference**: information-oriented, describes the machinery + + Read more: + - + - + - +``` + +**There is no one size fits all**: often for small projects a `README.md` or +`README.rst` can be enough (more about these formats later). + + +(checklist)= + +## Creating a checklist + +```{discussion} Motivation-2: Create a wishlist + +**Use the collaborative document**: + - Let us create a wishlist for how we would like documentation to be. + - Below are some of our ideas but please do not look at them yet. + - We are sure you will come up with ideas we did not think about. +``` + +````{solution} Our wishlist (but let us brainstorm first) + + **Versions** + + - Your code project should be versioned (version control). + - Enable reproducibility and avoid confusion: **documentation should be versioned** as well. + - Have you ever seen: *"We will soon release a new version and are updating the documentation. + Some features may not be available in the version you have downloaded."*? + + + **Documentation should be placed and tracked close to the source code** + + - Documenting **close to the source code** (e.g. subdirectory ``doc/``) minimizes barrier to contribute. + - I should not need to log in to another machine or service and jump through hoops to contribute. + - It is often good enough to have a `README.md` or `README.rst` along with your code/script. + + + **Use a standard markup language** + + ```{instructor-note} Markup + Markup is a set of human readable instructions that is used to tell the computer how a document shall be styled and structured. By using a markup language we can for example write a `*` or `-` where we want a bullet point to appear in the rendered document. + ``` + - offers formatting flexibility, enforces a basic document structure and the rendered documents can be exported to other formats (e.g. for printing). Also, the source can be read by humans without knowledge of the language in case the rendered document is unavailable. + - We suggest to use either + [reStructuredText (RST)](https://docutils.sourceforge.net/rst.html) or + [Markdown](https://daringfireball.net/projects/markdown/) markup. + - GitHub and GitLab automatically render `README.md` or `README.rst` files. + + + **Copy-paste-able** + + - PDF alone is not enough since **copy-pasting out of a PDF document can be difficult**. + - It is OK to provide a generated PDF in addition to a copy-paste-able format. + + + **Written by humans** + + - Automatically generated documentation (e.g. API documentation) is useful as + complementary documentation but it does not replace tutorials written by + humans. + + + **Installation instructions** + + - Give **step by step instructions for the basic case**. + Additional information and caveats can be linked from there. + - List requirements and dependencies (libraries, compilers, environment). + - Include instructions for how to test for correctness after installation. + + + **Make the license explicit** + + - **Include a LICENSE file** with your source code. + - Without a license, your work is under exclusive copyright by default: + others are not allowed to re-use or modify anything. + - GitHub and GitLab allows to choose a license from common license templates. + + + **Information for contributors** + + - Make it easy for others to contribute: **document how you prefer others to contribute**. + - Users of your code may be shy to contribute code. + Your **documentation provides a platform for your first contributions**. +```` + + +```{admonition} Documentation checklist + + Which items to include depends on the number of users apart from yourself. + + - Purpose + - Authors + - License + - Recommended citation + - Copy-paste-able example to get started + - Dependencies and their versions or version ranges + - Installation instructions + - Tutorials covering key functionality + - Reference documentation (e.g. API) covering all functionality + - How do you want to be asked questions (mailing list or forum or chat or issue tracker) + - Possibly a FAQ section + - Contribution guide +``` + + +```{keypoints} +- Documentation is part of the code and should be versionable. +- Documentation (sources) should be tracked with the corresponding code in the same repository. +- Use standard markup languages such as reStructuredText or Markdown. +``` diff --git a/_sources/writing-readme-files.md.txt b/_sources/writing-readme-files.md.txt new file mode 100644 index 0000000..8d587f8 --- /dev/null +++ b/_sources/writing-readme-files.md.txt @@ -0,0 +1,112 @@ +(writing-readme-files)= + +# Writing good README files + +The README file (often `README.md` or `README.rst`) is usually the first thing +users/collaborators see when visiting your GitHub repository. + +Use it to communicate important information about your project! For many +smaller or mid-size projects, this is enough documentation. It's not that hard +to make a basic one, and it's easy to expand as needed. + + +## Exercise: Have fun testing some README features + +````{exercise} Exercise README-1: Have fun testing some README features you may not have heard about + +- Test the effect of adding the following to your GitHub README ([read + more](https://docs.github.com/en/get-started/writing-on-github/getting-started-with-writing-and-formatting-on-github/basic-writing-and-formatting-syntax#alerts)): + ```markdown + > [!NOTE] + > Highlights information that users should take into account, even when skimming. + + > [!IMPORTANT] + > Crucial information necessary for users to succeed. + + > [!WARNING] + > Critical content demanding immediate user attention due to potential risks. + ``` + +- For more detailed descriptions which you don't want to show by default you + might find this useful (please try it out): + ```markdown +
+ + Short summary + + + Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod + tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, + quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo + consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse + cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non + proident, sunt in culpa qui officia deserunt mollit anim id est laborum. +
+ ``` + +- Would you like to add a badge like this one: [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)? + + Badge that links to a website (see also ): + ```markdown + [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org) + ``` + Badge without link: + ```markdown + ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue) + ``` + +- Know about other tips and tricks? Please share them (send a pull request to this lesson). +```` + + +## Exercise: Improve the README for your own project + +```{exercise} Exercise README-2: Draft or improve a README for one of your recent projects +Try to draft a brief README or review a README which you have written for one +of your projects. + +- You can do that either by screensharing and discussing or working individually. + +- Use the {ref}`checklist ` which we have discussed earlier. + +- Think about the user (**which can be a future you**) of your project, what does this user need to know to use or + contribute to the project? And how do you make your project attractive to use or contribute to? + +- (Optional): Try the [https://hemingwayapp.com/](https://hemingwayapp.com/) to analyse your README file and make your writing bold and clear. + +- Please note observations and recommendations in the collaborative notes. +``` + +--- + +## Exercise: Discuss the README of a project that you use + +```{exercise} Exercise README-3: Review and discuss a README of a project that you have used +In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README. + +- You can do that either by screensharing and discussing or working individually. + +- When discussing other people's projects please remember to be respectful and + constructive. The goal of this exercise is not to criticize other projects but + to learn from other projects and to collect the aspects that you enjoyed + finding in a README and to also collect aspects which you have searched for but + which are sometimes missing. + +- Please note observations and recommendations in the collaborative notes. +``` + +--- + +## Table of contents in README files + +- GitHub automatically generates a [table of contents for README.md files](https://docs.github.com/en/github/creating-cloning-and-archiving-repositories/about-readmes#auto-generated-table-of-contents-for-readme-files). +- On GitLab you can generate a TOC in Markdown with: + ```markdown + [[_TOC_]] + ``` +- With RST you can generate a table of contents (TOC) automatically by adding: + ```rst + .. contents:: Table of Contents + ``` diff --git a/_static/_sphinx_javascript_frameworks_compat.js b/_static/_sphinx_javascript_frameworks_compat.js new file mode 100644 index 0000000..8141580 --- /dev/null +++ b/_static/_sphinx_javascript_frameworks_compat.js @@ -0,0 +1,123 @@ +/* Compatability shim for jQuery and underscores.js. + * + * Copyright Sphinx contributors + * Released under the two clause BSD licence + */ + +/** + * small helper function to urldecode strings + * + * See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/decodeURIComponent#Decoding_query_parameters_from_a_URL + */ +jQuery.urldecode = function(x) { + if (!x) { + return x + } + return decodeURIComponent(x.replace(/\+/g, ' ')); +}; + +/** + * small helper function to urlencode strings + */ +jQuery.urlencode = encodeURIComponent; + +/** + * This function returns the parsed url parameters of the + * current request. Multiple values per key are supported, + * it will always return arrays of strings for the value parts. + */ +jQuery.getQueryParameters = function(s) { + if (typeof s === 'undefined') + s = document.location.search; + var parts = s.substr(s.indexOf('?') + 1).split('&'); + var result = {}; + for (var i = 0; i < parts.length; i++) { + var tmp = parts[i].split('=', 2); + var key = jQuery.urldecode(tmp[0]); + var value = jQuery.urldecode(tmp[1]); + if (key in result) + result[key].push(value); + else + result[key] = [value]; + } + return result; +}; + +/** + * highlight a given string on a jquery object by wrapping it in + * span elements with the given class name. + */ +jQuery.fn.highlightText = function(text, className) { + function highlight(node, addItems) { + if (node.nodeType === 3) { + var val = node.nodeValue; + var pos = val.toLowerCase().indexOf(text); + if (pos >= 0 && + !jQuery(node.parentNode).hasClass(className) && + !jQuery(node.parentNode).hasClass("nohighlight")) { + var span; + var isInSVG = jQuery(node).closest("body, svg, foreignObject").is("svg"); + if (isInSVG) { + span = document.createElementNS("http://www.w3.org/2000/svg", "tspan"); + } else { + span = document.createElement("span"); + span.className = className; + } + span.appendChild(document.createTextNode(val.substr(pos, text.length))); + node.parentNode.insertBefore(span, node.parentNode.insertBefore( + document.createTextNode(val.substr(pos + text.length)), + node.nextSibling)); + node.nodeValue = val.substr(0, pos); + if (isInSVG) { + var rect = document.createElementNS("http://www.w3.org/2000/svg", "rect"); + var bbox = node.parentElement.getBBox(); + rect.x.baseVal.value = bbox.x; + rect.y.baseVal.value = bbox.y; + rect.width.baseVal.value = bbox.width; + rect.height.baseVal.value = bbox.height; + rect.setAttribute('class', className); + addItems.push({ + "parent": node.parentNode, + "target": rect}); + } + } + } + else if (!jQuery(node).is("button, select, textarea")) { + jQuery.each(node.childNodes, function() { + highlight(this, addItems); + }); + } + } + var addItems = []; + var result = this.each(function() { + highlight(this, addItems); + }); + for (var i = 0; i < addItems.length; ++i) { + jQuery(addItems[i].parent).before(addItems[i].target); + } + return result; +}; + +/* + * backward compatibility for jQuery.browser + * This will be supported until firefox bug is fixed. + */ +if (!jQuery.browser) { + jQuery.uaMatch = function(ua) { + ua = ua.toLowerCase(); + + var match = /(chrome)[ \/]([\w.]+)/.exec(ua) || + /(webkit)[ \/]([\w.]+)/.exec(ua) || + /(opera)(?:.*version|)[ \/]([\w.]+)/.exec(ua) || + /(msie) ([\w.]+)/.exec(ua) || + ua.indexOf("compatible") < 0 && /(mozilla)(?:.*? rv:([\w.]+)|)/.exec(ua) || + []; + + return { + browser: match[ 1 ] || "", + version: match[ 2 ] || "0" + }; + }; + jQuery.browser = {}; + jQuery.browser[jQuery.uaMatch(navigator.userAgent).browser] = true; +} diff --git a/_static/basic.css b/_static/basic.css new file mode 100644 index 0000000..f316efc --- /dev/null +++ b/_static/basic.css @@ -0,0 +1,925 @@ +/* + * basic.css + * ~~~~~~~~~ + * + * Sphinx stylesheet -- basic theme. + * + * :copyright: Copyright 2007-2024 by the Sphinx team, see AUTHORS. + * :license: BSD, see LICENSE for details. + * + */ + +/* -- main layout ----------------------------------------------------------- */ + +div.clearer { + clear: both; +} + +div.section::after { + display: block; + content: ''; + clear: left; +} + +/* -- relbar ---------------------------------------------------------------- */ + +div.related { + width: 100%; + font-size: 90%; +} + +div.related h3 { + display: none; +} + +div.related ul { + margin: 0; + padding: 0 0 0 10px; + list-style: none; +} + +div.related li { + display: inline; +} + +div.related li.right { + float: right; + margin-right: 5px; +} + +/* -- sidebar --------------------------------------------------------------- */ + +div.sphinxsidebarwrapper { + padding: 10px 5px 0 10px; +} + +div.sphinxsidebar { + float: left; + width: 230px; + margin-left: -100%; + font-size: 90%; + word-wrap: break-word; + overflow-wrap : break-word; +} + +div.sphinxsidebar ul { + list-style: none; +} + +div.sphinxsidebar ul ul, +div.sphinxsidebar ul.want-points { + margin-left: 20px; + list-style: square; +} + +div.sphinxsidebar ul ul { + margin-top: 0; + margin-bottom: 0; +} + +div.sphinxsidebar form { + margin-top: 10px; +} + +div.sphinxsidebar input { + border: 1px solid #98dbcc; + font-family: sans-serif; + font-size: 1em; +} + +div.sphinxsidebar #searchbox form.search { + overflow: hidden; +} + +div.sphinxsidebar #searchbox input[type="text"] { + float: left; + width: 80%; + padding: 0.25em; + box-sizing: border-box; +} + +div.sphinxsidebar #searchbox input[type="submit"] { + float: left; + width: 20%; + border-left: none; + padding: 0.25em; + box-sizing: border-box; +} + + +img { + border: 0; + max-width: 100%; +} + +/* -- search page ----------------------------------------------------------- */ + +ul.search { + margin: 10px 0 0 20px; + padding: 0; +} + +ul.search li { + padding: 5px 0 5px 20px; + background-image: url(file.png); + background-repeat: no-repeat; + background-position: 0 7px; +} + +ul.search li a { + font-weight: bold; +} + +ul.search li p.context { + color: #888; + margin: 2px 0 0 30px; + text-align: left; +} + +ul.keywordmatches li.goodmatch a { + font-weight: bold; +} + +/* -- index page ------------------------------------------------------------ */ + +table.contentstable { + width: 90%; + margin-left: auto; + margin-right: auto; +} + +table.contentstable p.biglink { + line-height: 150%; +} + +a.biglink { + font-size: 1.3em; +} + +span.linkdescr { + font-style: italic; + padding-top: 5px; + font-size: 90%; +} + +/* -- general index --------------------------------------------------------- */ + +table.indextable { + width: 100%; +} + +table.indextable td { + text-align: left; + vertical-align: top; +} + +table.indextable ul { + margin-top: 0; + margin-bottom: 0; + list-style-type: none; +} + +table.indextable > tbody > tr > td > ul { + padding-left: 0em; +} + +table.indextable tr.pcap { + height: 10px; +} + +table.indextable tr.cap { + margin-top: 10px; + background-color: #f2f2f2; +} + +img.toggler { + margin-right: 3px; + margin-top: 3px; + cursor: pointer; +} + +div.modindex-jumpbox { + border-top: 1px solid #ddd; + border-bottom: 1px solid #ddd; + margin: 1em 0 1em 0; + padding: 0.4em; +} + +div.genindex-jumpbox { + border-top: 1px solid #ddd; + border-bottom: 1px solid #ddd; + margin: 1em 0 1em 0; + padding: 0.4em; +} + +/* -- domain module index --------------------------------------------------- */ + +table.modindextable td { + padding: 2px; + border-collapse: collapse; +} + +/* -- general body styles --------------------------------------------------- */ + +div.body { + min-width: 360px; + max-width: 800px; +} + +div.body p, div.body dd, div.body li, div.body blockquote { + -moz-hyphens: auto; + -ms-hyphens: auto; + -webkit-hyphens: auto; + hyphens: auto; +} + +a.headerlink { + visibility: hidden; +} + +a:visited { + color: #551A8B; +} + +h1:hover > a.headerlink, +h2:hover > a.headerlink, +h3:hover > a.headerlink, +h4:hover > a.headerlink, +h5:hover > a.headerlink, +h6:hover > a.headerlink, +dt:hover > a.headerlink, +caption:hover > a.headerlink, +p.caption:hover > a.headerlink, +div.code-block-caption:hover > a.headerlink { + visibility: visible; +} + +div.body p.caption { + text-align: inherit; +} + +div.body td { + text-align: left; +} + +.first { + margin-top: 0 !important; +} + +p.rubric { + margin-top: 30px; + font-weight: bold; +} + +img.align-left, figure.align-left, .figure.align-left, object.align-left { + clear: left; + float: left; + margin-right: 1em; +} + +img.align-right, figure.align-right, .figure.align-right, object.align-right { + clear: right; + float: right; + margin-left: 1em; +} + +img.align-center, figure.align-center, .figure.align-center, object.align-center { + display: block; + margin-left: auto; + margin-right: auto; +} + +img.align-default, figure.align-default, .figure.align-default { + display: block; + margin-left: auto; + margin-right: auto; +} + +.align-left { + text-align: left; +} + +.align-center { + text-align: center; +} + +.align-default { + text-align: center; +} + +.align-right { + text-align: right; +} + +/* -- sidebars -------------------------------------------------------------- */ + +div.sidebar, +aside.sidebar { + margin: 0 0 0.5em 1em; + border: 1px solid #ddb; + padding: 7px; + background-color: #ffe; + width: 40%; + float: right; + clear: right; + overflow-x: auto; +} + +p.sidebar-title { + font-weight: bold; +} + +nav.contents, +aside.topic, +div.admonition, div.topic, blockquote { + clear: left; +} + +/* -- topics ---------------------------------------------------------------- */ + +nav.contents, +aside.topic, +div.topic { + border: 1px solid #ccc; + padding: 7px; + margin: 10px 0 10px 0; +} + +p.topic-title { + font-size: 1.1em; + font-weight: bold; + margin-top: 10px; +} + +/* -- admonitions ----------------------------------------------------------- */ + +div.admonition { + margin-top: 10px; + margin-bottom: 10px; + padding: 7px; +} + +div.admonition dt { + font-weight: bold; +} + +p.admonition-title { + margin: 0px 10px 5px 0px; + font-weight: bold; +} + +div.body p.centered { + text-align: center; + margin-top: 25px; +} + +/* -- content of sidebars/topics/admonitions -------------------------------- */ + +div.sidebar > :last-child, +aside.sidebar > :last-child, +nav.contents > :last-child, +aside.topic > :last-child, +div.topic > :last-child, +div.admonition > :last-child { + margin-bottom: 0; +} + +div.sidebar::after, +aside.sidebar::after, +nav.contents::after, +aside.topic::after, +div.topic::after, +div.admonition::after, +blockquote::after { + display: block; + content: ''; + clear: both; +} + +/* -- tables ---------------------------------------------------------------- */ + +table.docutils { + margin-top: 10px; + margin-bottom: 10px; + border: 0; + border-collapse: collapse; +} + +table.align-center { + margin-left: auto; + margin-right: auto; +} + +table.align-default { + margin-left: auto; + margin-right: auto; +} + +table caption span.caption-number { + font-style: italic; +} + +table caption span.caption-text { +} + +table.docutils td, table.docutils th { + padding: 1px 8px 1px 5px; + border-top: 0; + border-left: 0; + border-right: 0; + border-bottom: 1px solid #aaa; +} + +th { + text-align: left; + padding-right: 5px; +} + +table.citation { + border-left: solid 1px gray; + margin-left: 1px; +} + +table.citation td { + border-bottom: none; +} + +th > :first-child, +td > :first-child { + margin-top: 0px; +} + +th > :last-child, +td > :last-child { + margin-bottom: 0px; +} + +/* -- figures --------------------------------------------------------------- */ + +div.figure, figure { + margin: 0.5em; + padding: 0.5em; +} + +div.figure p.caption, figcaption { + padding: 0.3em; +} + +div.figure p.caption span.caption-number, +figcaption span.caption-number { + font-style: italic; +} + +div.figure p.caption span.caption-text, +figcaption span.caption-text { +} + +/* -- field list styles ----------------------------------------------------- */ + +table.field-list td, table.field-list th { + border: 0 !important; +} + +.field-list ul { + margin: 0; + padding-left: 1em; +} + +.field-list p { + margin: 0; +} + +.field-name { + -moz-hyphens: manual; + -ms-hyphens: manual; + -webkit-hyphens: manual; + hyphens: manual; +} + +/* -- hlist styles ---------------------------------------------------------- */ + +table.hlist { + margin: 1em 0; +} + +table.hlist td { + vertical-align: top; +} + +/* -- object description styles --------------------------------------------- */ + +.sig { + font-family: 'Consolas', 'Menlo', 'DejaVu Sans Mono', 'Bitstream Vera Sans Mono', monospace; +} + +.sig-name, code.descname { + background-color: transparent; + font-weight: bold; +} + +.sig-name { + font-size: 1.1em; +} + +code.descname { + font-size: 1.2em; +} + +.sig-prename, code.descclassname { + background-color: transparent; +} + +.optional { + font-size: 1.3em; +} + +.sig-paren { + font-size: larger; +} + +.sig-param.n { + font-style: italic; +} + +/* C++ specific styling */ + +.sig-inline.c-texpr, +.sig-inline.cpp-texpr { + font-family: unset; +} + +.sig.c .k, .sig.c .kt, +.sig.cpp .k, .sig.cpp .kt { + color: #0033B3; +} + +.sig.c .m, +.sig.cpp .m { + color: #1750EB; +} + +.sig.c .s, .sig.c .sc, +.sig.cpp .s, .sig.cpp .sc { + color: #067D17; +} + + +/* -- other body styles ----------------------------------------------------- */ + +ol.arabic { + list-style: decimal; +} + +ol.loweralpha { + list-style: lower-alpha; +} + +ol.upperalpha { + list-style: upper-alpha; +} + +ol.lowerroman { + list-style: lower-roman; +} + +ol.upperroman { + list-style: upper-roman; +} + +:not(li) > ol > li:first-child > :first-child, +:not(li) > ul > li:first-child > :first-child { + margin-top: 0px; +} + +:not(li) > ol > li:last-child > :last-child, +:not(li) > ul > li:last-child > :last-child { + margin-bottom: 0px; +} + +ol.simple ol p, +ol.simple ul p, +ul.simple ol p, +ul.simple ul p { + margin-top: 0; +} + +ol.simple > li:not(:first-child) > p, +ul.simple > li:not(:first-child) > p { + margin-top: 0; +} + +ol.simple p, +ul.simple p { + margin-bottom: 0; +} + +aside.footnote > span, +div.citation > span { + float: left; +} +aside.footnote > span:last-of-type, +div.citation > span:last-of-type { + padding-right: 0.5em; +} +aside.footnote > p { + margin-left: 2em; +} +div.citation > p { + margin-left: 4em; +} +aside.footnote > p:last-of-type, +div.citation > p:last-of-type { + margin-bottom: 0em; +} +aside.footnote > p:last-of-type:after, +div.citation > p:last-of-type:after { + content: ""; + clear: both; +} + +dl.field-list { + display: grid; + grid-template-columns: fit-content(30%) auto; +} + +dl.field-list > dt { + font-weight: bold; + word-break: break-word; + padding-left: 0.5em; + padding-right: 5px; +} + +dl.field-list > dd { + padding-left: 0.5em; + margin-top: 0em; + margin-left: 0em; + margin-bottom: 0em; +} + +dl { + margin-bottom: 15px; +} + +dd > :first-child { + margin-top: 0px; +} + +dd ul, dd table { + margin-bottom: 10px; +} + +dd { + margin-top: 3px; + margin-bottom: 10px; + margin-left: 30px; +} + +.sig dd { + margin-top: 0px; + margin-bottom: 0px; +} + +.sig dl { + margin-top: 0px; + margin-bottom: 0px; +} + +dl > dd:last-child, +dl > dd:last-child > :last-child { + margin-bottom: 0; +} + +dt:target, span.highlighted { + background-color: #fbe54e; +} + +rect.highlighted { + fill: #fbe54e; +} + +dl.glossary dt { + font-weight: bold; + font-size: 1.1em; +} + +.versionmodified { + font-style: italic; +} + +.system-message { + background-color: #fda; + padding: 5px; + border: 3px solid red; +} + +.footnote:target { + background-color: #ffa; +} + +.line-block { + display: block; + margin-top: 1em; + margin-bottom: 1em; +} + +.line-block .line-block { + margin-top: 0; + margin-bottom: 0; + margin-left: 1.5em; +} + +.guilabel, .menuselection { + font-family: sans-serif; +} + +.accelerator { + text-decoration: underline; +} + +.classifier { + font-style: oblique; +} + +.classifier:before { + font-style: normal; + margin: 0 0.5em; + content: ":"; + display: inline-block; +} + +abbr, acronym { + border-bottom: dotted 1px; + cursor: help; +} + +.translated { + background-color: rgba(207, 255, 207, 0.2) +} + +.untranslated { + background-color: rgba(255, 207, 207, 0.2) +} + +/* -- code displays --------------------------------------------------------- */ + +pre { + overflow: auto; + overflow-y: hidden; /* fixes display issues on Chrome browsers */ +} + +pre, div[class*="highlight-"] { + clear: both; +} + +span.pre { + -moz-hyphens: none; + -ms-hyphens: none; + -webkit-hyphens: none; + hyphens: none; + white-space: nowrap; +} + +div[class*="highlight-"] { + margin: 1em 0; +} + +td.linenos pre { + border: 0; + background-color: transparent; + color: #aaa; +} + +table.highlighttable { + display: block; +} + +table.highlighttable tbody { + display: block; +} + +table.highlighttable tr { + display: flex; +} + +table.highlighttable td { + margin: 0; + padding: 0; +} + +table.highlighttable td.linenos { + padding-right: 0.5em; +} + +table.highlighttable td.code { + flex: 1; + overflow: hidden; +} + +.highlight .hll { + display: block; +} + +div.highlight pre, +table.highlighttable pre { + margin: 0; +} + +div.code-block-caption + div { + margin-top: 0; +} + +div.code-block-caption { + margin-top: 1em; + padding: 2px 5px; + font-size: small; +} + +div.code-block-caption code { + background-color: transparent; +} + +table.highlighttable td.linenos, +span.linenos, +div.highlight span.gp { /* gp: Generic.Prompt */ + user-select: none; + -webkit-user-select: text; /* Safari fallback only */ + -webkit-user-select: none; /* Chrome/Safari */ + -moz-user-select: none; /* Firefox */ + -ms-user-select: none; /* IE10+ */ +} + +div.code-block-caption span.caption-number { + padding: 0.1em 0.3em; + font-style: italic; +} + +div.code-block-caption span.caption-text { +} + +div.literal-block-wrapper { + margin: 1em 0; +} + +code.xref, a code { + background-color: transparent; + font-weight: bold; +} + +h1 code, h2 code, h3 code, h4 code, h5 code, h6 code { + background-color: transparent; +} + +.viewcode-link { + float: right; +} + +.viewcode-back { + float: right; + font-family: sans-serif; +} + +div.viewcode-block:target { + margin: -1px -10px; + padding: 0 10px; +} + +/* -- math display ---------------------------------------------------------- */ + +img.math { + vertical-align: middle; +} + +div.body div.math p { + text-align: center; +} + +span.eqno { + float: right; +} + +span.eqno a.headerlink { + position: absolute; + z-index: 1; +} + +div.math:hover a.headerlink { + visibility: visible; +} + +/* -- printout stylesheet --------------------------------------------------- */ + +@media print { + div.document, + div.documentwrapper, + div.bodywrapper { + margin: 0 !important; + width: 100%; + } + + div.sphinxsidebar, + div.related, + div.footer, + #top-link { + display: none; + } +} \ No newline at end of file diff --git a/_static/check-solid.svg b/_static/check-solid.svg new file mode 100644 index 0000000..92fad4b --- /dev/null +++ b/_static/check-solid.svg @@ -0,0 +1,4 @@ + + + + diff --git a/_static/clipboard.min.js b/_static/clipboard.min.js new file mode 100644 index 0000000..54b3c46 --- /dev/null +++ b/_static/clipboard.min.js @@ -0,0 +1,7 @@ +/*! + * clipboard.js v2.0.8 + * https://clipboardjs.com/ + * + * Licensed MIT © Zeno Rocha + */ +!function(t,e){"object"==typeof exports&&"object"==typeof module?module.exports=e():"function"==typeof define&&define.amd?define([],e):"object"==typeof exports?exports.ClipboardJS=e():t.ClipboardJS=e()}(this,function(){return n={686:function(t,e,n){"use strict";n.d(e,{default:function(){return o}});var e=n(279),i=n.n(e),e=n(370),u=n.n(e),e=n(817),c=n.n(e);function a(t){try{return document.execCommand(t)}catch(t){return}}var f=function(t){t=c()(t);return a("cut"),t};var l=function(t){var e,n,o,r=1 + + + + diff --git a/_static/copybutton.css b/_static/copybutton.css new file mode 100644 index 0000000..40eafe5 --- /dev/null +++ b/_static/copybutton.css @@ -0,0 +1,93 @@ +/* Copy buttons */ +button.copybtn { + position: absolute; + display: flex; + top: .3em; + right: .3em; + width: 1.7em; + height: 1.7em; + opacity: 0; + transition: opacity 0.3s, border .3s, background-color .3s; + user-select: none; + padding: 0; + border: none; + outline: none; + border-radius: 0.4em; + /* The colors that GitHub uses */ + border: #1b1f2426 1px solid; + background-color: #f6f8fa; + color: #57606a; +} + +button.copybtn.success { + border-color: #22863a; + color: #22863a; +} + +button.copybtn svg { + stroke: currentColor; + width: 1.5em; + height: 1.5em; + padding: 0.1em; +} + +div.highlight { + position: relative; +} + +.highlight:hover button.copybtn { + opacity: 1; +} + +.highlight button.copybtn:hover { + background-color: rgb(235, 235, 235); +} + +.highlight button.copybtn:active { + background-color: rgb(187, 187, 187); +} + +/** + * A minimal CSS-only tooltip copied from: + * https://codepen.io/mildrenben/pen/rVBrpK + * + * To use, write HTML like the following: + * + *

Short

+ */ + .o-tooltip--left { + position: relative; + } + + .o-tooltip--left:after { + opacity: 0; + visibility: hidden; + position: absolute; + content: attr(data-tooltip); + padding: .2em; + font-size: .8em; + left: -.2em; + background: grey; + color: white; + white-space: nowrap; + z-index: 2; + border-radius: 2px; + transform: translateX(-102%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); +} + +.o-tooltip--left:hover:after { + display: block; + opacity: 1; + visibility: visible; + transform: translateX(-100%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); + transition-delay: .5s; +} + +/* By default the copy button shouldn't show up when printing a page */ +@media print { + button.copybtn { + display: none; + } +} diff --git a/_static/copybutton.js b/_static/copybutton.js new file mode 100644 index 0000000..f3ecd03 --- /dev/null +++ b/_static/copybutton.js @@ -0,0 +1,241 @@ +// Localization support +const messages = { + 'en': { + 'copy': 'Copy', + 'copy_to_clipboard': 'Copy to clipboard', + 'copy_success': 'Copied!', + 'copy_failure': 'Failed to copy', + }, + 'es' : { + 'copy': 'Copiar', + 'copy_to_clipboard': 'Copiar al portapapeles', + 'copy_success': '¡Copiado!', + 'copy_failure': 'Error al copiar', + }, + 'de' : { + 'copy': 'Kopieren', + 'copy_to_clipboard': 'In die Zwischenablage kopieren', + 'copy_success': 'Kopiert!', + 'copy_failure': 'Fehler beim Kopieren', + }, + 'fr' : { + 'copy': 'Copier', + 'copy_to_clipboard': 'Copié dans le presse-papier', + 'copy_success': 'Copié !', + 'copy_failure': 'Échec de la copie', + }, + 'ru': { + 'copy': 'Скопировать', + 'copy_to_clipboard': 'Скопировать в буфер', + 'copy_success': 'Скопировано!', + 'copy_failure': 'Не удалось скопировать', + }, + 'zh-CN': { + 'copy': '复制', + 'copy_to_clipboard': '复制到剪贴板', + 'copy_success': '复制成功!', + 'copy_failure': '复制失败', + }, + 'it' : { + 'copy': 'Copiare', + 'copy_to_clipboard': 'Copiato negli appunti', + 'copy_success': 'Copiato!', + 'copy_failure': 'Errore durante la copia', + } +} + +let locale = 'en' +if( document.documentElement.lang !== undefined + && messages[document.documentElement.lang] !== undefined ) { + locale = document.documentElement.lang +} + +let doc_url_root = DOCUMENTATION_OPTIONS.URL_ROOT; +if (doc_url_root == '#') { + doc_url_root = ''; +} + +/** + * SVG files for our copy buttons + */ +let iconCheck = ` + ${messages[locale]['copy_success']} + + +` + +// If the user specified their own SVG use that, otherwise use the default +let iconCopy = ``; +if (!iconCopy) { + iconCopy = ` + ${messages[locale]['copy_to_clipboard']} + + + +` +} + +/** + * Set up copy/paste for code blocks + */ + +const runWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} + +const codeCellId = index => `codecell${index}` + +// Clears selected text since ClipboardJS will select the text when copying +const clearSelection = () => { + if (window.getSelection) { + window.getSelection().removeAllRanges() + } else if (document.selection) { + document.selection.empty() + } +} + +// Changes tooltip text for two seconds, then changes it back +const temporarilyChangeTooltip = (el, oldText, newText) => { + el.setAttribute('data-tooltip', newText) + el.classList.add('success') + setTimeout(() => el.setAttribute('data-tooltip', oldText), 2000) + setTimeout(() => el.classList.remove('success'), 2000) +} + +// Changes the copy button icon for two seconds, then changes it back +const temporarilyChangeIcon = (el) => { + el.innerHTML = iconCheck; + setTimeout(() => {el.innerHTML = iconCopy}, 2000) +} + +const addCopyButtonToCodeCells = () => { + // If ClipboardJS hasn't loaded, wait a bit and try again. This + // happens because we load ClipboardJS asynchronously. + if (window.ClipboardJS === undefined) { + setTimeout(addCopyButtonToCodeCells, 250) + return + } + + // Add copybuttons to all of our code cells + const COPYBUTTON_SELECTOR = 'div.highlight pre'; + const codeCells = document.querySelectorAll(COPYBUTTON_SELECTOR) + codeCells.forEach((codeCell, index) => { + const id = codeCellId(index) + codeCell.setAttribute('id', id) + + const clipboardButton = id => + `` + codeCell.insertAdjacentHTML('afterend', clipboardButton(id)) + }) + +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + promptFound = regexp.test(line) + lineGotPrompt.push(promptFound) + if (removePrompts && promptFound) { + outputLines.push(match[2]) + } else { + outputLines.push(line) + } + gotLineCont = line.endsWith(lineContinuationChar) & useLineCont + if (line.includes(hereDocDelim) & useHereDoc) + gotHereDoc = !gotHereDoc + } else if (!onlyCopyPromptLines) { + outputLines.push(line) + } else if (copyEmptyLines && line.trim() === '') { + outputLines.push(line) + } + } + + // If no lines with the prompt were found then just use original lines + if (lineGotPrompt.some(v => v === true)) { + textContent = outputLines.join('\n'); + } + + // Remove a trailing newline to avoid auto-running when pasting + if (textContent.endsWith("\n")) { + textContent = textContent.slice(0, -1) + } + return textContent +} + + +var copyTargetText = (trigger) => { + var target = document.querySelector(trigger.attributes['data-clipboard-target'].value); + + // get filtered text + let exclude = '.linenos, .gp'; + + let text = filterText(target, exclude); + return formatCopyText(text, '', false, true, true, true, '', '') +} + + // Initialize with a callback so we can modify the text before copy + const clipboard = new ClipboardJS('.copybtn', {text: copyTargetText}) + + // Update UI with error/success messages + clipboard.on('success', event => { + clearSelection() + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_success']) + temporarilyChangeIcon(event.trigger) + }) + + clipboard.on('error', event => { + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_failure']) + }) +} + +runWhenDOMLoaded(addCopyButtonToCodeCells) \ No newline at end of file diff --git a/_static/copybutton_funcs.js b/_static/copybutton_funcs.js new file mode 100644 index 0000000..dbe1aaa --- /dev/null +++ b/_static/copybutton_funcs.js @@ -0,0 +1,73 @@ +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +export function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +export function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + promptFound = regexp.test(line) + lineGotPrompt.push(promptFound) + if (removePrompts && promptFound) { + outputLines.push(match[2]) + } else { + outputLines.push(line) + } + gotLineCont = line.endsWith(lineContinuationChar) & useLineCont + if (line.includes(hereDocDelim) & useHereDoc) + gotHereDoc = !gotHereDoc + } else if (!onlyCopyPromptLines) { + outputLines.push(line) + } else if (copyEmptyLines && line.trim() === '') { + outputLines.push(line) + } + } + + // If no lines with the prompt were found then just use original lines + if (lineGotPrompt.some(v => v === true)) { + textContent = outputLines.join('\n'); + } + + // Remove a trailing newline to avoid auto-running when pasting + if (textContent.endsWith("\n")) { + textContent = textContent.slice(0, -1) + } + return textContent +} diff --git a/_static/css/badge_only.css b/_static/css/badge_only.css new file mode 100644 index 0000000..c718cee --- /dev/null +++ b/_static/css/badge_only.css @@ -0,0 +1 @@ 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+ border-left-width: medium; + border-radius: var(--mystnb-source-border-radius); +} + +div.cell_input>div, +div.cell_output div.output>div.highlight { + margin: 0em !important; + border: none !important; +} + +/* All cell outputs */ +.cell_output { + padding-left: 1em; + padding-right: 0em; + margin-top: 1em; +} + +/* Text outputs from cells */ +.cell_output .output.text_plain, +.cell_output .output.traceback, +.cell_output .output.stream, +.cell_output .output.stderr { + margin-top: 1em; + margin-bottom: 0em; + box-shadow: none; +} + +.cell_output .output.text_plain, +.cell_output .output.stream { + background: var(--mystnb-stdout-bg-color); + border: 1px solid var(--mystnb-stdout-border-color); +} + +.cell_output .output.stderr { + background: var(--mystnb-stderr-bg-color); + border: 1px solid var(--mystnb-stderr-border-color); +} + +.cell_output .output.traceback { + background: var(--mystnb-traceback-bg-color); + border: 1px solid var(--mystnb-traceback-border-color); +} + +/* Collapsible cell content */ +div.cell details.above-input div.cell_input { + border-top-left-radius: 0; 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Pulled from the Jupyter / nbsphinx CSS */ +div.cell_output table { + border: none; + border-collapse: collapse; + border-spacing: 0; + color: black; + font-size: 1em; + table-layout: fixed; +} + +div.cell_output thead { + border-bottom: 1px solid black; + vertical-align: bottom; +} + +div.cell_output tr, +div.cell_output th, +div.cell_output td { + text-align: right; + vertical-align: middle; + padding: 0.5em 0.5em; + line-height: normal; + white-space: normal; + max-width: none; + border: none; +} + +div.cell_output th { + font-weight: bold; +} + +div.cell_output tbody tr:nth-child(odd) { + background: #f5f5f5; +} + +div.cell_output tbody tr:hover { + background: rgba(66, 165, 245, 0.2); +} + +/** source code line numbers **/ +span.linenos { + opacity: 0.5; +} + +/* Inline text from `paste` operation */ + +span.pasted-text { + font-weight: bold; +} + +span.pasted-inline img { + max-height: 2em; +} + +tbody span.pasted-inline img { + max-height: none; +} + +/* Font colors for 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+} + +div.highlight .-Color[class*=-C41] { + color: #00D75F +} + +div.highlight .-Color[class*=-BGC41] { + background-color: #00D75F +} + +div.highlight .-Color[class*=-C42] { + color: #00D787 +} + +div.highlight .-Color[class*=-BGC42] { + background-color: #00D787 +} + +div.highlight .-Color[class*=-C43] { + color: #00D7AF +} + +div.highlight .-Color[class*=-BGC43] { + background-color: #00D7AF +} + +div.highlight .-Color[class*=-C44] { + color: #00D7D7 +} + +div.highlight .-Color[class*=-BGC44] { + background-color: #00D7D7 +} + +div.highlight .-Color[class*=-C45] { + color: #00D7FF +} + +div.highlight .-Color[class*=-BGC45] { + background-color: #00D7FF +} + +div.highlight .-Color[class*=-C46] { + color: #00FF00 +} + +div.highlight .-Color[class*=-BGC46] { + background-color: #00FF00 +} + +div.highlight .-Color[class*=-C47] { + color: #00FF5F +} + +div.highlight .-Color[class*=-BGC47] { + background-color: #00FF5F +} + +div.highlight .-Color[class*=-C48] { + color: #00FF87 +} + 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+} + +div.highlight .-Color[class*=-C56] { + color: #5F00D7 +} + +div.highlight .-Color[class*=-BGC56] { + background-color: #5F00D7 +} + +div.highlight .-Color[class*=-C57] { + color: #5F00FF +} + +div.highlight .-Color[class*=-BGC57] { + background-color: #5F00FF +} + +div.highlight .-Color[class*=-C58] { + color: #5F5F00 +} + +div.highlight .-Color[class*=-BGC58] { + background-color: #5F5F00 +} + +div.highlight .-Color[class*=-C59] { + color: #5F5F5F +} + +div.highlight .-Color[class*=-BGC59] { + background-color: #5F5F5F +} + +div.highlight .-Color[class*=-C60] { + color: #5F5F87 +} + +div.highlight .-Color[class*=-BGC60] { + background-color: #5F5F87 +} + +div.highlight .-Color[class*=-C61] { + color: #5F5FAF +} + +div.highlight .-Color[class*=-BGC61] { + background-color: #5F5FAF +} + +div.highlight .-Color[class*=-C62] { + color: #5F5FD7 +} + +div.highlight .-Color[class*=-BGC62] { + background-color: #5F5FD7 +} + +div.highlight .-Color[class*=-C63] { + color: #5F5FFF +} + 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+} + +div.highlight .-Color[class*=-C71] { + color: #5FAF5F +} + +div.highlight .-Color[class*=-BGC71] { + background-color: #5FAF5F +} + +div.highlight .-Color[class*=-C72] { + color: #5FAF87 +} + +div.highlight .-Color[class*=-BGC72] { + background-color: #5FAF87 +} + +div.highlight .-Color[class*=-C73] { + color: #5FAFAF +} + +div.highlight .-Color[class*=-BGC73] { + background-color: #5FAFAF +} + +div.highlight .-Color[class*=-C74] { + color: #5FAFD7 +} + +div.highlight .-Color[class*=-BGC74] { + background-color: #5FAFD7 +} + +div.highlight .-Color[class*=-C75] { + color: #5FAFFF +} + +div.highlight .-Color[class*=-BGC75] { + background-color: #5FAFFF +} + +div.highlight .-Color[class*=-C76] { + color: #5FD700 +} + +div.highlight .-Color[class*=-BGC76] { + background-color: #5FD700 +} + +div.highlight .-Color[class*=-C77] { + color: #5FD75F +} + +div.highlight .-Color[class*=-BGC77] { + background-color: #5FD75F +} + +div.highlight .-Color[class*=-C78] { + color: #5FD787 +} + +div.highlight .-Color[class*=-BGC78] { + background-color: #5FD787 +} + +div.highlight .-Color[class*=-C79] { + color: #5FD7AF +} + +div.highlight .-Color[class*=-BGC79] { + background-color: #5FD7AF +} + +div.highlight .-Color[class*=-C80] { + color: #5FD7D7 +} + +div.highlight .-Color[class*=-BGC80] { + background-color: #5FD7D7 +} + +div.highlight .-Color[class*=-C81] { + color: #5FD7FF +} + +div.highlight .-Color[class*=-BGC81] { + background-color: #5FD7FF +} + +div.highlight .-Color[class*=-C82] { + color: #5FFF00 +} + +div.highlight .-Color[class*=-BGC82] { + background-color: #5FFF00 +} + +div.highlight .-Color[class*=-C83] { + color: #5FFF5F +} + +div.highlight .-Color[class*=-BGC83] { + background-color: #5FFF5F +} + +div.highlight .-Color[class*=-C84] { + color: #5FFF87 +} + +div.highlight .-Color[class*=-BGC84] { + background-color: #5FFF87 +} + +div.highlight .-Color[class*=-C85] { + color: #5FFFAF +} + +div.highlight .-Color[class*=-BGC85] { + background-color: #5FFFAF +} + +div.highlight .-Color[class*=-C86] { + color: #5FFFD7 +} + +div.highlight .-Color[class*=-BGC86] { + background-color: #5FFFD7 +} + +div.highlight .-Color[class*=-C87] { + color: #5FFFFF +} + +div.highlight .-Color[class*=-BGC87] { + background-color: #5FFFFF +} + +div.highlight .-Color[class*=-C88] { + color: #870000 +} + +div.highlight .-Color[class*=-BGC88] { + background-color: #870000 +} + +div.highlight .-Color[class*=-C89] { + color: #87005F +} + +div.highlight .-Color[class*=-BGC89] { + background-color: #87005F +} + +div.highlight .-Color[class*=-C90] { + color: #870087 +} + +div.highlight .-Color[class*=-BGC90] { + background-color: #870087 +} + +div.highlight .-Color[class*=-C91] { + color: #8700AF +} + +div.highlight .-Color[class*=-BGC91] { + background-color: #8700AF +} + +div.highlight .-Color[class*=-C92] { + color: #8700D7 +} + +div.highlight .-Color[class*=-BGC92] { + background-color: #8700D7 +} + +div.highlight .-Color[class*=-C93] { + color: #8700FF +} + +div.highlight .-Color[class*=-BGC93] { + background-color: #8700FF +} + +div.highlight .-Color[class*=-C94] { + color: #875F00 +} + +div.highlight .-Color[class*=-BGC94] { + background-color: #875F00 +} + +div.highlight .-Color[class*=-C95] { + color: #875F5F +} + +div.highlight .-Color[class*=-BGC95] { + background-color: #875F5F +} + +div.highlight .-Color[class*=-C96] { + color: #875F87 +} + +div.highlight .-Color[class*=-BGC96] { + background-color: #875F87 +} + +div.highlight .-Color[class*=-C97] { + color: #875FAF +} + +div.highlight .-Color[class*=-BGC97] { + background-color: #875FAF +} + +div.highlight .-Color[class*=-C98] { + color: #875FD7 +} + +div.highlight .-Color[class*=-BGC98] { + background-color: #875FD7 +} + +div.highlight .-Color[class*=-C99] { + color: #875FFF +} + +div.highlight .-Color[class*=-BGC99] { + background-color: #875FFF +} + +div.highlight .-Color[class*=-C100] { + color: #878700 +} + +div.highlight .-Color[class*=-BGC100] { + background-color: #878700 +} + +div.highlight .-Color[class*=-C101] { + color: #87875F +} + +div.highlight .-Color[class*=-BGC101] { + background-color: #87875F +} + +div.highlight .-Color[class*=-C102] { + color: #878787 +} + +div.highlight .-Color[class*=-BGC102] { + background-color: #878787 +} + +div.highlight .-Color[class*=-C103] { + color: #8787AF +} + +div.highlight .-Color[class*=-BGC103] { + background-color: #8787AF +} + +div.highlight .-Color[class*=-C104] { + color: #8787D7 +} + +div.highlight .-Color[class*=-BGC104] { + background-color: #8787D7 +} + +div.highlight .-Color[class*=-C105] { + color: #8787FF +} + +div.highlight .-Color[class*=-BGC105] { + background-color: #8787FF +} + +div.highlight .-Color[class*=-C106] { + color: #87AF00 +} + +div.highlight .-Color[class*=-BGC106] { + background-color: #87AF00 +} + +div.highlight .-Color[class*=-C107] { + color: #87AF5F +} + +div.highlight .-Color[class*=-BGC107] { + background-color: #87AF5F +} + +div.highlight .-Color[class*=-C108] { + color: #87AF87 +} + +div.highlight .-Color[class*=-BGC108] { + background-color: #87AF87 +} + +div.highlight .-Color[class*=-C109] { + color: #87AFAF +} + +div.highlight .-Color[class*=-BGC109] { + background-color: #87AFAF +} + +div.highlight .-Color[class*=-C110] { + color: #87AFD7 +} + +div.highlight .-Color[class*=-BGC110] { + background-color: #87AFD7 +} + +div.highlight .-Color[class*=-C111] { + color: #87AFFF +} + +div.highlight .-Color[class*=-BGC111] { + background-color: #87AFFF +} + +div.highlight .-Color[class*=-C112] { + color: #87D700 +} + +div.highlight .-Color[class*=-BGC112] { + background-color: #87D700 +} + +div.highlight .-Color[class*=-C113] { + color: #87D75F +} + +div.highlight .-Color[class*=-BGC113] { + background-color: #87D75F +} + +div.highlight .-Color[class*=-C114] { + color: #87D787 +} + +div.highlight .-Color[class*=-BGC114] { + background-color: #87D787 +} + +div.highlight .-Color[class*=-C115] { + color: #87D7AF +} + +div.highlight .-Color[class*=-BGC115] { + background-color: #87D7AF +} + +div.highlight .-Color[class*=-C116] { + color: #87D7D7 +} + +div.highlight .-Color[class*=-BGC116] { + background-color: #87D7D7 +} + +div.highlight .-Color[class*=-C117] { + color: #87D7FF +} + +div.highlight .-Color[class*=-BGC117] { + background-color: #87D7FF +} + +div.highlight .-Color[class*=-C118] { + color: #87FF00 +} + +div.highlight .-Color[class*=-BGC118] { + background-color: #87FF00 +} + +div.highlight .-Color[class*=-C119] { + color: #87FF5F +} + +div.highlight .-Color[class*=-BGC119] { + background-color: #87FF5F +} + +div.highlight .-Color[class*=-C120] { + color: #87FF87 +} + +div.highlight .-Color[class*=-BGC120] { + background-color: #87FF87 +} + +div.highlight .-Color[class*=-C121] { + color: #87FFAF +} + +div.highlight .-Color[class*=-BGC121] { + background-color: #87FFAF +} + +div.highlight .-Color[class*=-C122] { + color: #87FFD7 +} + +div.highlight .-Color[class*=-BGC122] { + background-color: #87FFD7 +} + +div.highlight .-Color[class*=-C123] { + color: #87FFFF +} + +div.highlight .-Color[class*=-BGC123] { + background-color: #87FFFF +} + +div.highlight .-Color[class*=-C124] { + color: #AF0000 +} + +div.highlight .-Color[class*=-BGC124] { + background-color: #AF0000 +} + +div.highlight .-Color[class*=-C125] { + color: #AF005F +} + +div.highlight .-Color[class*=-BGC125] { + background-color: #AF005F +} + +div.highlight .-Color[class*=-C126] { + color: #AF0087 +} + +div.highlight .-Color[class*=-BGC126] { + background-color: #AF0087 +} + +div.highlight .-Color[class*=-C127] { + color: #AF00AF +} + +div.highlight .-Color[class*=-BGC127] { + background-color: #AF00AF +} + +div.highlight .-Color[class*=-C128] { + color: #AF00D7 +} + +div.highlight .-Color[class*=-BGC128] { + background-color: #AF00D7 +} + +div.highlight .-Color[class*=-C129] { + color: #AF00FF +} + +div.highlight .-Color[class*=-BGC129] { + background-color: #AF00FF +} + +div.highlight .-Color[class*=-C130] { + color: #AF5F00 +} + +div.highlight .-Color[class*=-BGC130] { + background-color: #AF5F00 +} + +div.highlight .-Color[class*=-C131] { + color: #AF5F5F +} + +div.highlight .-Color[class*=-BGC131] { + background-color: #AF5F5F +} + +div.highlight .-Color[class*=-C132] { + color: #AF5F87 +} + +div.highlight .-Color[class*=-BGC132] { + background-color: #AF5F87 +} + +div.highlight .-Color[class*=-C133] { + color: #AF5FAF +} + +div.highlight .-Color[class*=-BGC133] { + background-color: #AF5FAF +} + +div.highlight .-Color[class*=-C134] { + color: #AF5FD7 +} + +div.highlight .-Color[class*=-BGC134] { + background-color: #AF5FD7 +} + +div.highlight .-Color[class*=-C135] { + color: #AF5FFF +} + +div.highlight .-Color[class*=-BGC135] { + background-color: #AF5FFF +} + +div.highlight .-Color[class*=-C136] { + color: #AF8700 +} + +div.highlight .-Color[class*=-BGC136] { + background-color: #AF8700 +} + +div.highlight .-Color[class*=-C137] { + color: #AF875F +} + +div.highlight .-Color[class*=-BGC137] { + background-color: #AF875F +} + +div.highlight .-Color[class*=-C138] { + color: #AF8787 +} + +div.highlight .-Color[class*=-BGC138] { + background-color: #AF8787 +} + +div.highlight .-Color[class*=-C139] { + color: #AF87AF +} + +div.highlight .-Color[class*=-BGC139] { + background-color: #AF87AF +} + +div.highlight .-Color[class*=-C140] { + color: #AF87D7 +} + +div.highlight .-Color[class*=-BGC140] { + background-color: #AF87D7 +} + +div.highlight .-Color[class*=-C141] { + color: #AF87FF +} + +div.highlight .-Color[class*=-BGC141] { + background-color: #AF87FF +} + +div.highlight .-Color[class*=-C142] { + color: #AFAF00 +} + +div.highlight .-Color[class*=-BGC142] { + background-color: #AFAF00 +} + +div.highlight .-Color[class*=-C143] { + color: #AFAF5F +} + +div.highlight .-Color[class*=-BGC143] { + background-color: #AFAF5F +} + +div.highlight .-Color[class*=-C144] { + color: #AFAF87 +} + +div.highlight .-Color[class*=-BGC144] { + background-color: #AFAF87 +} + +div.highlight .-Color[class*=-C145] { + color: #AFAFAF +} + +div.highlight .-Color[class*=-BGC145] { + background-color: #AFAFAF +} + +div.highlight .-Color[class*=-C146] { + color: #AFAFD7 +} + +div.highlight .-Color[class*=-BGC146] { + background-color: #AFAFD7 +} + +div.highlight .-Color[class*=-C147] { + color: #AFAFFF +} + +div.highlight .-Color[class*=-BGC147] { + background-color: #AFAFFF +} + +div.highlight .-Color[class*=-C148] { + color: #AFD700 +} + +div.highlight .-Color[class*=-BGC148] { + background-color: #AFD700 +} + +div.highlight .-Color[class*=-C149] { + color: #AFD75F +} + +div.highlight .-Color[class*=-BGC149] { + background-color: #AFD75F +} + +div.highlight .-Color[class*=-C150] { + color: #AFD787 +} + +div.highlight .-Color[class*=-BGC150] { + background-color: #AFD787 +} + +div.highlight .-Color[class*=-C151] { + color: #AFD7AF +} + +div.highlight .-Color[class*=-BGC151] { + background-color: #AFD7AF +} + +div.highlight .-Color[class*=-C152] { + color: #AFD7D7 +} + +div.highlight .-Color[class*=-BGC152] { + background-color: #AFD7D7 +} + +div.highlight .-Color[class*=-C153] { + color: #AFD7FF +} + +div.highlight .-Color[class*=-BGC153] { + background-color: #AFD7FF +} + +div.highlight .-Color[class*=-C154] { + color: #AFFF00 +} + +div.highlight .-Color[class*=-BGC154] { + background-color: #AFFF00 +} + +div.highlight .-Color[class*=-C155] { + color: #AFFF5F +} + +div.highlight .-Color[class*=-BGC155] { + background-color: #AFFF5F +} + +div.highlight .-Color[class*=-C156] { + color: #AFFF87 +} + +div.highlight .-Color[class*=-BGC156] { + background-color: #AFFF87 +} + +div.highlight .-Color[class*=-C157] { + color: #AFFFAF +} + +div.highlight .-Color[class*=-BGC157] { + background-color: #AFFFAF +} + +div.highlight .-Color[class*=-C158] { + color: #AFFFD7 +} + +div.highlight .-Color[class*=-BGC158] { + background-color: #AFFFD7 +} + +div.highlight .-Color[class*=-C159] { + color: #AFFFFF +} + +div.highlight .-Color[class*=-BGC159] { + background-color: #AFFFFF +} + +div.highlight .-Color[class*=-C160] { + color: #D70000 +} + +div.highlight .-Color[class*=-BGC160] { + background-color: #D70000 +} + +div.highlight .-Color[class*=-C161] { + color: #D7005F +} + +div.highlight .-Color[class*=-BGC161] { + background-color: #D7005F +} + +div.highlight .-Color[class*=-C162] { + color: #D70087 +} + +div.highlight .-Color[class*=-BGC162] { + background-color: #D70087 +} + +div.highlight .-Color[class*=-C163] { + color: #D700AF +} + +div.highlight .-Color[class*=-BGC163] { + background-color: #D700AF +} + +div.highlight .-Color[class*=-C164] { + color: #D700D7 +} + +div.highlight .-Color[class*=-BGC164] { + background-color: #D700D7 +} + +div.highlight .-Color[class*=-C165] { + color: #D700FF +} + +div.highlight .-Color[class*=-BGC165] { + background-color: #D700FF +} + +div.highlight .-Color[class*=-C166] { + color: #D75F00 +} + +div.highlight .-Color[class*=-BGC166] { + background-color: #D75F00 +} + +div.highlight .-Color[class*=-C167] { + color: #D75F5F +} + +div.highlight .-Color[class*=-BGC167] { + background-color: #D75F5F +} + +div.highlight .-Color[class*=-C168] { + color: #D75F87 +} + +div.highlight .-Color[class*=-BGC168] { + background-color: #D75F87 +} + +div.highlight .-Color[class*=-C169] { + color: #D75FAF +} + +div.highlight .-Color[class*=-BGC169] { + background-color: #D75FAF +} + +div.highlight .-Color[class*=-C170] { + color: #D75FD7 +} + +div.highlight .-Color[class*=-BGC170] { + background-color: #D75FD7 +} + +div.highlight .-Color[class*=-C171] { + color: #D75FFF +} + +div.highlight .-Color[class*=-BGC171] { + background-color: #D75FFF +} + +div.highlight .-Color[class*=-C172] { + color: #D78700 +} + +div.highlight .-Color[class*=-BGC172] { + background-color: #D78700 +} + +div.highlight .-Color[class*=-C173] { + color: #D7875F +} + +div.highlight .-Color[class*=-BGC173] { + background-color: #D7875F +} + +div.highlight .-Color[class*=-C174] { + color: #D78787 +} + +div.highlight .-Color[class*=-BGC174] { + background-color: #D78787 +} + +div.highlight .-Color[class*=-C175] { + color: #D787AF +} + +div.highlight .-Color[class*=-BGC175] { + background-color: #D787AF +} + +div.highlight .-Color[class*=-C176] { + color: #D787D7 +} + +div.highlight .-Color[class*=-BGC176] { + background-color: #D787D7 +} + +div.highlight .-Color[class*=-C177] { + color: #D787FF +} + +div.highlight .-Color[class*=-BGC177] { + background-color: #D787FF +} + +div.highlight .-Color[class*=-C178] { + color: #D7AF00 +} + +div.highlight .-Color[class*=-BGC178] { + background-color: #D7AF00 +} + +div.highlight .-Color[class*=-C179] { + color: #D7AF5F +} + +div.highlight .-Color[class*=-BGC179] { + background-color: #D7AF5F +} + +div.highlight .-Color[class*=-C180] { + color: #D7AF87 +} + +div.highlight .-Color[class*=-BGC180] { + background-color: #D7AF87 +} + +div.highlight .-Color[class*=-C181] { + color: #D7AFAF +} + +div.highlight .-Color[class*=-BGC181] { + background-color: #D7AFAF +} + +div.highlight .-Color[class*=-C182] { + color: #D7AFD7 +} + +div.highlight .-Color[class*=-BGC182] { + background-color: #D7AFD7 +} + +div.highlight .-Color[class*=-C183] { + color: #D7AFFF +} + +div.highlight .-Color[class*=-BGC183] { + background-color: #D7AFFF +} + +div.highlight .-Color[class*=-C184] { + color: #D7D700 +} + +div.highlight .-Color[class*=-BGC184] { + background-color: #D7D700 +} + +div.highlight .-Color[class*=-C185] { + color: #D7D75F +} + +div.highlight .-Color[class*=-BGC185] { + background-color: #D7D75F +} + +div.highlight .-Color[class*=-C186] { + color: #D7D787 +} + +div.highlight .-Color[class*=-BGC186] { + background-color: #D7D787 +} + +div.highlight .-Color[class*=-C187] { + color: #D7D7AF +} + +div.highlight .-Color[class*=-BGC187] { + background-color: #D7D7AF +} + +div.highlight .-Color[class*=-C188] { + color: #D7D7D7 +} + +div.highlight .-Color[class*=-BGC188] { + background-color: #D7D7D7 +} + +div.highlight .-Color[class*=-C189] { + color: #D7D7FF +} + +div.highlight .-Color[class*=-BGC189] { + background-color: #D7D7FF +} + +div.highlight .-Color[class*=-C190] { + color: #D7FF00 +} + +div.highlight .-Color[class*=-BGC190] { + background-color: #D7FF00 +} + +div.highlight .-Color[class*=-C191] { + color: #D7FF5F +} + +div.highlight .-Color[class*=-BGC191] { + background-color: #D7FF5F +} + +div.highlight .-Color[class*=-C192] { + color: #D7FF87 +} + +div.highlight .-Color[class*=-BGC192] { + background-color: #D7FF87 +} + +div.highlight .-Color[class*=-C193] { + color: #D7FFAF +} + +div.highlight .-Color[class*=-BGC193] { + background-color: #D7FFAF +} + +div.highlight .-Color[class*=-C194] { + color: #D7FFD7 +} + +div.highlight .-Color[class*=-BGC194] { + background-color: #D7FFD7 +} + +div.highlight .-Color[class*=-C195] { + color: #D7FFFF +} + +div.highlight .-Color[class*=-BGC195] { + background-color: #D7FFFF +} + +div.highlight .-Color[class*=-C196] { + color: #FF0000 +} + +div.highlight .-Color[class*=-BGC196] { + background-color: #FF0000 +} + +div.highlight .-Color[class*=-C197] { + color: #FF005F +} + +div.highlight .-Color[class*=-BGC197] { + background-color: #FF005F +} + +div.highlight .-Color[class*=-C198] { + color: #FF0087 +} + +div.highlight .-Color[class*=-BGC198] { + background-color: #FF0087 +} + +div.highlight .-Color[class*=-C199] { + color: #FF00AF +} + +div.highlight .-Color[class*=-BGC199] { + background-color: #FF00AF +} + +div.highlight .-Color[class*=-C200] { + color: #FF00D7 +} + +div.highlight .-Color[class*=-BGC200] { + background-color: #FF00D7 +} + +div.highlight .-Color[class*=-C201] { + color: #FF00FF +} + +div.highlight .-Color[class*=-BGC201] { + background-color: #FF00FF +} + +div.highlight .-Color[class*=-C202] { + color: #FF5F00 +} + +div.highlight .-Color[class*=-BGC202] { + background-color: #FF5F00 +} + +div.highlight .-Color[class*=-C203] { + color: #FF5F5F +} + +div.highlight .-Color[class*=-BGC203] { + background-color: #FF5F5F +} + +div.highlight .-Color[class*=-C204] { + color: #FF5F87 +} + +div.highlight .-Color[class*=-BGC204] { + background-color: #FF5F87 +} + +div.highlight .-Color[class*=-C205] { + color: #FF5FAF +} + +div.highlight .-Color[class*=-BGC205] { + background-color: #FF5FAF +} + +div.highlight .-Color[class*=-C206] { + color: #FF5FD7 +} + +div.highlight .-Color[class*=-BGC206] { + background-color: #FF5FD7 +} + +div.highlight .-Color[class*=-C207] { + color: #FF5FFF +} + +div.highlight .-Color[class*=-BGC207] { + background-color: #FF5FFF +} + +div.highlight .-Color[class*=-C208] { + color: #FF8700 +} + +div.highlight .-Color[class*=-BGC208] { + background-color: #FF8700 +} + +div.highlight .-Color[class*=-C209] { + color: #FF875F +} + +div.highlight .-Color[class*=-BGC209] { + background-color: #FF875F +} + +div.highlight .-Color[class*=-C210] { + color: #FF8787 +} + +div.highlight .-Color[class*=-BGC210] { + background-color: #FF8787 +} + +div.highlight 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score for each result + // The function takes a result array [docname, title, anchor, descr, score, filename] + // and returns the new score. + /* + score: result => { + const [docname, title, anchor, descr, score, filename] = result + return score + }, + */ + + // query matches the full name of an object + objNameMatch: 11, + // or matches in the last dotted part of the object name + objPartialMatch: 6, + // Additive scores depending on the priority of the object + objPrio: { + 0: 15, // used to be importantResults + 1: 5, // used to be objectResults + 2: -5, // used to be unimportantResults + }, + // Used when the priority is not in the mapping. + objPrioDefault: 0, + + // query found in title + title: 15, + partialTitle: 7, + // query found in terms + term: 5, + partialTerm: 2, + }; +} + +const _removeChildren = (element) => { + while (element && element.lastChild) element.removeChild(element.lastChild); +}; + +/** + * See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Guide/Regular_Expressions#escaping + */ +const _escapeRegExp = (string) => + string.replace(/[.*+\-?^${}()|[\]\\]/g, "\\$&"); // $& means the whole matched string + +const _displayItem = (item, searchTerms, highlightTerms) => { + const docBuilder = DOCUMENTATION_OPTIONS.BUILDER; + const docFileSuffix = DOCUMENTATION_OPTIONS.FILE_SUFFIX; + const docLinkSuffix = DOCUMENTATION_OPTIONS.LINK_SUFFIX; + const showSearchSummary = DOCUMENTATION_OPTIONS.SHOW_SEARCH_SUMMARY; + const contentRoot = document.documentElement.dataset.content_root; + + const [docName, title, anchor, descr, score, _filename] = item; + + let listItem = document.createElement("li"); + let requestUrl; + let linkUrl; + if (docBuilder === "dirhtml") { + // dirhtml builder + let dirname = docName + "/"; + if (dirname.match(/\/index\/$/)) + dirname = dirname.substring(0, dirname.length - 6); + else if (dirname === "index/") dirname = ""; + requestUrl = contentRoot + dirname; + linkUrl = requestUrl; + } else { + // normal html builders + requestUrl = contentRoot + docName + docFileSuffix; + linkUrl = docName + docLinkSuffix; + } + let linkEl = listItem.appendChild(document.createElement("a")); + linkEl.href = linkUrl + anchor; + linkEl.dataset.score = score; + linkEl.innerHTML = title; + if (descr) { + listItem.appendChild(document.createElement("span")).innerHTML = + " (" + descr + ")"; + // highlight search terms in the description + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + } + else if (showSearchSummary) + fetch(requestUrl) + .then((responseData) => responseData.text()) + .then((data) => { + if (data) + listItem.appendChild( + Search.makeSearchSummary(data, searchTerms, anchor) + ); + // highlight search terms in the summary + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + }); + Search.output.appendChild(listItem); +}; +const _finishSearch = (resultCount) => { + Search.stopPulse(); + Search.title.innerText = _("Search Results"); + if (!resultCount) + Search.status.innerText = Documentation.gettext( + "Your search did not match any documents. Please make sure that all words are spelled correctly and that you've selected enough categories." + ); + else + Search.status.innerText = _( + "Search finished, found ${resultCount} page(s) matching the search query." + ).replace('${resultCount}', resultCount); +}; +const _displayNextItem = ( + results, + resultCount, + searchTerms, + highlightTerms, +) => { + // results left, load the summary and display it + // this is intended to be dynamic (don't sub resultsCount) + if (results.length) { + _displayItem(results.pop(), searchTerms, highlightTerms); + setTimeout( + () => _displayNextItem(results, resultCount, searchTerms, highlightTerms), + 5 + ); + } + // search finished, update title and status message + else _finishSearch(resultCount); +}; +// Helper function used by query() to order search results. +// Each input is an array of [docname, title, anchor, descr, score, filename]. +// Order the results by score (in opposite order of appearance, since the +// `_displayNextItem` function uses pop() to retrieve items) and then alphabetically. +const _orderResultsByScoreThenName = (a, b) => { + const leftScore = a[4]; + const rightScore = b[4]; + if (leftScore === rightScore) { + // same score: sort alphabetically + const leftTitle = a[1].toLowerCase(); + const rightTitle = b[1].toLowerCase(); + if (leftTitle === rightTitle) return 0; + return leftTitle > rightTitle ? -1 : 1; // inverted is intentional + } + return leftScore > rightScore ? 1 : -1; +}; + +/** + * Default splitQuery function. Can be overridden in ``sphinx.search`` with a + * custom function per language. + * + * The regular expression works by splitting the string on consecutive characters + * that are not Unicode letters, numbers, underscores, or emoji characters. + * This is the same as ``\W+`` in Python, preserving the surrogate pair area. + */ +if (typeof splitQuery === "undefined") { + var splitQuery = (query) => query + .split(/[^\p{Letter}\p{Number}_\p{Emoji_Presentation}]+/gu) + .filter(term => term) // remove remaining empty strings +} + +/** + * Search Module + */ +const Search = { + _index: null, + _queued_query: null, + _pulse_status: -1, + + htmlToText: (htmlString, anchor) => { + const htmlElement = new DOMParser().parseFromString(htmlString, 'text/html'); + for (const removalQuery of [".headerlink", "script", "style"]) { + htmlElement.querySelectorAll(removalQuery).forEach((el) => { el.remove() }); + } + if (anchor) { + const anchorContent = htmlElement.querySelector(`[role="main"] ${anchor}`); + if (anchorContent) return anchorContent.textContent; + + console.warn( + `Anchored content block not found. Sphinx search tries to obtain it via DOM query '[role=main] ${anchor}'. Check your theme or template.` + ); + } + + // if anchor not specified or not found, fall back to main content + const docContent = htmlElement.querySelector('[role="main"]'); + if (docContent) return docContent.textContent; + + console.warn( + "Content block not found. Sphinx search tries to obtain it via DOM query '[role=main]'. Check your theme or template." + ); + return ""; + }, + + init: () => { + const query = new URLSearchParams(window.location.search).get("q"); + document + .querySelectorAll('input[name="q"]') + .forEach((el) => (el.value = query)); + if (query) Search.performSearch(query); + }, + + loadIndex: (url) => + (document.body.appendChild(document.createElement("script")).src = url), + + setIndex: (index) => { + Search._index = index; + if (Search._queued_query !== null) { + const query = Search._queued_query; + Search._queued_query = null; + Search.query(query); + } + }, + + hasIndex: () => Search._index !== null, + + deferQuery: (query) => (Search._queued_query = query), + + stopPulse: () => (Search._pulse_status = -1), + + startPulse: () => { + if (Search._pulse_status >= 0) return; + + const pulse = () => { + Search._pulse_status = (Search._pulse_status + 1) % 4; + Search.dots.innerText = ".".repeat(Search._pulse_status); + if (Search._pulse_status >= 0) window.setTimeout(pulse, 500); + }; + pulse(); + }, + + /** + * perform a search for something (or wait until index is loaded) + */ + performSearch: (query) => { + // create the required interface elements + const searchText = document.createElement("h2"); + searchText.textContent = _("Searching"); + const searchSummary = document.createElement("p"); + searchSummary.classList.add("search-summary"); + searchSummary.innerText = ""; + const searchList = document.createElement("ul"); + searchList.classList.add("search"); + + const out = document.getElementById("search-results"); + Search.title = out.appendChild(searchText); + Search.dots = Search.title.appendChild(document.createElement("span")); + Search.status = out.appendChild(searchSummary); + Search.output = out.appendChild(searchList); + + const searchProgress = document.getElementById("search-progress"); + // Some themes don't use the search progress node + if (searchProgress) { + searchProgress.innerText = _("Preparing search..."); + } + Search.startPulse(); + + // index already loaded, the browser was quick! + if (Search.hasIndex()) Search.query(query); + else Search.deferQuery(query); + }, + + _parseQuery: (query) => { + // stem the search terms and add them to the correct list + const stemmer = new Stemmer(); + const searchTerms = new Set(); + const excludedTerms = new Set(); + const highlightTerms = new Set(); + const objectTerms = new Set(splitQuery(query.toLowerCase().trim())); + splitQuery(query.trim()).forEach((queryTerm) => { + const queryTermLower = queryTerm.toLowerCase(); + + // maybe skip this "word" + // stopwords array is from language_data.js + if ( + stopwords.indexOf(queryTermLower) !== -1 || + queryTerm.match(/^\d+$/) + ) + return; + + // stem the word + let word = stemmer.stemWord(queryTermLower); + // select the correct list + if (word[0] === "-") excludedTerms.add(word.substr(1)); + else { + searchTerms.add(word); + highlightTerms.add(queryTermLower); + } + }); + + if (SPHINX_HIGHLIGHT_ENABLED) { // set in sphinx_highlight.js + localStorage.setItem("sphinx_highlight_terms", [...highlightTerms].join(" ")) + } + + // console.debug("SEARCH: searching for:"); + // console.info("required: ", [...searchTerms]); + // console.info("excluded: ", [...excludedTerms]); + + return [query, searchTerms, excludedTerms, highlightTerms, objectTerms]; + }, + + /** + * execute search (requires search index to be loaded) + */ + _performSearch: (query, searchTerms, excludedTerms, highlightTerms, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + const allTitles = Search._index.alltitles; + const indexEntries = Search._index.indexentries; + + // Collect multiple result groups to be sorted separately and then ordered. + // Each is an array of [docname, title, anchor, descr, score, filename]. + const normalResults = []; + const nonMainIndexResults = []; + + _removeChildren(document.getElementById("search-progress")); + + const queryLower = query.toLowerCase().trim(); + for (const [title, foundTitles] of Object.entries(allTitles)) { + if (title.toLowerCase().trim().includes(queryLower) && (queryLower.length >= title.length/2)) { + for (const [file, id] of foundTitles) { + const score = Math.round(Scorer.title * queryLower.length / title.length); + const boost = titles[file] === title ? 1 : 0; // add a boost for document titles + normalResults.push([ + docNames[file], + titles[file] !== title ? `${titles[file]} > ${title}` : title, + id !== null ? "#" + id : "", + null, + score + boost, + filenames[file], + ]); + } + } + } + + // search for explicit entries in index directives + for (const [entry, foundEntries] of Object.entries(indexEntries)) { + if (entry.includes(queryLower) && (queryLower.length >= entry.length/2)) { + for (const [file, id, isMain] of foundEntries) { + const score = Math.round(100 * queryLower.length / entry.length); + const result = [ + docNames[file], + titles[file], + id ? "#" + id : "", + null, + score, + filenames[file], + ]; + if (isMain) { + normalResults.push(result); + } else { + nonMainIndexResults.push(result); + } + } + } + } + + // lookup as object + objectTerms.forEach((term) => + normalResults.push(...Search.performObjectSearch(term, objectTerms)) + ); + + // lookup as search terms in fulltext + normalResults.push(...Search.performTermsSearch(searchTerms, excludedTerms)); + + // let the scorer override scores with a custom scoring function + if (Scorer.score) { + normalResults.forEach((item) => (item[4] = Scorer.score(item))); + nonMainIndexResults.forEach((item) => (item[4] = Scorer.score(item))); + } + + // Sort each group of results by score and then alphabetically by name. + normalResults.sort(_orderResultsByScoreThenName); + nonMainIndexResults.sort(_orderResultsByScoreThenName); + + // Combine the result groups in (reverse) order. + // Non-main index entries are typically arbitrary cross-references, + // so display them after other results. + let results = [...nonMainIndexResults, ...normalResults]; + + // remove duplicate search results + // note the reversing of results, so that in the case of duplicates, the highest-scoring entry is kept + let seen = new Set(); + results = results.reverse().reduce((acc, result) => { + let resultStr = result.slice(0, 4).concat([result[5]]).map(v => String(v)).join(','); + if (!seen.has(resultStr)) { + acc.push(result); + seen.add(resultStr); + } + return acc; + }, []); + + return results.reverse(); + }, + + query: (query) => { + const [searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms] = Search._parseQuery(query); + const results = Search._performSearch(searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms); + + // for debugging + //Search.lastresults = results.slice(); // a copy + // console.info("search results:", Search.lastresults); + + // print the results + _displayNextItem(results, results.length, searchTerms, highlightTerms); + }, + + /** + * search for object names + */ + performObjectSearch: (object, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const objects = Search._index.objects; + const objNames = Search._index.objnames; + const titles = Search._index.titles; + + const results = []; + + const objectSearchCallback = (prefix, match) => { + const name = match[4] + const fullname = (prefix ? prefix + "." : "") + name; + const fullnameLower = fullname.toLowerCase(); + if (fullnameLower.indexOf(object) < 0) return; + + let score = 0; + const parts = fullnameLower.split("."); + + // check for different match types: exact matches of full name or + // "last name" (i.e. last dotted part) + if (fullnameLower === object || parts.slice(-1)[0] === object) + score += Scorer.objNameMatch; + else if (parts.slice(-1)[0].indexOf(object) > -1) + score += Scorer.objPartialMatch; // matches in last name + + const objName = objNames[match[1]][2]; + const title = titles[match[0]]; + + // If more than one term searched for, we require other words to be + // found in the name/title/description + const otherTerms = new Set(objectTerms); + otherTerms.delete(object); + if (otherTerms.size > 0) { + const haystack = `${prefix} ${name} ${objName} ${title}`.toLowerCase(); + if ( + [...otherTerms].some((otherTerm) => haystack.indexOf(otherTerm) < 0) + ) + return; + } + + let anchor = match[3]; + if (anchor === "") anchor = fullname; + else if (anchor === "-") anchor = objNames[match[1]][1] + "-" + fullname; + + const descr = objName + _(", in ") + title; + + // add custom score for some objects according to scorer + if (Scorer.objPrio.hasOwnProperty(match[2])) + score += Scorer.objPrio[match[2]]; + else score += Scorer.objPrioDefault; + + results.push([ + docNames[match[0]], + fullname, + "#" + anchor, + descr, + score, + filenames[match[0]], + ]); + }; + Object.keys(objects).forEach((prefix) => + objects[prefix].forEach((array) => + objectSearchCallback(prefix, array) + ) + ); + return results; + }, + + /** + * search for full-text terms in the index + */ + performTermsSearch: (searchTerms, excludedTerms) => { + // prepare search + const terms = Search._index.terms; + const titleTerms = Search._index.titleterms; + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + + const scoreMap = new Map(); + const fileMap = new Map(); + + // perform the search on the required terms + searchTerms.forEach((word) => { + const files = []; + const arr = [ + { files: terms[word], score: Scorer.term }, + { files: titleTerms[word], score: Scorer.title }, + ]; + // add support for partial matches + if (word.length > 2) { + const escapedWord = _escapeRegExp(word); + if (!terms.hasOwnProperty(word)) { + Object.keys(terms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: terms[term], score: Scorer.partialTerm }); + }); + } + if (!titleTerms.hasOwnProperty(word)) { + Object.keys(titleTerms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: titleTerms[term], score: Scorer.partialTitle }); + }); + } + } + + // no match but word was a required one + if (arr.every((record) => record.files === undefined)) return; + + // found search word in contents + arr.forEach((record) => { + if (record.files === undefined) return; + + let recordFiles = record.files; + if (recordFiles.length === undefined) recordFiles = [recordFiles]; + files.push(...recordFiles); + + // set score for the word in each file + recordFiles.forEach((file) => { + if (!scoreMap.has(file)) scoreMap.set(file, {}); + scoreMap.get(file)[word] = record.score; + }); + }); + + // create the mapping + files.forEach((file) => { + if (!fileMap.has(file)) fileMap.set(file, [word]); + else if (fileMap.get(file).indexOf(word) === -1) fileMap.get(file).push(word); + }); + }); + + // now check if the files don't contain excluded terms + const results = []; + for (const [file, wordList] of fileMap) { + // check if all requirements are matched + + // as search terms with length < 3 are discarded + const filteredTermCount = [...searchTerms].filter( + (term) => term.length > 2 + ).length; + if ( + wordList.length !== searchTerms.size && + wordList.length !== filteredTermCount + ) + continue; + + // ensure that none of the excluded terms is in the search result + if ( + [...excludedTerms].some( + (term) => + terms[term] === file || + titleTerms[term] === file || + (terms[term] || []).includes(file) || + (titleTerms[term] || []).includes(file) + ) + ) + break; + + // select one (max) score for the file. + const score = Math.max(...wordList.map((w) => scoreMap.get(file)[w])); + // add result to the result list + results.push([ + docNames[file], + titles[file], + "", + null, + score, + filenames[file], + ]); + } + return results; + }, + + /** + * helper function to return a node containing the + * search summary for a given text. keywords is a list + * of stemmed words. + */ + makeSearchSummary: (htmlText, keywords, anchor) => { + const text = Search.htmlToText(htmlText, anchor); + if (text === "") return null; + + const textLower = text.toLowerCase(); + const actualStartPosition = [...keywords] + .map((k) => textLower.indexOf(k.toLowerCase())) + .filter((i) => i > -1) + .slice(-1)[0]; + const startWithContext = Math.max(actualStartPosition - 120, 0); + + const top = startWithContext === 0 ? "" : "..."; + const tail = startWithContext + 240 < text.length ? "..." : ""; + + let summary = document.createElement("p"); + summary.classList.add("context"); + summary.textContent = top + text.substr(startWithContext, 240).trim() + tail; + + return summary; + }, +}; + +_ready(Search.init); diff --git a/_static/sphinx_highlight.js b/_static/sphinx_highlight.js new file mode 100644 index 0000000..8a96c69 --- /dev/null +++ b/_static/sphinx_highlight.js @@ -0,0 +1,154 @@ +/* Highlighting utilities for Sphinx HTML documentation. */ +"use strict"; + +const SPHINX_HIGHLIGHT_ENABLED = true + +/** + * highlight a given string on a node by wrapping it in + * span elements with the given class name. + */ +const _highlight = (node, addItems, text, className) => { + if (node.nodeType === Node.TEXT_NODE) { + const val = node.nodeValue; + const parent = node.parentNode; + const pos = val.toLowerCase().indexOf(text); + if ( + pos >= 0 && + !parent.classList.contains(className) && + !parent.classList.contains("nohighlight") + ) { + let span; + + const closestNode = parent.closest("body, svg, foreignObject"); + const isInSVG = closestNode && closestNode.matches("svg"); + if (isInSVG) { + span = document.createElementNS("http://www.w3.org/2000/svg", "tspan"); + } else { + span = document.createElement("span"); + span.classList.add(className); + } + + span.appendChild(document.createTextNode(val.substr(pos, text.length))); + const rest = document.createTextNode(val.substr(pos + text.length)); + parent.insertBefore( + span, + parent.insertBefore( + rest, + node.nextSibling + ) + ); + node.nodeValue = val.substr(0, pos); + /* There may be more occurrences of search term in this node. So call this + * function recursively on the remaining fragment. + */ + _highlight(rest, addItems, text, className); + + if (isInSVG) { + const rect = document.createElementNS( + "http://www.w3.org/2000/svg", + "rect" + ); + const bbox = parent.getBBox(); + rect.x.baseVal.value = bbox.x; + rect.y.baseVal.value = bbox.y; + rect.width.baseVal.value = bbox.width; + rect.height.baseVal.value = bbox.height; + rect.setAttribute("class", className); + addItems.push({ parent: parent, target: rect }); + } + } + } else if (node.matches && !node.matches("button, select, textarea")) { + node.childNodes.forEach((el) => _highlight(el, addItems, text, className)); + } +}; +const _highlightText = (thisNode, text, className) => { + let addItems = []; + _highlight(thisNode, addItems, text, className); + addItems.forEach((obj) => + obj.parent.insertAdjacentElement("beforebegin", obj.target) + ); +}; + +/** + * Small JavaScript module for the documentation. + */ +const SphinxHighlight = { + + /** + * highlight the search words provided in localstorage in the text + */ + highlightSearchWords: () => { + if (!SPHINX_HIGHLIGHT_ENABLED) return; // bail if no highlight + + // get and clear terms from localstorage + const url = new URL(window.location); + const highlight = + localStorage.getItem("sphinx_highlight_terms") + || url.searchParams.get("highlight") + || ""; + localStorage.removeItem("sphinx_highlight_terms") + url.searchParams.delete("highlight"); + window.history.replaceState({}, "", url); + + // get individual terms from highlight string + const terms = highlight.toLowerCase().split(/\s+/).filter(x => x); + if (terms.length === 0) return; // nothing to do + + // There should never be more than one element matching "div.body" + const divBody = document.querySelectorAll("div.body"); + const body = divBody.length ? divBody[0] : document.querySelector("body"); + window.setTimeout(() => { + terms.forEach((term) => _highlightText(body, term, "highlighted")); + }, 10); + + const searchBox = document.getElementById("searchbox"); + if (searchBox === null) return; + searchBox.appendChild( + document + .createRange() + .createContextualFragment( + '

' + + '' + + _("Hide Search Matches") + + "

" + ) + ); + }, + + /** + * helper function to hide the search marks again + */ + hideSearchWords: () => { + document + .querySelectorAll("#searchbox .highlight-link") + .forEach((el) => el.remove()); + document + .querySelectorAll("span.highlighted") + .forEach((el) => el.classList.remove("highlighted")); + localStorage.removeItem("sphinx_highlight_terms") + }, + + initEscapeListener: () => { + // only install a listener if it is really needed + if (!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS) return; + + document.addEventListener("keydown", (event) => { + // bail for input elements + if (BLACKLISTED_KEY_CONTROL_ELEMENTS.has(document.activeElement.tagName)) return; + // bail with special keys + if (event.shiftKey || event.altKey || event.ctrlKey || event.metaKey) return; + if (DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS && (event.key === "Escape")) { + SphinxHighlight.hideSearchWords(); + event.preventDefault(); + } + }); + }, +}; + +_ready(() => { + /* Do not call highlightSearchWords() when we are on the search page. + * It will highlight words from the *previous* search query. + */ + if (typeof Search === "undefined") SphinxHighlight.highlightSearchWords(); + SphinxHighlight.initEscapeListener(); +}); diff --git a/_static/sphinx_lesson.css b/_static/sphinx_lesson.css new file mode 100644 index 0000000..14b20c6 --- /dev/null +++ b/_static/sphinx_lesson.css @@ -0,0 +1,51 @@ +/* sphinx_lesson.css */ + +body.wy-body-for-nav img.with-border { + border: 2px solid; +} + +.rst-content .admonition-no-content { + padding-bottom: 0px; +} + +.rst-content .demo > .admonition-title::before { + content: "\01F440"; /* Eyes */ } +.rst-content .type-along > .admonition-title::before { + content: "\02328\0FE0F"; /* Keyboard */ } +.rst-content .exercise > .admonition-title::before { + content: "\0270D\0FE0F"; /* Hand */ } +.rst-content .solution > .admonition-title::before { + content: "\02714\0FE0E"; /* Check mark */ } +.rst-content .homework > .admonition-title::before { + content: "\01F4DD"; /* Memo */ } +.rst-content .discussion > .admonition-title::before { + content: "\01F4AC"; /* Speech balloon */ } +.rst-content .questions > .admonition-title::before { + content: "\02753\0FE0E"; /* Question mark */ } +.rst-content .prerequisites > .admonition-title::before { + content: "\02699"; /* Gear */ } +.rst-content .seealso > .admonition-title::before { + content: "\027A1\0FE0E"; /* Question mark */ } + + +/* instructor-note */ +.rst-content .instructor-note { + background: #e7e7e7; +} +.rst-content .instructor-note > .admonition-title { + background: #6a6a6a; +} +.rst-content .instructor-note > .admonition-title::before { + content: ""; +} + + +/* sphinx_toggle_button, make the font white */ +.rst-content .toggle.admonition button.toggle-button { + color: white; +} + +/* sphinx-togglebutton, remove underflow when toggled to hidden mode */ +.rst-content .admonition.toggle-hidden { + padding-bottom: 0px; +} diff --git a/_static/sphinx_rtd_theme_ext_color_contrast.css b/_static/sphinx_rtd_theme_ext_color_contrast.css new file mode 100644 index 0000000..e68feb8 --- /dev/null +++ b/_static/sphinx_rtd_theme_ext_color_contrast.css @@ -0,0 +1,47 @@ +/* The following are for web accessibility of sphinx_rtd_theme: they + * solve some of the most frequent contrast issues. Remove when this + * solved: + * https://github.com/readthedocs/sphinx_rtd_theme/issues/971 + */ +/* background: #fcfcfc, note boxes #E7F2FA */ +a { color: #2573A7; } /* original #2980B9, #1F5C84; */ +body { color: #242424; } /* original #404040, #383838 */ +.wy-side-nav-search>a, .wy-side-nav-search .wy-dropdown>a { + color: #ffffff; +} /* original #fcfcfc */ +footer { color: #737373; } /* original gray=#808080*/ +footer span.commit code, footer span.commit .rst-content tt, .rst-content footer span.commit tt { + color: #737373; +} /* original gray=#808080*/ +.rst-content tt.literal, .rst-content tt.literal, .rst-content code.literal { + color: #AB2314; +} +/* Sidebar background */ +.wy-side-nav-search { background-color: #277CB4;} + +/* Same, but for pygments */ +.highlight .ch { color: #3E7A89; } /* #! line */ +.highlight .c1 { color: #3E7A89; } /* also comments */ +.highlight .nv { color: #AD3ECC; } /* variable */ +.highlight .gp { color: #B45608; } /* prompt character, $*/ +.highlight .si { color: #3975B1; } /* ${} variable text */ +.highlight .nc { color: #0C78A7; } + +/* Sphinx admonitions */ +/* warning */ +.wy-alert.wy-alert-warning .wy-alert-title, .rst-content .wy-alert-warning.note .wy-alert-title, .rst-content .attention .wy-alert-title, .rst-content .caution .wy-alert-title, .rst-content .wy-alert-warning.danger .wy-alert-title, .rst-content .wy-alert-warning.error .wy-alert-title, .rst-content .wy-alert-warning.hint .wy-alert-title, .rst-content .wy-alert-warning.important .wy-alert-title, .rst-content .wy-alert-warning.tip .wy-alert-title, .rst-content .warning .wy-alert-title, .rst-content .wy-alert-warning.seealso .wy-alert-title, .rst-content .admonition-todo .wy-alert-title, .rst-content .wy-alert-warning.admonition .wy-alert-title, .wy-alert.wy-alert-warning .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-warning .admonition-title, .rst-content .wy-alert-warning.note .admonition-title, .rst-content .attention .admonition-title, .rst-content .caution .admonition-title, .rst-content .wy-alert-warning.danger .admonition-title, .rst-content .wy-alert-warning.error .admonition-title, .rst-content .wy-alert-warning.hint .admonition-title, .rst-content .wy-alert-warning.important .admonition-title, .rst-content .wy-alert-warning.tip .admonition-title, .rst-content .warning .admonition-title, .rst-content .wy-alert-warning.seealso .admonition-title, .rst-content .admonition-todo .admonition-title, .rst-content .wy-alert-warning.admonition .admonition-title { + background: #B15E16; } +/* important */ +.wy-alert.wy-alert-success .wy-alert-title, .rst-content .wy-alert-success.note .wy-alert-title, .rst-content .wy-alert-success.attention .wy-alert-title, .rst-content .wy-alert-success.caution .wy-alert-title, .rst-content .wy-alert-success.danger .wy-alert-title, .rst-content .wy-alert-success.error .wy-alert-title, .rst-content .hint .wy-alert-title, .rst-content .important .wy-alert-title, .rst-content .tip .wy-alert-title, .rst-content .wy-alert-success.warning .wy-alert-title, .rst-content .wy-alert-success.seealso .wy-alert-title, .rst-content .wy-alert-success.admonition-todo .wy-alert-title, .rst-content .wy-alert-success.admonition .wy-alert-title, .wy-alert.wy-alert-success .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-success .admonition-title, .rst-content .wy-alert-success.note .admonition-title, .rst-content .wy-alert-success.attention .admonition-title, .rst-content .wy-alert-success.caution .admonition-title, .rst-content .wy-alert-success.danger .admonition-title, .rst-content .wy-alert-success.error .admonition-title, .rst-content .hint .admonition-title, .rst-content .important .admonition-title, .rst-content .tip .admonition-title, .rst-content .wy-alert-success.warning .admonition-title, .rst-content .wy-alert-success.seealso .admonition-title, .rst-content .wy-alert-success.admonition-todo .admonition-title, .rst-content .wy-alert-success.admonition .admonition-title { + background: #12826C; } +/* seealso, note, etc */ +.wy-alert.wy-alert-info .wy-alert-title, .rst-content .note .wy-alert-title, .rst-content .wy-alert-info.attention .wy-alert-title, .rst-content .wy-alert-info.caution .wy-alert-title, .rst-content .wy-alert-info.danger .wy-alert-title, .rst-content .wy-alert-info.error .wy-alert-title, .rst-content .wy-alert-info.hint .wy-alert-title, .rst-content .wy-alert-info.important .wy-alert-title, .rst-content .wy-alert-info.tip .wy-alert-title, .rst-content .wy-alert-info.warning .wy-alert-title, .rst-content .seealso .wy-alert-title, .rst-content .wy-alert-info.admonition-todo .wy-alert-title, .rst-content .wy-alert-info.admonition .wy-alert-title, .wy-alert.wy-alert-info .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-info .admonition-title, .rst-content .note .admonition-title, .rst-content .wy-alert-info.attention .admonition-title, .rst-content .wy-alert-info.caution .admonition-title, .rst-content .wy-alert-info.danger .admonition-title, .rst-content .wy-alert-info.error .admonition-title, .rst-content .wy-alert-info.hint .admonition-title, .rst-content .wy-alert-info.important .admonition-title, .rst-content .wy-alert-info.tip .admonition-title, .rst-content .wy-alert-info.warning .admonition-title, .rst-content .seealso .admonition-title, .rst-content .wy-alert-info.admonition-todo .admonition-title, .rst-content .wy-alert-info.admonition .admonition-title { + background: #277CB4; } +/* error, danger */ +.rst-content .danger .admonition-title, .rst-content .danger .wy-alert-title, .rst-content .error .admonition-title, .rst-content .error .wy-alert-title, .rst-content .wy-alert-danger.admonition-todo .admonition-title, .rst-content .wy-alert-danger.admonition-todo .wy-alert-title, .rst-content .wy-alert-danger.admonition .admonition-title, .rst-content .wy-alert-danger.admonition .wy-alert-title, .rst-content .wy-alert-danger.attention .admonition-title, .rst-content .wy-alert-danger.attention .wy-alert-title, .rst-content .wy-alert-danger.caution .admonition-title, .rst-content .wy-alert-danger.caution .wy-alert-title, .rst-content .wy-alert-danger.hint .admonition-title, .rst-content .wy-alert-danger.hint .wy-alert-title, .rst-content .wy-alert-danger.important .admonition-title, .rst-content .wy-alert-danger.important .wy-alert-title, .rst-content .wy-alert-danger.note .admonition-title, .rst-content .wy-alert-danger.note .wy-alert-title, .rst-content .wy-alert-danger.seealso .admonition-title, .rst-content .wy-alert-danger.seealso .wy-alert-title, .rst-content .wy-alert-danger.tip .admonition-title, .rst-content .wy-alert-danger.tip .wy-alert-title, .rst-content .wy-alert-danger.warning .admonition-title, .rst-content .wy-alert-danger.warning .wy-alert-title, .rst-content .wy-alert.wy-alert-danger .admonition-title, .wy-alert.wy-alert-danger .rst-content .admonition-title, .wy-alert.wy-alert-danger .wy-alert-title { + background: #e31704; +} + +/* Generic admonition titles */ +.wy-alert-title, .rst-content .admonition-title { + background: #277CB4; } diff --git a/_static/tabs.css b/_static/tabs.css new file mode 100644 index 0000000..957ba60 --- /dev/null +++ b/_static/tabs.css @@ -0,0 +1,89 @@ +.sphinx-tabs { + margin-bottom: 1rem; +} + +[role="tablist"] { + border-bottom: 1px solid #a0b3bf; +} + +.sphinx-tabs-tab { + position: relative; + font-family: Lato,'Helvetica Neue',Arial,Helvetica,sans-serif; + color: #1D5C87; + line-height: 24px; + margin: 0; + font-size: 16px; + font-weight: 400; + background-color: rgba(255, 255, 255, 0); + border-radius: 5px 5px 0 0; + border: 0; + padding: 1rem 1.5rem; + margin-bottom: 0; +} + +.sphinx-tabs-tab[aria-selected="true"] { + font-weight: 700; + border: 1px solid #a0b3bf; + border-bottom: 1px solid white; + margin: -1px; + background-color: white; +} + +.sphinx-tabs-tab:focus { + z-index: 1; + outline-offset: 1px; +} + +.sphinx-tabs-panel { + position: relative; + padding: 1rem; + border: 1px solid #a0b3bf; + margin: 0px -1px -1px -1px; + border-radius: 0 0 5px 5px; + border-top: 0; + background: white; +} + +.sphinx-tabs-panel.code-tab { + padding: 0.4rem; +} + +.sphinx-tab img { + margin-bottom: 24 px; +} + +/* Dark theme preference styling */ + +@media (prefers-color-scheme: dark) { + body[data-theme="auto"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); + } + + body[data-theme="auto"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); + } + + body[data-theme="auto"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 1px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); + } +} + +/* Explicit dark theme styling */ + +body[data-theme="dark"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); +} + +body[data-theme="dark"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); +} + +body[data-theme="dark"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 2px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); +} diff --git a/_static/tabs.js b/_static/tabs.js new file mode 100644 index 0000000..48dc303 --- /dev/null +++ b/_static/tabs.js @@ -0,0 +1,145 @@ +try { + var session = window.sessionStorage || {}; +} catch (e) { + var session = {}; +} + +window.addEventListener("DOMContentLoaded", () => { + const allTabs = document.querySelectorAll('.sphinx-tabs-tab'); + const tabLists = document.querySelectorAll('[role="tablist"]'); + + allTabs.forEach(tab => { + tab.addEventListener("click", changeTabs); + }); + + tabLists.forEach(tabList => { + tabList.addEventListener("keydown", keyTabs); + }); + + // Restore group tab selection from session + const lastSelected = session.getItem('sphinx-tabs-last-selected'); + if (lastSelected != null) selectNamedTabs(lastSelected); +}); + +/** + * Key focus left and right between sibling elements using arrows + * @param {Node} e the element in focus when key was pressed + */ +function keyTabs(e) { + const tab = e.target; + let nextTab = null; + if (e.keyCode === 39 || e.keyCode === 37) { + tab.setAttribute("tabindex", -1); + // Move right + if (e.keyCode === 39) { + nextTab = tab.nextElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.firstElementChild; + } + // Move left + } else if (e.keyCode === 37) { + nextTab = tab.previousElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.lastElementChild; + } + } + } + + if (nextTab !== null) { + nextTab.setAttribute("tabindex", 0); + nextTab.focus(); + } +} + +/** + * Select or deselect clicked tab. If a group tab + * is selected, also select tab in other tabLists. + * @param {Node} e the element that was clicked + */ +function changeTabs(e) { + // Use this instead of the element that was clicked, in case it's a child + const notSelected = this.getAttribute("aria-selected") === "false"; + const positionBefore = this.parentNode.getBoundingClientRect().top; + const notClosable = !this.parentNode.classList.contains("closeable"); + + deselectTabList(this); + + if (notSelected || notClosable) { + selectTab(this); + const name = this.getAttribute("name"); + selectNamedTabs(name, this.id); + + if (this.classList.contains("group-tab")) { + // Persist during session + session.setItem('sphinx-tabs-last-selected', name); + } + } + + const positionAfter = this.parentNode.getBoundingClientRect().top; + const positionDelta = positionAfter - positionBefore; + // Scroll to offset content resizing + window.scrollTo(0, window.scrollY + positionDelta); +} + +/** + * Select tab and show associated panel. + * @param {Node} tab tab to select + */ +function selectTab(tab) { + tab.setAttribute("aria-selected", true); + + // Show the associated panel + document + .getElementById(tab.getAttribute("aria-controls")) + .removeAttribute("hidden"); +} + +/** + * Hide the panels associated with all tabs within the + * tablist containing this tab. + * @param {Node} tab a tab within the tablist to deselect + */ +function deselectTabList(tab) { + const parent = tab.parentNode; + const grandparent = parent.parentNode; + + Array.from(parent.children) + .forEach(t => t.setAttribute("aria-selected", false)); + + Array.from(grandparent.children) + .slice(1) // Skip tablist + .forEach(panel => panel.setAttribute("hidden", true)); +} + +/** + * Select grouped tabs with the same name, but no the tab + * with the given id. + * @param {Node} name name of grouped tab to be selected + * @param {Node} clickedId id of clicked tab + */ +function selectNamedTabs(name, clickedId=null) { + const groupedTabs = document.querySelectorAll(`.sphinx-tabs-tab[name="${name}"]`); + const tabLists = Array.from(groupedTabs).map(tab => tab.parentNode); + + tabLists + .forEach(tabList => { + // Don't want to change the tabList containing the clicked tab + const clickedTab = tabList.querySelector(`[id="${clickedId}"]`); + if (clickedTab === null ) { + // Select first tab with matching name + const tab = tabList.querySelector(`.sphinx-tabs-tab[name="${name}"]`); + deselectTabList(tab); + selectTab(tab); + } + }) +} + +if (typeof exports === 'undefined') { + exports = {}; +} + +exports.keyTabs = keyTabs; +exports.changeTabs = changeTabs; +exports.selectTab = selectTab; +exports.deselectTabList = deselectTabList; +exports.selectNamedTabs = selectNamedTabs; diff --git a/_static/term_role_formatting.css b/_static/term_role_formatting.css new file mode 100644 index 0000000..0b66095 --- /dev/null +++ b/_static/term_role_formatting.css @@ -0,0 +1,4 @@ +/* Make terms bold */ +a.reference span.std-term { + font-weight: bold; +} diff --git a/_static/togglebutton.css b/_static/togglebutton.css new file mode 100644 index 0000000..54a6787 --- /dev/null +++ b/_static/togglebutton.css @@ -0,0 +1,160 @@ +/** + * Admonition-based toggles + */ + +/* Visibility of the target */ +.admonition.toggle .admonition-title ~ * { + transition: opacity .3s, height .3s; +} + +/* Toggle buttons inside admonitions so we see the title */ +.admonition.toggle { + position: relative; +} + +/* Titles should cut off earlier to avoid overlapping w/ button */ +.admonition.toggle .admonition-title { + padding-right: 25%; + cursor: pointer; +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:hover { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 1%); +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:active { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 3%); +} + +/* Remove extra whitespace below the admonition title when hidden */ +.admonition.toggle-hidden { + padding-bottom: 0; +} + +.admonition.toggle-hidden .admonition-title { + margin-bottom: 0; +} + +/* hides all the content of a page until de-toggled */ +.admonition.toggle-hidden .admonition-title ~ * { + height: 0; + margin: 0; + opacity: 0; + visibility: hidden; +} + +/* General button style and position*/ +button.toggle-button { + /** + * Background and shape. By default there's no background + * but users can style as they wish + */ + background: none; + border: none; + outline: none; + + /* Positioning just inside the admonition title */ + position: absolute; + right: 0.5em; + padding: 0px; + border: none; + outline: none; +} + +/* Display the toggle hint on wide screens */ +@media (min-width: 768px) { + button.toggle-button.toggle-button-hidden:before { + content: attr(data-toggle-hint); /* This will be filled in by JS */ + font-size: .8em; + align-self: center; + } +} + +/* Icon behavior */ +.tb-icon { + transition: transform .2s ease-out; + height: 1.5em; + width: 1.5em; + stroke: currentColor; /* So that we inherit the color of other text */ +} + +/* The icon should point right when closed, down when open. */ +/* Open */ +.admonition.toggle button .tb-icon { + transform: rotate(90deg); +} + +/* Closed */ +.admonition.toggle button.toggle-button-hidden .tb-icon { + transform: rotate(0deg); +} + +/* With details toggles, we don't rotate the icon so it points right */ +details.toggle-details .tb-icon { + height: 1.4em; + width: 1.4em; + margin-top: 0.1em; /* To center the button vertically */ +} + + +/** + * Details-based toggles. + * In this case, we wrap elements with `.toggle` in a details block. + */ + +/* Details blocks */ +details.toggle-details { + margin: 1em 0; +} + + +details.toggle-details summary { + display: flex; + align-items: center; + cursor: pointer; + list-style: none; + border-radius: .2em; + border-left: 3px solid #1976d2; + background-color: rgb(204 204 204 / 10%); + padding: 0.2em 0.7em 0.3em 0.5em; /* Less padding on left because the SVG has left margin */ + font-size: 0.9em; +} + +details.toggle-details summary:hover { + background-color: rgb(204 204 204 / 20%); +} + +details.toggle-details summary:active { + background: rgb(204 204 204 / 28%); +} + +.toggle-details__summary-text { + margin-left: 0.2em; +} + +details.toggle-details[open] summary { + margin-bottom: .5em; +} + +details.toggle-details[open] summary .tb-icon { + transform: rotate(90deg); +} + +details.toggle-details[open] summary ~ * { + animation: toggle-fade-in .3s ease-out; +} + +@keyframes toggle-fade-in { + from {opacity: 0%;} + to {opacity: 100%;} +} + +/* Print rules - we hide all toggle button elements at print */ +@media print { + /* Always hide the summary so the button doesn't show up */ + details.toggle-details summary { + display: none; + } +} \ No newline at end of file diff --git a/_static/togglebutton.js b/_static/togglebutton.js new file mode 100644 index 0000000..215a7ee --- /dev/null +++ b/_static/togglebutton.js @@ -0,0 +1,187 @@ +/** + * Add Toggle Buttons to elements + */ + +let toggleChevron = ` + + + +`; + +var initToggleItems = () => { + var itemsToToggle = document.querySelectorAll(togglebuttonSelector); + console.log(`[togglebutton]: Adding toggle buttons to ${itemsToToggle.length} items`) + // Add the button to each admonition and hook up a callback to toggle visibility + itemsToToggle.forEach((item, index) => { + if (item.classList.contains("admonition")) { + // If it's an admonition block, then we'll add a button inside + // Generate unique IDs for this item + var toggleID = `toggle-${index}`; + var buttonID = `button-${toggleID}`; + + item.setAttribute('id', toggleID); + if (!item.classList.contains("toggle")){ + item.classList.add("toggle"); + } + // This is the button that will be added to each item to trigger the toggle + var collapseButton = ` + `; + + title = item.querySelector(".admonition-title") + title.insertAdjacentHTML("beforeend", collapseButton); + thisButton = document.getElementById(buttonID); + + // Add click handlers for the button + admonition title (if admonition) + admonitionTitle = document.querySelector(`#${toggleID} > .admonition-title`) + if (admonitionTitle) { + // If an admonition, then make the whole title block clickable + admonitionTitle.addEventListener('click', toggleClickHandler); + admonitionTitle.dataset.target = toggleID + admonitionTitle.dataset.button = buttonID + } else { + // If not an admonition then we'll listen for the button click + thisButton.addEventListener('click', toggleClickHandler); + } + + // Now hide the item for this toggle button unless explicitly noted to show + if (!item.classList.contains("toggle-shown")) { + toggleHidden(thisButton); + } + } else { + // If not an admonition, wrap the block in a
block + // Define the structure of the details block and insert it as a sibling + var detailsBlock = ` +
+ + ${toggleChevron} + ${toggleHintShow} + +
`; + item.insertAdjacentHTML("beforebegin", detailsBlock); + + // Now move the toggle-able content inside of the details block + details = item.previousElementSibling + details.appendChild(item) + item.classList.add("toggle-details__container") + + // Set up a click trigger to change the text as needed + details.addEventListener('click', (click) => { + let parent = click.target.parentElement; + if (parent.tagName.toLowerCase() == "details") { + summary = parent.querySelector("summary"); + details = parent; + } else { + summary = parent; + details = parent.parentElement; + } + // Update the inner text for the proper hint + if (details.open) { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintShow; + } else { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintHide; + } + + }); + + // If we have a toggle-shown class, open details block should be open + if (item.classList.contains("toggle-shown")) { + details.click(); + } + } + }) +}; + +// This should simply add / remove the collapsed class and change the button text +var toggleHidden = (button) => { + target = button.dataset['target'] + var itemToToggle = document.getElementById(target); + if (itemToToggle.classList.contains("toggle-hidden")) { + itemToToggle.classList.remove("toggle-hidden"); + button.classList.remove("toggle-button-hidden"); + } else { + itemToToggle.classList.add("toggle-hidden"); + button.classList.add("toggle-button-hidden"); + } +} + +var toggleClickHandler = (click) => { + // Be cause the admonition title is clickable and extends to the whole admonition + // We only look for a click event on this title to trigger the toggle. + + if (click.target.classList.contains("admonition-title")) { + button = click.target.querySelector(".toggle-button"); + } else if (click.target.classList.contains("tb-icon")) { + // We've clicked the icon and need to search up one parent for the button + button = click.target.parentElement; + } else if (click.target.tagName == "polyline") { + // We've clicked the SVG elements inside the button, need to up 2 layers + button = click.target.parentElement.parentElement; + } else if (click.target.classList.contains("toggle-button")) { + // We've clicked the button itself and so don't need to do anything + button = click.target; + } else { + console.log(`[togglebutton]: Couldn't find button for ${click.target}`) + } + target = document.getElementById(button.dataset['button']); + toggleHidden(target); +} + +// If we want to blanket-add toggle classes to certain cells +var addToggleToSelector = () => { + const selector = ""; + if (selector.length > 0) { + document.querySelectorAll(selector).forEach((item) => { + item.classList.add("toggle"); + }) + } +} + +// Helper function to run when the DOM is finished +const sphinxToggleRunWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} +sphinxToggleRunWhenDOMLoaded(addToggleToSelector) +sphinxToggleRunWhenDOMLoaded(initToggleItems) + +/** Toggle details blocks to be open when printing */ +if (toggleOpenOnPrint == "true") { + window.addEventListener("beforeprint", () => { + // Open the details + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.dataset["togglestatus"] = el.open; + el.open = true; + }); + + // Open the admonitions + document.querySelectorAll(".admonition.toggle.toggle-hidden").forEach((el) => { + console.log(el); + el.querySelector("button.toggle-button").click(); + el.dataset["toggle_after_print"] = "true"; + }); + }); + window.addEventListener("afterprint", () => { + // Re-close the details that were closed + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.open = el.dataset["togglestatus"] == "true"; + delete el.dataset["togglestatus"]; + }); + + // Re-close the admonition toggle buttons + document.querySelectorAll(".admonition.toggle").forEach((el) => { + if (el.dataset["toggle_after_print"] == "true") { + el.querySelector("button.toggle-button").click(); + delete el.dataset["toggle_after_print"]; + } + }); + }); +} diff --git a/branch/main/_sources/exercises.md.txt b/branch/main/_sources/exercises.md.txt new file mode 100644 index 0000000..61028b9 --- /dev/null +++ b/branch/main/_sources/exercises.md.txt @@ -0,0 +1,12 @@ +# List of exercises + +## Full list + +This is a list of all exercises and solutions in this lesson, mainly +as a reference for helpers and instructors. This list is +automatically generated from all of the other pages in the lesson. +Any single teaching event will probably cover only a subset of these, +depending on their interests. + +```{exerciselist} +``` diff --git a/branch/main/_sources/gh-pages.md.txt b/branch/main/_sources/gh-pages.md.txt new file mode 100644 index 0000000..ee4e51c --- /dev/null +++ b/branch/main/_sources/gh-pages.md.txt @@ -0,0 +1,62 @@ +(gh-pages)= + +# Hosting websites/homepages on GitHub Pages + + +## Often we don't need more than a static website + +You can host your personal homepage or group webpage or project website on +GitHub using [GitHub Pages](https://pages.github.com/). +[GitLab](https://about.gitlab.com/features/pages/) and +[Bitbucket](https://confluence.atlassian.com/bitbucket/publishing-a-website-on-bitbucket-cloud-221449776.html) +also offer a very similar solution. + +Unless you need user authentication or a sophisticated database behind your +website, [GitHub Pages](https://pages.github.com/) can be a very nice +alternative to running your own web servers. This is how all +[https://coderefinery.org](https://coderefinery.org) material is hosted. + + +## How to find the website URL + +Here below, NAMESPACE can either be a username or an organizational account. + +**Personal homepage or organizational homepage** +- Generated URL: https://**NAMESPACE**.github.io +- Generated from: https://github.com/**NAMESPACE**/**NAMESPACE**.github.io (main branch) + +**Project website** +- Generated URL: https://**NAMESPACE**.github.io/**REPOSITORY** +- Generated from: https://github.com/**NAMESPACE**/**REPOSITORY** (gh-pages branch) + + +## Exercise - Your own website on GitHub Pages + +```{exercise} GH-Pages-2: Host your own github page +- Deploy own website reusing a template: + - Follow the steps from GitHub Pages . + The documentation there is very good so there is no need for us to duplicate the screenshots. + - Select "Project site". + - Select "Choose a theme". + - Follow the instructions on . + - Browse your page on https://**USERNAME**.github.io/**REPOSITORY** (adjust "USERNAME" and "REPOSITORY"). +- Make a change to the repository after the webpage has been deployed for the first time. +- Please wait few minutes and then verify that the change shows up on the website. +``` + +```{callout} Real-life examples +- CodeRefinery website (built using [Zola](https://www.getzola.org/)) + - [Source](https://raw.githubusercontent.com/coderefinery/coderefinery.org/main/content/lessons/core.md) + - Result: +- This lesson (built using [Sphinx](https://www.sphinx-doc.org/) + and [MyST](https://myst-parser.readthedocs.io/) + and [sphinx-lesson](https://coderefinery.github.io/sphinx-lesson/)) + - [Source](https://raw.githubusercontent.com/coderefinery/documentation/main/content/gh-pages.md) + - Result: this page +``` + +```{note} +- You can use HTML directly or another static site generator if you prefer + to not use the default [Jekyll](https://jekyllrb.com/). +- It is no problem to use a custom domain instead of `*.github.io`. +``` diff --git a/branch/main/_sources/gh_workflow.md.txt b/branch/main/_sources/gh_workflow.md.txt new file mode 100644 index 0000000..90bc2c4 --- /dev/null +++ b/branch/main/_sources/gh_workflow.md.txt @@ -0,0 +1,129 @@ +# Deploying Sphinx documentation to GitHub Pages + +```{objectives} +- Create a basic workflow which you can take home and adapt for your project. +``` + +## [GitHub Pages](https://pages.github.com/) + +- Serve websites from a GitHub repository. +- It is no problem to serve using your own URL `https://myproject.org` instead of `https://myuser.github.io/myproject`. + + +## [GitHub Actions](https://github.com/features/actions/) + +- Automatically runs code when your repository changes. +- We will let it run `sphinx-build` and make the result available to GitHub Pages. + + +## Our goal: putting it all together + +- Host source code with documentation sources on a public Git repository. +- Each time we `git push` to the repository, a GitHub action triggers to + rebuild the documentation. +- The documentation is pushed to a separate branch called 'gh-pages'. + +--- + +## Exercise - Deploy Sphinx documentation to GitHub Pages + +````{exercise} GH-Pages-1: Deploy Sphinx documentation to GitHub Pages +In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages. + +**Step 1**: Go to the [documentation-example](https://github.com/coderefinery/documentation-example/generate) project template +on GitHub and create a copy to your namespace. +- Give it a name, for instance "documentation-example". +- You don't need to "Include all branches" +- Click on "Create a repository". + +**Step 2**: Browse the new repository. +- It will look very familar to the previous episode. +- However, we have moved the documentation part under `doc/` (many projects do it this + way). But it is still a Sphinx documentation project. +- The source code for your project could then go under `src/`. + + +**Step 3**: Add the GitHub Action to your new Git repository. +- Add a new file at `.github/workflows/documentation.yml` (either through terminal or web interface), containing: +```yaml +name: documentation + +on: [push, pull_request, workflow_dispatch] + +permissions: + contents: write + +jobs: + docs: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v4 + - uses: actions/setup-python@v5 + - name: Install dependencies + run: | + pip install sphinx sphinx_rtd_theme myst_parser + - name: Sphinx build + run: | + sphinx-build doc _build + - name: Deploy to GitHub Pages + uses: peaceiris/actions-gh-pages@v3 + if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }} + with: + publish_branch: gh-pages + github_token: ${{ secrets.GITHUB_TOKEN }} + publish_dir: _build/ + force_orphan: true +``` +- You don't need to understand all of the above, but you + might spot familiar commands in the `run:` sections. +- After the file has been committed (and pushed), + check the action at `https://github.com/USER/documentation-example/actions` + (replace `USER` with your GitHub username). + +**Step 4**: Enable GitHub Pages +- On GitHub go to "Settings" -> "Pages". +- In the "Source" section, choose "Deploy from a branch" in the dropdown menu. +- In the "Branch" section choose "gh-pages" and "/root" in the dropdown menus and click + save. +- You should now be able to verify the pages deployment in the Actions list). + +**Step 5**: Verify the result +- Your site should now be live on `https://USER.github.io/documentation-example/` (replace USER). + +**Step 6**: Verify refreshing the documentation +- Commit some changes to your documentation +- Verify that the documentation website refreshes after your changes (can take few seconds or a minute) +```` + + +## Alternatives to GitHub Pages + +- [GitLab Pages](https://docs.gitlab.com/ee/user/project/pages/) + and [GitLab CI](https://docs.gitlab.com/ee/ci/) can create a very similar workflow. + +- [Read the Docs](https://readthedocs.org) is the most common alternative to + hosting in GitHub Pages. + +- Sphinx builds HTML files (this is what static site generators do), and you + can host them anywhere, for example your university's web space or own web server. + + +## Migrating your own documentation to Sphinx + +- First convert your documentation to Markdown using [Pandoc](https://pandoc.org). +- Create a file `index.rst` which lists all other Markdown files and provides the + table of contents. +- Add a `conf.py` file. You can generate a starting point for `conf.py` and + `index.rst` with `sphinx-quickstart`, or you can take the examples in this + lesson as inspiration. +- Test building the documentation locally with `sphinx-build`. +- Once this works, follow the above steps to build and deploy to GitHub Pages or some other web space. + +--- + +```{keypoints} +- Sphinx makes simple HTML (and more) files, so it is easy to find a place to host them. +- Github Pages + Github Actions provides a convenient way to make + sites and host them on the web. +``` diff --git a/branch/main/_sources/guide.md.txt b/branch/main/_sources/guide.md.txt new file mode 100644 index 0000000..2334e18 --- /dev/null +++ b/branch/main/_sources/guide.md.txt @@ -0,0 +1,125 @@ +# Instructor guide + + +## Why we teach this lesson + +Everyone should document their code, even if they're working alone. + +These are the main points: +- Code documentation has to be versionnable and branchable +- Code documentation should be tracked together with the source code +- README is often enough + +**Please do not skim over the two above points**. Please take few minutes to +explain why documentation (sources) should be tracked together with the source +code. Please discuss this aspect with workshop participants and connect it to +**reproducibility**. This is for me (Radovan) the most important take-home +message. + +Specific motivations: + +- Code documentation becomes quickly unmanageable if not part of the source code. +- It helps people to quickly use your code thus reducing the time spent to explain over and again to new users. +- It helps people to collaborate. +- It improves the design of your code. + + +## Intended learning outcomes + +By the end of this lesson, learners should: +- Understand the importance of writing code documentation together with the source code +- Know what makes a good documentation +- Learn what tools can be used for writing documentation +- Be able to motivate a balanced decision: sometimes READMEs are absolutely enough + + +## Timing + +As an instructor you should prepare all bullet points but do not go through +each bullet point in detail. Only highlight the main points and rather give +time for a discussion. Leave details for a later lecture for those who want to +find out more. If you go through each bullet point in detail, the motivation +can easily take up 30 minutes and you will run out of time. + +The lesson does not fit into 1.5 hours if you go through everything. Optimize +for discussions and prepare well to be able to jump over bullet points which +can be left for a later lecture. Some sections can be skipped if needed (see +below). However, we recommend to have a discussion with your learners to make +them aware of what the training material contains. + +- Do not insist on practicing Markdown or RST syntax. +- The section *Rendering (LaTeX) math equations* may be optional if your + attendees do not have to deal with equations. +- In the GitHub Pages episode, the + goal is not anymore to write code documentation but to show how to build + project website with GitHub. If time is tight, the GitHub pages episode can be + skipped or can be done as demonstration instead of exercise. + + +## Detailed schedule + +- 09:00 - 09:10 Motivation and tools + - create a wishlist in collaborative notes +- 09:10 - 09:20 Writing good README files + - brief discussion +- 09:20 - 09:40 **Exercises**: README-1, README-2, README-3 (choose one or multiple) +- 09:40 - 10:00 Sphinx and Markdown: Sphinx-1 as type along + +- 10:00 - 10:10 Break + +- 10:10 - 10:40 **Exercises**, Sphinx-2, Sphinx-3, GH-Pages-1 +- 10:40 - 11:00 Discussion, GH Pages, Summary + + +## Place this lesson towards the end of the workshop + +Reason is that with collaborative Git we can create more interesting +documentation exercises. Currently there are some elements of forking and +pushing and this is only really introduced on day two. We have tried this +lesson on day one and it felt too early and disconnected/abrupt. It works best +after the reproducibility lesson since we then reuse the example and it feels +familiar. + + +## Troubleshooting + +### Character encoding issues + +Can arise when using non-utf8 characters in `conf.py`. Diagnose this with `file -i conf.py` +and `locale`. + + +## Live better than reading the website material + +It is better to demonstrate the commands live and type-along. Ideally connecting +to examples discussed earlier. + +In online workshops most of the type-along becomes group exercise work where groups +can share screen and discuss. + + +## Field reports + +### 2022 September + +We were pressed for time (we started 5-10 minutes late, relative to +the schedule below), so we made most of the first lessons fast. In +the schedule below, note that we had the first 10 minutes for +"Motivation" *and* "Popular tools", which we didn't fully realize so +that put us even further behind. Doing these introduction +parts quickly was hard but was probably worth it since we had plenty +of time in the end. For the "tools", one person summarized the point +of each section on the page quickly. The README episode was done +quickly, we basically skipped the exercises to get to Sphinx, and this +put us back on schedule. + +For Sphinx, we did it a lot like you see in the schedule: first +exercise (the basic setup) was type-along, but it was a bit too much +to do in the 10 minutes we had allotted (we typed too fast). But, +people then had a nice long time to make it up and do everything. It +seemed to work well. The GitHub pages deployment could then be done +as a nice, slow demo, and we had plenty of time to ask questions. + +Overall, I think this was the right track, but we could have practiced +doing the first parts even faster, and warned people that we focus on +the Sphinx exercises. diff --git a/branch/main/_sources/in-code-documentation.md.txt b/branch/main/_sources/in-code-documentation.md.txt new file mode 100644 index 0000000..44274ad --- /dev/null +++ b/branch/main/_sources/in-code-documentation.md.txt @@ -0,0 +1,184 @@ +(in-code-documentation)= + +# In-code documentation + +```{questions} +- What can I do to make my code more easily understandable? +- What information should go into comments? +- What are docstrings and what information should go into docstrings? +``` + +In this episode we will learn how to write good documentation inside your code. + + +## Exercise - Writing good comments + +````{exercise} In-code-1: Comments + Let's take a look at two example comments (comments in Python start with `#`): + + **Comment A** + ```python + # now we check if temperature is below -50 + if temperature < -50: + print("ERROR: temperature is too low") + ``` + + **Comment B** + ```python + # we regard temperatures below -50 degrees as measurement errors + if temperature < -50: + print("ERROR: temperature is too low") + ``` + Which of these comments is more useful? Can you explain why? + + ```{solution} Solution + - Comment A describes **what** happens in this piece of code. This can be + useful for somebody who has never seen Python or a program, but for somebody + who has, it can feel like a redundant commentary. + + - Comment B is probably more useful as it describes **why** this piece of code + is there, i.e. its **purpose**. + ``` +```` + + +## Sometimes version control is better than a comment + +````{admonition} Examples for code comments where Git is a better solution + **Keeping zombie code** "just in case" (rather use version control): + ```python + # do not run this code! + # if temperature > 0: + # print("It is warm") + ``` + Instead: Remove the code, you can always find it back in a previous version of your code in Git. + + **Emulating version control**: + ```python + # John Doe: threshold changed from 0 to 15 on August 5, 2013 + if temperature > 15: + print("It is warm") + ``` + Instead: You can get this information from `git log` or `git show` or `git + annotate` or similar. +```` + + +## What are "docstrings" and how can they be useful? + +Here is function `fahrenheit_to_celsius` which converts temperature in +Fahrenheit to Celsius, implemented in a couple of different languages. +Your language is missing? Please contribute an example. + +The first set of examples uses **regular comments**: +````{tabs} + ```{group-tab} Python + ```{literalinclude} code/fahrenheit_to_celsius.py + :language: python + ``` + ``` + + ```{group-tab} R + ```{literalinclude} code/fahrenheit_to_celsius.R + :language: R + ``` + ``` + + ```{group-tab} Julia + ```{literalinclude} code/fahrenheit_to_celsius.jl + :language: Julia + ``` + ``` + + ```{group-tab} Fortran + ```{literalinclude} code/fahrenheit_to_celsius.f90 + :language: fortran + ``` + ``` + + ```{group-tab} C++ + ```{literalinclude} code/fahrenheit_to_celsius.cpp + :language: C++ + ``` + ``` + + ```{group-tab} Rust + ```{literalinclude} code/fahrenheit_to_celsius.rs + :language: rust + ``` + ``` +```` + +The second set uses **docstrings or similar concepts**. Please compare the two +(above and below): +````{tabs} + ```{group-tab} Python + ```{literalinclude} code/fahrenheit_to_celsius_docstring.py + :language: python + ``` + Read more: + ``` + + ```{group-tab} R + ```{literalinclude} code/fahrenheit_to_celsius_docstring.R + :language: R + ``` + Read more: + ``` + + ```{group-tab} Julia + ```{literalinclude} code/fahrenheit_to_celsius_docstring.jl + :language: Julia + ``` + Read more: + ``` + + ```{group-tab} Fortran + ```{literalinclude} code/fahrenheit_to_celsius_docstring.f90 + :language: fortran + ``` + Read more: + ``` + + ```{group-tab} C++ + ```{literalinclude} code/fahrenheit_to_celsius_docstring.cpp + :language: C++ + ``` + Read more: + ``` + + ```{group-tab} Rust + ```{literalinclude} code/fahrenheit_to_celsius_docstring.rs + :language: rust + ``` + Read more: + ``` +```` + +Docstrings can do a bit more than just comments: +- Tools can generate help text automatically from the docstrings. +- Tools can generate documentation pages automatically from code. + +It is common to write docstrings for functions, classes, and modules. + +Good docstrings describe: +- What the function does +- What goes in (including the type of the input variables) +- What goes out (including the return type) + +**Naming is documentation**: +Giving explicit, descriptive names to your code segments (functions, classes, +variables) already provides very useful and important documentation. In +practice you will find that for simple functions it is unnecessary to add a +docstring when the function name and variable names already give enough +information. + +--- + +```{keypoints} +- Comments should describe the why for your code not the what. +- Writing docstrings can be a good way to write documentation while you type + code since it also makes it possible + to query that information from outside the code or to auto-generate + documentation pages. +``` diff --git a/branch/main/_sources/index.md.txt b/branch/main/_sources/index.md.txt new file mode 100644 index 0000000..916977a --- /dev/null +++ b/branch/main/_sources/index.md.txt @@ -0,0 +1,77 @@ +# How to document your research software + +In this lesson we will discuss different solutions for implementing and +deploying code documentation. + +We will start with a discussion about **what makes a good README**. For many +projects, a README is more than enough. + +We will then learn how to build documentation with the +**documentation generator** [Sphinx](https://www.sphinx-doc.org) (and compare it +with others) and how to +deploy it to [Read the Docs](https://readthedocs.org), a service which hosts +open documentation for free. + +This demonstration will be **independent of programming languages**. + +We will also learn how +to deploy a **project website or personal homepage** to [GitHub Pages](https://pages.github.com). +The approach that we will learn will be transferable to +[GitLab Pages](https://about.gitlab.com/features/pages/) and +[Bitbucket Pages](https://pages.bitbucket.io). + +```{prereq} +1. Basic understanding of Git. + +2. For the Sphinx part, You need to have + [sphinx](https://www.sphinx-doc.org) and [sphinx_rtd_theme](https://sphinx-rtd-theme.readthedocs.io/) installed + (they are part of the [coderefinery environment](https://coderefinery.github.io/installation/conda-environment/)). + +3. For the [GitHub Pages](https://pages.github.com) part you need a [GitHub](https://github.com) account. +``` + +```{csv-table} +:widths: auto +:delim: ; + +10 min ; {doc}`wishlist` +10 min ; {doc}`tools` +20 min ; {doc}`in-code-documentation` +30 min ; {doc}`writing-readme-files` +30 min ; {doc}`sphinx` +20 min ; {doc}`gh_workflow` +20 min ; {doc}`gh-pages` +5 min ; {doc}`summary` +``` + +```{toctree} +:maxdepth: 1 +:caption: The lesson + +wishlist.md +tools.md +in-code-documentation.md +writing-readme-files.md +sphinx.md +gh_workflow.md +gh-pages.md +summary.md +``` + +```{toctree} +:maxdepth: 1 +:caption: Reference + +exercises.md +guide.md +license.md +``` + +```{toctree} +:maxdepth: 1 +:caption: About + +All lessons +CodeRefinery +Reusing +``` diff --git a/branch/main/_sources/license.md.txt b/branch/main/_sources/license.md.txt new file mode 100644 index 0000000..d261f28 --- /dev/null +++ b/branch/main/_sources/license.md.txt @@ -0,0 +1,45 @@ +# Credit and license + +This material is provided by CodeRefinery under the licenses stated below. + + +## Website template + +The website template is maintained by [CodeRefinery](https://coderefinery.org/) +and rendered with [sphinx-lesson: structured lessons with Sphinx](https://coderefinery.github.io/sphinx-lesson/). + + +## Instructional material + +All CodeRefinery instructional material is made available under the +[Creative Commons Attribution license (CC-BY-4.0)](https://creativecommons.org/licenses/by/4.0/). +The following is a human-readable summary of (and not a substitute for) +the [full legal text of the CC-BY-4.0 license](https://creativecommons.org/licenses/by/4.0/legalcode). + +You are free: + +- to **Share** - copy and redistribute the material in any medium or format +- to **Adapt** - remix, transform, and build upon the material + +for any purpose, even commercially. The licensor cannot revoke these freedoms as long as you follow these license terms: + +- **Attribution** - You must give appropriate credit + (mentioning that your work is derived from work that is Copyright + (c) CodeRefinery and, where practical, linking to + , provide + a [link to the license](https://creativecommons.org/licenses/by/4.0/), + and indicate if changes were made. You may do so in any + reasonable manner, but not in any way that suggests the licensor + endorses you or your use. + +**No additional restrictions** - You may not apply legal terms or technological +measures that legally restrict others from doing anything the license permits. +With the understanding that: + +- You do not have to comply with the license for elements of the material in + the public domain or where your use is permitted by an applicable exception + or limitation. +- No warranties are given. The license may not give you all of the + permissions necessary for your intended use. For example, other + rights such as publicity, privacy, or moral rights may limit how + you use the material. diff --git a/branch/main/_sources/sphinx.md.txt b/branch/main/_sources/sphinx.md.txt new file mode 100644 index 0000000..f6d0b62 --- /dev/null +++ b/branch/main/_sources/sphinx.md.txt @@ -0,0 +1,423 @@ +(sphinx)= + +# Sphinx and Markdown + +```{objectives} +- Understand how static site generators build websites out of plain + text files. +- Create example Sphinx documentation and learn some Markdown along the way. +``` + +We will take the first steps in creating documentation using Sphinx, and learn some +MyST flavored Markdown syntax along the way. + +```{discussion} This lesson is built with Sphinx +Try to compare the [source +code](https://raw.githubusercontent.com/coderefinery/documentation/main/content/sphinx.md) +and the result side by side. +``` + +Our goal in this episode is to build HTML pages locally on our computers. + +````{prereq} Before we start, let us verify whether we have the software we need + + You may need to activate your CodeRefinery conda environment we set up + in the installation instructions. This was covered as part of the + installation instructions, but the most usual command to do this is: + ```console + $ conda activate coderefinery + ``` + + Check whether Python is available + (you should see a version; precise version is not so important): + ```console + $ python --version + + Python 3.11.5 + ``` + + Check whether Sphinx is available + (you should see a version; precise version is not so important): + ```console + $ sphinx-build --version + + sphinx-build 5.3.0 + ``` + + Check whether the quickstart tool is available + (you should see a version; precise version is not so important): + ```console + $ sphinx-quickstart --version + + sphinx-quickstart 5.3.0 + ``` + + Check whether MyST parser is available + (you should see no output): + ```console + $ python -c "import myst_parser" + ``` + +If the above commands produce an error +(**command not found** or **module not found** or **ModuleNotFoundError**), +please follow our +[installation instructions](https://coderefinery.github.io/installation/conda-environment/). +But please don't give up if you don't have these - the episodes after this one will work even without these +tools. +```` + + +## Exercise: Sphinx quickstart + +````{exercise} Sphinx-1: Generate the basic documentation template + +Create a directory for the example documentation, step into it, and inside +generate the basic documentation template: + +```console +$ mkdir doc-example +$ cd doc-example +$ sphinx-quickstart +``` + +The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release: + +``` +> Separate source and build directories (y/n) [n]: +> Project name: +> Author name(s): +> Project release []: 0.1 +> Project language [en]: +``` + +A couple of files and directories are created: + +| File/directory | Contents | +| -------------- | -------- | +| conf.py | Documentation configuration file | +| index.rst | Main file in Sphinx | +| _build/ | Directory where docs are built (you can decide the name) | +| _templates/ | Your own HTML templates | +| _static/ | Static files (images, styles, etc.) copied to output directory on build | +| Makefile | Makefile to build documentation using make | +| make.bat | Makefile to build documentation using make (Windows) | + +`Makefile` and `make.bat` (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly. + +Let's have a look at the `index.rst` file, which is the main file of your documentation: + +```rst +.. myproject documentation master file, created by + sphinx-quickstart on Sat Sep 23 17:35:26 2023. + You can adapt this file completely to your liking, but it should at least + contain the root `toctree` directive. + +Welcome to myproject's documentation! +===================================== + +.. toctree:: + :maxdepth: 2 + :caption: Contents: + + +Indices and tables +================== + +* :ref:`genindex` +* :ref:`modindex` +* :ref:`search` +``` + +- We will not use the `Indices and tables` section now, so remove it and everything below. +- The top four lines, starting with `..`, are a comment. +- The next lines are the table of contents. We can add content below: + +```rst +.. toctree:: + :maxdepth: 2 + :caption: Contents: + + some-feature.md +``` +Note that `some-feature.md` needs to be indented to align with `:caption:`. + +We now need to tell Sphinx to use markdown files. To do this, we open +`conf.py` and replace the line: +```python +extensions = [] +``` + +with this line so that Sphinx can parse Markdown files: +```python +extensions = ['myst_parser'] +``` + +Let's create the file `some-feature.md` (in Markdown format) which we have just listed in +`index.rst` (which uses reStructured Text format). + +```md +# Some feature + +## Subsection + +Exciting documentation in here. +Let's make a list (empty surrounding lines required): + +- item 1 + + - nested item 1 + - nested item 2 + +- item 2 +- item 3 +``` + +We now build the site: + +```console +$ ls -1 + +_static +_templates +conf.py +index.rst +make.bat +Makefile +some-feature.md + +$ sphinx-build . _build + +... lots of output ... +build succeeded. + +The HTML pages are in _build. + +$ ls -1 _build + +_sources +_static +genindex.html +index.html +objects.inv +search.html +searchindex.js +some-feature.html +``` + +Now open the file `_build/index.html` in your browser. +- Linux users, type: + ```console + $ xdg-open _build/index.html + ``` +- macOS users, type: + ```console + $ open _build/index.html + ``` +- Windows users, type: + ```console + $ start _build/index.html + ``` +- If the above does not work: + Enter `file:///home/user/doc-example/_build/index.html` in your browser (adapting the path to your case). + +Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere. + +Note that you can change the styling by editing `conf.py` and changing the value `html_theme` +(for instance you can set it to `sphinx_rtd_theme` (if you have that Python package installed) +to have the Read the Docs look). +```` + + +## Exercise: Adding more Sphinx content + +`````{exercise} Sphinx-2: Add more content to your example documentation + +1. Add a entry below `some-feature.md` labeled `another-feature.md` (or a better name) to the `index.rst` file. +2. Create a file `another-feature.md` in the same directory as the `index.rst` file. +3. Add some content to `another-feature.md`, rebuild with `sphinx-build . _build`, and refresh the browser to look at the results. +4. Use the [MyST Typography](https://myst-parser.readthedocs.io/en/latest/syntax/typography.html) page as help. + +Experiment with the following Markdown syntax: + +- \*Emphasized text\* and \*\*bold text\*\* + +- Headings: +```md +# Level 1 + +## Level 2 + +### Level 3 + +#### Level 4 +``` + +- An image: `![alt text](image.png)` + +- `[A link](https://www.example.org)` + +- Numbered lists (numbers adjusted automatically): +```md +1. item 1 +2. item 2 +3. item 3 +1. item 4 +1. item 5 +``` + +- Simple tables: +```md +| No. | Prime | +| ---- | ------ | +| 1 | No | +| 2 | Yes | +| 3 | Yes | +| 4 | No | +``` + +- Code blocks: +````markdown +The following is a Python code block: +```python + def hello(): + print("Hello world") +``` + +And this is a C code block: +```c +#include +int main() +{ + printf("Hello, World!"); + return 0; +} +``` +```` + +- You could include an external file (here we assume a file called "example.py" + exists; at the same time we highlight lines 2 and 3): +````markdown +```{literalinclude} example.py +:language: python +:emphasize-lines: 2-3 +``` +```` + +- We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the + [myst-nb](https://myst-nb.readthedocs.io/) extension to be installed. +````` + + +## Exercise: Sphinx and LaTeX + +`````{exercise} Sphinx-3: Rendering (LaTeX) math equations + +Math equations should work out of the box. In some older versions, you might need +to edit `conf.py` and add `sphinx.ext.mathjax`: +```python +extensions = ['myst_parser', 'sphinx.ext.mathjax'] +``` + +Try this (result below): +````markdown +This creates an equation: +```{math} +a^2 + b^2 = c^2 +``` + +This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text. +```` + +This creates an equation: +```{math} +a^2 + b^2 = c^2 +``` + +This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text. +````` + + +## Exercise: Sphinx autodoc + +`````{exercise} (optional) Sphinx-4: Auto-generating documentation from Python docstrings + +1. Write some docstrings in functions and/or class definitions of an `example` python module: +```python +def multiply(a: float, b: float) -> float: + """ + Multiply two numbers. + + :param a: First number. + :param b: Second number. + :return: The product of a and b. + """ + return a * b +``` + +2. In the file `conf.py` modify "extensions" and add 3 lines: +```python +extensions = ['myst_parser', "sphinx.ext.autodoc"] + +autodoc2_packages = [ + "multiply.py" +] +``` + +4. List `apidocs/index` in the toctree in `index.rst`. +```rst +.. toctree:: + :maxdepth: 2 + :caption: Contents: + + some-feature.md + apidocs/index +``` + +5. Re-build the documentation and check the "API reference" section. +````` + + +## Confused about reStructuredText vs. Markdown vs. MyST? + +- At the beginning there was reStructuredText and Sphinx was built for reStructuredText. +- Independently, Markdown was invented and evolved into a couple of flavors. +- Markdown became more and more popular but was limited compared to reStructuredText. +- Later, [MyST](https://myst-parser.readthedocs.io/en/latest/syntax/typography.html) + was invented to be able to write + something that looks like Markdown but in addition can do everything that + reStructuredText can do with extra directives. + + +## Good to know + +- The `_build` directory is a generated directory + and should not be part of the Git repository. We recommend to add `_build` + to `.gitignore` to prevent you from accidentally adding files below + `_build` to the Git repository. +- [sphinx-autobuild](https://pypi.org/project/sphinx-autobuild/) + provides a local web server that will automatically refresh your view + every time you save a file - which makes writing and testing much easier. +- This is useful if you want to check the integrity of all internal and external links: + ```console + $ sphinx-build . -W -b linkcheck _build + ``` + + +## References + +- [Sphinx documentation](https://www.sphinx-doc.org/) +- [Sphinx + ReadTheDocs guide](https://sphinx-rtd-tutorial.readthedocs.io/en/latest/index.html) +- For more Markdown functionality, see the [Markdown guide](https://www.markdownguide.org/basic-syntax/). +- For Sphinx additions, see [Sphinx Markup Constructs](https://www.sphinx-doc.org/en/master/markup/index.html). +- [https://docs.python-guide.org/writing/documentation/](https://docs.python-guide.org/writing/documentation/) + +```{keypoints} +- Sphinx and Markdown is a powerful duo for writing documentation. +- Another option is to use reStructuredText, see the [Sphinx documentation](https://www.sphinx-doc.org/en/stable/rest.html) + and the [quick-reference](https://docutils.sourceforge.net/docs/user/rst/quickref.html) +- In the next episode we will learn how to deploy the documentation to a cloud service and update it + upon every `git push`. +``` diff --git a/branch/main/_sources/summary.md.txt b/branch/main/_sources/summary.md.txt new file mode 100644 index 0000000..4428247 --- /dev/null +++ b/branch/main/_sources/summary.md.txt @@ -0,0 +1,46 @@ +# Summary + +```{questions} +- What recommendations can we take home? +``` + +--- + +## There is not the one right way: it is always a balance + + +**Jupyter notebooks can be good documentation for scripts** + +- For simple scripts and post-processing, Jupyter notebooks can form a nice + self-documenting pipeline. +- They can be a nice way to accompany a paper that analyzed some data. + + +**READMEs or Sphinx?** + +- For smaller projects READMEs can be absolutely enough. +- If the code is closed-source (and hence nobody can see the README), you + probably prefer Sphinx (or similar). +- If you need math equations, Sphinx might be a good fit. + + +**How to make sure that code changes come together with documentation changes?** + +- Make documentation part of your code review. + + +**Read the Docs or GitHub pages or both?** + +- GitHub pages typically serves one version (one branch). However, it is possible to build + several or all branches as part of a workflow. +- Read the Docs can serve several versions (several branches/tags) at the same time. +- Some projects use both. + + +**Consider making your development tutorial-driven** + +- Writing documentation is as important as writing software. +- Focus on how you use the software. +- If there is no tutorial on it, the feature "doesn't exist". +- Don't keep tutorial in sync with code, keep code in sync with tutorial - change the tutorial first. +- Read more in this [fantastic slide-deck](https://virtual.oxfordabstracts.com/#/event/public/3101/submission/11) about tutorial-driven development. diff --git a/branch/main/_sources/tools.md.txt b/branch/main/_sources/tools.md.txt new file mode 100644 index 0000000..cff8afd --- /dev/null +++ b/branch/main/_sources/tools.md.txt @@ -0,0 +1,169 @@ +# Popular tools and solutions + +```{questions} +- What tools are out there? +- What are their pros and cons? +``` + +```{objectives} +- Choose the right tool for the right reason. +``` + +--- + +## In-code documentation + +- Comments, function docstrings, ... +- Advantages + - Good for programmers + - Version controlled alongside code + - Can be used to auto-generate documentation for functions/classes +- Disadvantage + - Probably not enough for users of the code + +We will have a closer look at this in the {ref}`in-code-documentation` episode. + +--- + +## README files + +- Advantages + - Versioned (goes with the code development) + - It is often good enough to have a `README.md` or `README.rst` along with your code/script +- If you use README files, use either + [RST](https://docutils.sourceforge.net/rst.html) or + [Markdown](https://commonmark.org/help/) +- A great guide to README files: [MakeaREADME](https://www.makeareadme.com/) + +We will have a closer look at this in the {ref}`writing-readme-files` episode. + +--- + +## reStructuredText and Markdown + +```markdown +# This is a section in Markdown This is a section in RST + ======================== + +## This is a subsection This is a subsection + -------------------- + +Nothing special needed for Nothing special needed for +a normal paragraph. a normal paragraph. + + :: + + This is a code block This is a code block + + +**Bold** and *emphasized*. **Bold** and *emphasized*. + +A list: A list: +- this is an item - this is an item +- another item - another item + +There is more: images, There is more: images, +tables, links, ... tables, links, ... +``` + +- Two of the most popular lightweight markup languages. +- reStructuredText (RST) has more features than Markdown but the choice is a matter of taste. +- There are (unfortunately) [many flavors of Markdown](https://github.com/jgm/CommonMark/wiki/Markdown-Flavors). +- Motivation to stick to a standard text-based format: **They make it easier to move the documentation to other tools + which also expect a standard format, as the project/organization grows**. +- We will use [MyST](https://myst-parser.readthedocs.io/en/latest/) + flavored Markdown in the {ref}`sphinx` episode and the + {ref}`gh-pages` example. +- Nice resource to learn Markdown: [Learn Markdown in 60 seconds](https://commonmark.org/help/) +- [Pandoc](https://pandoc.org/) can convert between MD and RST (and many other formats). + +--- + +## HTML static site generators + +There are many tools that can turn RST or Markdown into beautiful HTML pages: + +- [Sphinx](https://www.sphinx-doc.org) **← we will exercise this, this is how this lesson material is built** + - Generate HTML/PDF/LaTeX from RST and Markdown. + - Basically all Python projects use Sphinx but **Sphinx is not limited to Python**. + - [Read the docs](https://readthedocs.org) + hosts public Sphinx documentation for free! + - Also hostable anywhere else, like Github pages. + - API documentation possible. + +- [Jekyll](https://jekyllrb.com) + - Generates HTML from Markdown. + - GitHub supports this without adding extra build steps. + +- [pkgdown](https://pkgdown.r-lib.org/) + - Popular in the R community + +- [MkDocs](https://www.mkdocs.org/) +- [GitBook](https://www.gitbook.com/) +- [Hugo](https://gohugo.io) +- [Hexo](https://hexo.io) +- [Zola](https://www.getzola.org/) **<- this is what we use for our project website and workshop websites** +- There are many more ... + +GitHub, GitLab, and Bitbucket make it possible to serve HTML pages: +- [GitHub Pages](https://pages.github.com) +- [Bitbucket Pages](https://pages.bitbucket.io/) +- [GitLab Pages](https://pages.gitlab.io) + +--- + +## Wikis + +- Popular solutions (but many others exist): + - [MediaWiki](https://www.mediawiki.org) + - [Dokuwiki](https://www.dokuwiki.org) +- Advantage + - Barrier to write and edit is low +- Disadvantages + - Typically disconnected from source code repository (**reproducibility**) + - Difficult to serve multiple versions + - Difficult to check out a specific old version + - Typically needs to be hosted and maintained + +--- + +## LaTeX/PDF + +- Advantage + - Popular and familiar in the physics and mathematics community +- Disadvantages + - PDF format is not ideal for copy-pasting of examples + - Possible, but not trivial to automate rebuilding documentation after every Git push + +--- + +## Doxygen + +- Auto-generates API documentation +- Documented directly in the source code +- Popular in the C++ community +- Has support for C, Fortran, Python, Java, etc., + see [Doxygen Github Repo](https://github.com/doxygen/doxygen) +- Many keywords are understood by Doxygen: + [Doxygen special commands](https://www.doxygen.nl/manual/commands.html) +- Can be used to also generate higher-level ("human") documentation +- Can be deployed to GiHub/GitLab/Bitbucket Pages + +--- + +## Other tools + +- Fortran + - [Fortran Documenter (FORD)](https://github.com/Fortran-FOSS-Programmers/ford) + +- Julia + - [Franklin](https://franklinjl.org/): static site generator + - [Documenter.jl](https://juliadocs.github.io/Documenter.jl/stable/) + +- [Quarto](https://quarto.org/) converts markdown to websites, pdfs, ebooks and many other things + +--- + +```{keypoints} +- Some popular solutions make reproducibility and maintenance of multiple code versions difficult. +``` diff --git a/branch/main/_sources/wishlist.md.txt b/branch/main/_sources/wishlist.md.txt new file mode 100644 index 0000000..100748f --- /dev/null +++ b/branch/main/_sources/wishlist.md.txt @@ -0,0 +1,142 @@ +# Motivation and wishlist + +## Motivation + +```{discussion} Motivation-1: Why documenting code? + +**Use the collaborative document**: +- Is project documentation important? Why? +- How would you describe a useful documentation? +- How can you motivate your colleagues to contribute to the documentation? +``` + +```{solution} Our motivation (but let us brainstorm first) + +- You will probably use your code in the future and may forget details. +- You may want others to use your code (almost impossible without documentation). +- You may want others to contribute to the code. +- Shield your limited time and let the documentation answer FAQs. +``` + + +## What do we expect from a suitably good documentation? + +```{note} Documentation comes in different forms - what *is* documentation? + + - **Tutorials**: learning-oriented, allows the newcomer to get started + - **How-to guides**: goal-oriented, shows how to solve a specific problem + - **Explanation**: understanding-oriented, explains a concept + - **Reference**: information-oriented, describes the machinery + + Read more: + - + - + - +``` + +**There is no one size fits all**: often for small projects a `README.md` or +`README.rst` can be enough (more about these formats later). + + +(checklist)= + +## Creating a checklist + +```{discussion} Motivation-2: Create a wishlist + +**Use the collaborative document**: + - Let us create a wishlist for how we would like documentation to be. + - Below are some of our ideas but please do not look at them yet. + - We are sure you will come up with ideas we did not think about. +``` + +````{solution} Our wishlist (but let us brainstorm first) + + **Versions** + + - Your code project should be versioned (version control). + - Enable reproducibility and avoid confusion: **documentation should be versioned** as well. + - Have you ever seen: *"We will soon release a new version and are updating the documentation. + Some features may not be available in the version you have downloaded."*? + + + **Documentation should be placed and tracked close to the source code** + + - Documenting **close to the source code** (e.g. subdirectory ``doc/``) minimizes barrier to contribute. + - I should not need to log in to another machine or service and jump through hoops to contribute. + - It is often good enough to have a `README.md` or `README.rst` along with your code/script. + + + **Use a standard markup language** + + ```{instructor-note} Markup + Markup is a set of human readable instructions that is used to tell the computer how a document shall be styled and structured. By using a markup language we can for example write a `*` or `-` where we want a bullet point to appear in the rendered document. + ``` + - offers formatting flexibility, enforces a basic document structure and the rendered documents can be exported to other formats (e.g. for printing). Also, the source can be read by humans without knowledge of the language in case the rendered document is unavailable. + - We suggest to use either + [reStructuredText (RST)](https://docutils.sourceforge.net/rst.html) or + [Markdown](https://daringfireball.net/projects/markdown/) markup. + - GitHub and GitLab automatically render `README.md` or `README.rst` files. + + + **Copy-paste-able** + + - PDF alone is not enough since **copy-pasting out of a PDF document can be difficult**. + - It is OK to provide a generated PDF in addition to a copy-paste-able format. + + + **Written by humans** + + - Automatically generated documentation (e.g. API documentation) is useful as + complementary documentation but it does not replace tutorials written by + humans. + + + **Installation instructions** + + - Give **step by step instructions for the basic case**. + Additional information and caveats can be linked from there. + - List requirements and dependencies (libraries, compilers, environment). + - Include instructions for how to test for correctness after installation. + + + **Make the license explicit** + + - **Include a LICENSE file** with your source code. + - Without a license, your work is under exclusive copyright by default: + others are not allowed to re-use or modify anything. + - GitHub and GitLab allows to choose a license from common license templates. + + + **Information for contributors** + + - Make it easy for others to contribute: **document how you prefer others to contribute**. + - Users of your code may be shy to contribute code. + Your **documentation provides a platform for your first contributions**. +```` + + +```{admonition} Documentation checklist + + Which items to include depends on the number of users apart from yourself. + + - Purpose + - Authors + - License + - Recommended citation + - Copy-paste-able example to get started + - Dependencies and their versions or version ranges + - Installation instructions + - Tutorials covering key functionality + - Reference documentation (e.g. API) covering all functionality + - How do you want to be asked questions (mailing list or forum or chat or issue tracker) + - Possibly a FAQ section + - Contribution guide +``` + + +```{keypoints} +- Documentation is part of the code and should be versionable. +- Documentation (sources) should be tracked with the corresponding code in the same repository. +- Use standard markup languages such as reStructuredText or Markdown. +``` diff --git a/branch/main/_sources/writing-readme-files.md.txt b/branch/main/_sources/writing-readme-files.md.txt new file mode 100644 index 0000000..8d587f8 --- /dev/null +++ b/branch/main/_sources/writing-readme-files.md.txt @@ -0,0 +1,112 @@ +(writing-readme-files)= + +# Writing good README files + +The README file (often `README.md` or `README.rst`) is usually the first thing +users/collaborators see when visiting your GitHub repository. + +Use it to communicate important information about your project! For many +smaller or mid-size projects, this is enough documentation. It's not that hard +to make a basic one, and it's easy to expand as needed. + + +## Exercise: Have fun testing some README features + +````{exercise} Exercise README-1: Have fun testing some README features you may not have heard about + +- Test the effect of adding the following to your GitHub README ([read + more](https://docs.github.com/en/get-started/writing-on-github/getting-started-with-writing-and-formatting-on-github/basic-writing-and-formatting-syntax#alerts)): + ```markdown + > [!NOTE] + > Highlights information that users should take into account, even when skimming. + + > [!IMPORTANT] + > Crucial information necessary for users to succeed. + + > [!WARNING] + > Critical content demanding immediate user attention due to potential risks. + ``` + +- For more detailed descriptions which you don't want to show by default you + might find this useful (please try it out): + ```markdown +
+ + Short summary + + + Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod + tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, + quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo + consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse + cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non + proident, sunt in culpa qui officia deserunt mollit anim id est laborum. +
+ ``` + +- Would you like to add a badge like this one: [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)? + + Badge that links to a website (see also ): + ```markdown + [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org) + ``` + Badge without link: + ```markdown + ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue) + ``` + +- Know about other tips and tricks? Please share them (send a pull request to this lesson). +```` + + +## Exercise: Improve the README for your own project + +```{exercise} Exercise README-2: Draft or improve a README for one of your recent projects +Try to draft a brief README or review a README which you have written for one +of your projects. + +- You can do that either by screensharing and discussing or working individually. + +- Use the {ref}`checklist ` which we have discussed earlier. + +- Think about the user (**which can be a future you**) of your project, what does this user need to know to use or + contribute to the project? And how do you make your project attractive to use or contribute to? + +- (Optional): Try the [https://hemingwayapp.com/](https://hemingwayapp.com/) to analyse your README file and make your writing bold and clear. + +- Please note observations and recommendations in the collaborative notes. +``` + +--- + +## Exercise: Discuss the README of a project that you use + +```{exercise} Exercise README-3: Review and discuss a README of a project that you have used +In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README. + +- You can do that either by screensharing and discussing or working individually. + +- When discussing other people's projects please remember to be respectful and + constructive. The goal of this exercise is not to criticize other projects but + to learn from other projects and to collect the aspects that you enjoyed + finding in a README and to also collect aspects which you have searched for but + which are sometimes missing. + +- Please note observations and recommendations in the collaborative notes. +``` + +--- + +## Table of contents in README files + +- GitHub automatically generates a [table of contents for README.md files](https://docs.github.com/en/github/creating-cloning-and-archiving-repositories/about-readmes#auto-generated-table-of-contents-for-readme-files). +- On GitLab you can generate a TOC in Markdown with: + ```markdown + [[_TOC_]] + ``` +- With RST you can generate a table of contents (TOC) automatically by adding: + ```rst + .. contents:: Table of Contents + ``` diff --git a/branch/main/_static/_sphinx_javascript_frameworks_compat.js b/branch/main/_static/_sphinx_javascript_frameworks_compat.js new file mode 100644 index 0000000..8141580 --- /dev/null +++ b/branch/main/_static/_sphinx_javascript_frameworks_compat.js @@ -0,0 +1,123 @@ +/* Compatability shim for jQuery and underscores.js. + * + * Copyright Sphinx contributors + * Released under the two clause BSD licence + */ + +/** + * small helper function to urldecode strings + * + * See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/decodeURIComponent#Decoding_query_parameters_from_a_URL + */ +jQuery.urldecode = function(x) { + if (!x) { + return x + } + return decodeURIComponent(x.replace(/\+/g, ' ')); +}; + +/** + * small helper function to urlencode strings + */ +jQuery.urlencode = encodeURIComponent; + +/** + * This function returns the parsed url parameters of the + * current request. Multiple values per key are supported, + * it will always return arrays of strings for the value parts. + */ +jQuery.getQueryParameters = function(s) { + if (typeof s === 'undefined') + s = document.location.search; + var parts = s.substr(s.indexOf('?') + 1).split('&'); + var result = {}; + for (var i = 0; i < parts.length; i++) { + var tmp = parts[i].split('=', 2); + var key = jQuery.urldecode(tmp[0]); + var value = jQuery.urldecode(tmp[1]); + if (key in result) + result[key].push(value); + else + result[key] = [value]; + } + return result; +}; + +/** + * highlight a given string on a jquery object by wrapping it in + * span elements with the given class name. + */ +jQuery.fn.highlightText = function(text, className) { + function highlight(node, addItems) { + if (node.nodeType === 3) { + var val = node.nodeValue; + var pos = val.toLowerCase().indexOf(text); + if (pos >= 0 && + !jQuery(node.parentNode).hasClass(className) && + !jQuery(node.parentNode).hasClass("nohighlight")) { + var span; + var isInSVG = jQuery(node).closest("body, svg, foreignObject").is("svg"); + if (isInSVG) { + span = document.createElementNS("http://www.w3.org/2000/svg", "tspan"); + } else { + span = document.createElement("span"); + span.className = className; + } + span.appendChild(document.createTextNode(val.substr(pos, text.length))); + node.parentNode.insertBefore(span, node.parentNode.insertBefore( + document.createTextNode(val.substr(pos + text.length)), + node.nextSibling)); + node.nodeValue = val.substr(0, pos); + if (isInSVG) { + var rect = document.createElementNS("http://www.w3.org/2000/svg", "rect"); + var bbox = node.parentElement.getBBox(); + rect.x.baseVal.value = bbox.x; + rect.y.baseVal.value = bbox.y; + rect.width.baseVal.value = bbox.width; + rect.height.baseVal.value = bbox.height; + rect.setAttribute('class', className); + addItems.push({ + "parent": node.parentNode, + "target": rect}); + } + } + } + else if (!jQuery(node).is("button, select, textarea")) { + jQuery.each(node.childNodes, function() { + highlight(this, addItems); + }); + } + } + var addItems = []; + var result = this.each(function() { + highlight(this, addItems); + }); + for (var i = 0; i < addItems.length; ++i) { + jQuery(addItems[i].parent).before(addItems[i].target); + } + return result; +}; + +/* + * backward compatibility for jQuery.browser + * This will be supported until firefox bug is fixed. + */ +if (!jQuery.browser) { + jQuery.uaMatch = function(ua) { + ua = ua.toLowerCase(); + + var match = /(chrome)[ \/]([\w.]+)/.exec(ua) || + /(webkit)[ \/]([\w.]+)/.exec(ua) || + /(opera)(?:.*version|)[ \/]([\w.]+)/.exec(ua) || + /(msie) ([\w.]+)/.exec(ua) || + ua.indexOf("compatible") < 0 && /(mozilla)(?:.*? rv:([\w.]+)|)/.exec(ua) || + []; + + return { + browser: match[ 1 ] || "", + version: match[ 2 ] || "0" + }; + }; + jQuery.browser = {}; + jQuery.browser[jQuery.uaMatch(navigator.userAgent).browser] = true; +} diff --git a/branch/main/_static/basic.css b/branch/main/_static/basic.css new file mode 100644 index 0000000..f316efc --- /dev/null +++ b/branch/main/_static/basic.css @@ -0,0 +1,925 @@ +/* + * basic.css + * ~~~~~~~~~ + * + * Sphinx stylesheet -- basic theme. + * + * :copyright: Copyright 2007-2024 by the Sphinx team, see AUTHORS. + * :license: BSD, see LICENSE for details. + * + */ + +/* -- main layout ----------------------------------------------------------- */ + +div.clearer { + clear: both; +} + +div.section::after { + display: block; + content: ''; + clear: left; +} + +/* -- relbar ---------------------------------------------------------------- */ + +div.related { + width: 100%; + font-size: 90%; +} + +div.related h3 { + display: none; +} + +div.related ul { + margin: 0; + padding: 0 0 0 10px; + list-style: none; +} + +div.related li { + display: inline; +} + +div.related li.right { + float: right; + margin-right: 5px; +} + +/* -- sidebar --------------------------------------------------------------- */ + +div.sphinxsidebarwrapper { + padding: 10px 5px 0 10px; +} + +div.sphinxsidebar { + float: left; + width: 230px; + margin-left: -100%; + font-size: 90%; + word-wrap: break-word; + overflow-wrap : break-word; +} + +div.sphinxsidebar ul { + list-style: none; +} + +div.sphinxsidebar ul ul, +div.sphinxsidebar ul.want-points { + margin-left: 20px; + list-style: square; +} + +div.sphinxsidebar ul ul { + margin-top: 0; + margin-bottom: 0; +} + +div.sphinxsidebar form { + margin-top: 10px; +} + +div.sphinxsidebar input { + border: 1px solid #98dbcc; + font-family: sans-serif; + font-size: 1em; +} + +div.sphinxsidebar #searchbox form.search { + overflow: hidden; +} + +div.sphinxsidebar #searchbox input[type="text"] { + float: left; + width: 80%; + padding: 0.25em; + box-sizing: border-box; +} + +div.sphinxsidebar #searchbox input[type="submit"] { + float: left; + width: 20%; + border-left: none; + padding: 0.25em; + box-sizing: border-box; +} + + +img { + border: 0; + max-width: 100%; +} + +/* -- search page ----------------------------------------------------------- */ + +ul.search { + margin: 10px 0 0 20px; + padding: 0; +} + +ul.search li { + padding: 5px 0 5px 20px; + background-image: url(file.png); + background-repeat: no-repeat; + background-position: 0 7px; +} + +ul.search li a { + font-weight: bold; +} + +ul.search li p.context { + color: #888; + margin: 2px 0 0 30px; + text-align: left; +} + +ul.keywordmatches li.goodmatch a { + font-weight: bold; +} + +/* -- index page ------------------------------------------------------------ */ + +table.contentstable { + width: 90%; + margin-left: auto; + margin-right: auto; +} + +table.contentstable p.biglink { + line-height: 150%; +} + +a.biglink { + font-size: 1.3em; +} + +span.linkdescr { + font-style: italic; + padding-top: 5px; + font-size: 90%; +} + +/* -- general index --------------------------------------------------------- */ + +table.indextable { + width: 100%; +} + +table.indextable td { + text-align: left; + vertical-align: top; +} + +table.indextable ul { + margin-top: 0; + margin-bottom: 0; + list-style-type: none; +} + +table.indextable > tbody > tr > td > ul { + padding-left: 0em; +} + +table.indextable tr.pcap { + height: 10px; +} + +table.indextable tr.cap { + margin-top: 10px; + background-color: #f2f2f2; +} + +img.toggler { + margin-right: 3px; + margin-top: 3px; + cursor: pointer; +} + +div.modindex-jumpbox { + border-top: 1px solid #ddd; + border-bottom: 1px solid #ddd; + margin: 1em 0 1em 0; + padding: 0.4em; +} + +div.genindex-jumpbox { + border-top: 1px solid #ddd; + border-bottom: 1px solid #ddd; + margin: 1em 0 1em 0; + padding: 0.4em; +} + +/* -- domain module index --------------------------------------------------- */ + +table.modindextable td { + padding: 2px; + border-collapse: collapse; +} + +/* -- general body styles --------------------------------------------------- */ + +div.body { + min-width: 360px; + max-width: 800px; +} + +div.body p, div.body dd, div.body li, div.body blockquote { + -moz-hyphens: auto; + -ms-hyphens: auto; + -webkit-hyphens: auto; + hyphens: auto; +} + +a.headerlink { + visibility: hidden; +} + +a:visited { + color: #551A8B; +} + +h1:hover > a.headerlink, +h2:hover > a.headerlink, +h3:hover > a.headerlink, +h4:hover > a.headerlink, +h5:hover > a.headerlink, +h6:hover > a.headerlink, +dt:hover > a.headerlink, +caption:hover > a.headerlink, +p.caption:hover > a.headerlink, +div.code-block-caption:hover > a.headerlink { + visibility: visible; +} + +div.body p.caption { + text-align: inherit; +} + +div.body td { + text-align: left; +} + +.first { + margin-top: 0 !important; +} + +p.rubric { + margin-top: 30px; + font-weight: bold; +} + +img.align-left, figure.align-left, .figure.align-left, object.align-left { + clear: left; + float: left; + margin-right: 1em; +} + +img.align-right, figure.align-right, .figure.align-right, object.align-right { + clear: right; + float: right; + margin-left: 1em; +} + +img.align-center, figure.align-center, .figure.align-center, object.align-center { + display: block; + margin-left: auto; + margin-right: auto; +} + +img.align-default, figure.align-default, .figure.align-default { + display: block; + margin-left: auto; + margin-right: auto; +} + +.align-left { + text-align: left; +} + +.align-center { + text-align: center; +} + +.align-default { + text-align: center; +} + +.align-right { + text-align: right; +} + +/* -- sidebars -------------------------------------------------------------- */ + +div.sidebar, +aside.sidebar { + margin: 0 0 0.5em 1em; + border: 1px solid #ddb; + padding: 7px; + background-color: #ffe; + width: 40%; + float: right; + clear: right; + overflow-x: auto; +} + +p.sidebar-title { + font-weight: bold; +} + +nav.contents, +aside.topic, +div.admonition, div.topic, blockquote { + clear: left; +} + +/* -- topics ---------------------------------------------------------------- */ + +nav.contents, +aside.topic, +div.topic { + border: 1px solid #ccc; + padding: 7px; + margin: 10px 0 10px 0; +} + +p.topic-title { + font-size: 1.1em; + font-weight: bold; + margin-top: 10px; +} + +/* -- admonitions ----------------------------------------------------------- */ + +div.admonition { + margin-top: 10px; + margin-bottom: 10px; + padding: 7px; +} + +div.admonition dt { + font-weight: bold; +} + +p.admonition-title { + margin: 0px 10px 5px 0px; + font-weight: bold; +} + +div.body p.centered { + text-align: center; + margin-top: 25px; +} + +/* -- content of sidebars/topics/admonitions -------------------------------- */ + +div.sidebar > :last-child, +aside.sidebar > :last-child, +nav.contents > :last-child, +aside.topic > :last-child, +div.topic > :last-child, +div.admonition > :last-child { + margin-bottom: 0; +} + +div.sidebar::after, +aside.sidebar::after, +nav.contents::after, +aside.topic::after, +div.topic::after, +div.admonition::after, +blockquote::after { + display: block; + content: ''; + clear: both; +} + +/* -- tables ---------------------------------------------------------------- */ + +table.docutils { + margin-top: 10px; + margin-bottom: 10px; + border: 0; + border-collapse: collapse; +} + +table.align-center { + margin-left: auto; + margin-right: auto; +} + +table.align-default { + margin-left: auto; + margin-right: auto; +} + +table caption span.caption-number { + font-style: italic; +} + +table caption span.caption-text { +} + +table.docutils td, table.docutils th { + padding: 1px 8px 1px 5px; + border-top: 0; + border-left: 0; + border-right: 0; + border-bottom: 1px solid #aaa; +} + +th { + text-align: left; + padding-right: 5px; +} + +table.citation { + border-left: solid 1px gray; + margin-left: 1px; +} + +table.citation td { + border-bottom: none; +} + +th > :first-child, +td > :first-child { + margin-top: 0px; +} + +th > :last-child, +td > :last-child { + margin-bottom: 0px; +} + +/* -- figures --------------------------------------------------------------- */ + +div.figure, figure { + margin: 0.5em; + padding: 0.5em; +} + +div.figure p.caption, figcaption { + padding: 0.3em; +} + +div.figure p.caption span.caption-number, +figcaption span.caption-number { + font-style: italic; +} + +div.figure p.caption span.caption-text, +figcaption span.caption-text { +} + +/* -- field list styles ----------------------------------------------------- */ + +table.field-list td, table.field-list th { + border: 0 !important; +} + +.field-list ul { + margin: 0; + padding-left: 1em; +} + +.field-list p { + margin: 0; +} + +.field-name { + -moz-hyphens: manual; + -ms-hyphens: manual; + -webkit-hyphens: manual; + hyphens: manual; +} + +/* -- hlist styles ---------------------------------------------------------- */ + +table.hlist { + margin: 1em 0; +} + +table.hlist td { + vertical-align: top; +} + +/* -- object description styles --------------------------------------------- */ + +.sig { + font-family: 'Consolas', 'Menlo', 'DejaVu Sans Mono', 'Bitstream Vera Sans Mono', monospace; +} + +.sig-name, code.descname { + background-color: transparent; + font-weight: bold; +} + +.sig-name { + font-size: 1.1em; +} + +code.descname { + font-size: 1.2em; +} + +.sig-prename, code.descclassname { + background-color: transparent; +} + +.optional { + font-size: 1.3em; +} + +.sig-paren { + font-size: larger; +} + +.sig-param.n { + font-style: italic; +} + +/* C++ specific styling */ + +.sig-inline.c-texpr, +.sig-inline.cpp-texpr { + font-family: unset; +} + +.sig.c .k, .sig.c .kt, +.sig.cpp .k, .sig.cpp .kt { + color: #0033B3; +} + +.sig.c .m, +.sig.cpp .m { + color: #1750EB; +} + +.sig.c .s, .sig.c .sc, +.sig.cpp .s, .sig.cpp .sc { + color: #067D17; +} + + +/* -- other body styles ----------------------------------------------------- */ + +ol.arabic { + list-style: decimal; +} + +ol.loweralpha { + list-style: lower-alpha; +} + +ol.upperalpha { + list-style: upper-alpha; +} + +ol.lowerroman { + list-style: lower-roman; +} + +ol.upperroman { + list-style: upper-roman; +} + +:not(li) > ol > li:first-child > :first-child, +:not(li) > ul > li:first-child > :first-child { + margin-top: 0px; +} + +:not(li) > ol > li:last-child > :last-child, +:not(li) > ul > li:last-child > :last-child { + margin-bottom: 0px; +} + +ol.simple ol p, +ol.simple ul p, +ul.simple ol p, +ul.simple ul p { + margin-top: 0; +} + +ol.simple > li:not(:first-child) > p, +ul.simple > li:not(:first-child) > p { + margin-top: 0; +} + +ol.simple p, +ul.simple p { + margin-bottom: 0; +} + +aside.footnote > span, +div.citation > span { + float: left; +} +aside.footnote > span:last-of-type, +div.citation > span:last-of-type { + padding-right: 0.5em; +} +aside.footnote > p { + margin-left: 2em; +} +div.citation > p { + margin-left: 4em; +} +aside.footnote > p:last-of-type, +div.citation > p:last-of-type { + margin-bottom: 0em; +} +aside.footnote > p:last-of-type:after, +div.citation > p:last-of-type:after { + content: ""; + clear: both; +} + +dl.field-list { + display: grid; + grid-template-columns: fit-content(30%) auto; +} + +dl.field-list > dt { + font-weight: bold; + word-break: break-word; + padding-left: 0.5em; + padding-right: 5px; +} + +dl.field-list > dd { + padding-left: 0.5em; + margin-top: 0em; + margin-left: 0em; + margin-bottom: 0em; +} + +dl { + margin-bottom: 15px; +} + +dd > :first-child { + margin-top: 0px; +} + +dd ul, dd table { + margin-bottom: 10px; +} + +dd { + margin-top: 3px; + margin-bottom: 10px; + margin-left: 30px; +} + +.sig dd { + margin-top: 0px; + margin-bottom: 0px; +} + +.sig dl { + margin-top: 0px; + margin-bottom: 0px; +} + +dl > dd:last-child, +dl > dd:last-child > :last-child { + margin-bottom: 0; +} + +dt:target, span.highlighted { + background-color: #fbe54e; +} + +rect.highlighted { + fill: #fbe54e; +} + +dl.glossary dt { + font-weight: bold; + font-size: 1.1em; +} + +.versionmodified { + font-style: italic; +} + +.system-message { + background-color: #fda; + padding: 5px; + border: 3px solid red; +} + +.footnote:target { + background-color: #ffa; +} + +.line-block { + display: block; + margin-top: 1em; + margin-bottom: 1em; +} + +.line-block .line-block { + margin-top: 0; + margin-bottom: 0; + margin-left: 1.5em; +} + +.guilabel, .menuselection { + font-family: sans-serif; +} + +.accelerator { + text-decoration: underline; +} + +.classifier { + font-style: oblique; +} + +.classifier:before { + font-style: normal; + margin: 0 0.5em; + content: ":"; + display: inline-block; +} + +abbr, acronym { + border-bottom: dotted 1px; + cursor: help; +} + +.translated { + background-color: rgba(207, 255, 207, 0.2) +} + +.untranslated { + background-color: rgba(255, 207, 207, 0.2) +} + +/* -- code displays --------------------------------------------------------- */ + +pre { + overflow: auto; + overflow-y: hidden; /* fixes display issues on Chrome browsers */ +} + +pre, div[class*="highlight-"] { + clear: both; +} + +span.pre { + -moz-hyphens: none; + -ms-hyphens: none; + -webkit-hyphens: none; + hyphens: none; + white-space: nowrap; +} + +div[class*="highlight-"] { + margin: 1em 0; +} + +td.linenos pre { + border: 0; + background-color: transparent; + color: #aaa; +} + +table.highlighttable { + display: block; +} + +table.highlighttable tbody { + display: block; +} + +table.highlighttable tr { + display: flex; +} + +table.highlighttable td { + margin: 0; + padding: 0; +} + +table.highlighttable td.linenos { + padding-right: 0.5em; +} + +table.highlighttable td.code { + flex: 1; + overflow: hidden; +} + +.highlight .hll { + display: block; +} + +div.highlight pre, +table.highlighttable pre { + margin: 0; +} + +div.code-block-caption + div { + margin-top: 0; +} + +div.code-block-caption { + margin-top: 1em; + padding: 2px 5px; + font-size: small; +} + +div.code-block-caption code { + background-color: transparent; +} + +table.highlighttable td.linenos, +span.linenos, +div.highlight span.gp { /* gp: Generic.Prompt */ + user-select: none; + -webkit-user-select: text; /* Safari fallback only */ + -webkit-user-select: none; /* Chrome/Safari */ + -moz-user-select: none; /* Firefox */ + -ms-user-select: none; /* IE10+ */ +} + +div.code-block-caption span.caption-number { + padding: 0.1em 0.3em; + font-style: italic; +} + +div.code-block-caption span.caption-text { +} + +div.literal-block-wrapper { + margin: 1em 0; +} + +code.xref, a code { + background-color: transparent; + font-weight: bold; +} + +h1 code, h2 code, h3 code, h4 code, h5 code, h6 code { + background-color: transparent; +} + +.viewcode-link { + float: right; +} + +.viewcode-back { + float: right; + font-family: sans-serif; +} + +div.viewcode-block:target { + margin: -1px -10px; + padding: 0 10px; +} + +/* -- math display ---------------------------------------------------------- */ + +img.math { + vertical-align: middle; +} + +div.body div.math p { + text-align: center; +} + +span.eqno { + float: right; +} + +span.eqno a.headerlink { + position: absolute; + z-index: 1; +} + +div.math:hover a.headerlink { + visibility: visible; +} + +/* -- printout stylesheet --------------------------------------------------- */ + +@media print { + div.document, + div.documentwrapper, + div.bodywrapper { + margin: 0 !important; + width: 100%; + } + + div.sphinxsidebar, + div.related, + div.footer, + #top-link { + display: none; + } +} \ No newline at end of file diff --git a/branch/main/_static/check-solid.svg b/branch/main/_static/check-solid.svg new file mode 100644 index 0000000..92fad4b --- /dev/null +++ b/branch/main/_static/check-solid.svg @@ -0,0 +1,4 @@ + + + + diff --git a/branch/main/_static/clipboard.min.js b/branch/main/_static/clipboard.min.js new file mode 100644 index 0000000..54b3c46 --- /dev/null +++ b/branch/main/_static/clipboard.min.js @@ -0,0 +1,7 @@ +/*! + * clipboard.js v2.0.8 + * https://clipboardjs.com/ + * + * Licensed MIT © Zeno Rocha + */ +!function(t,e){"object"==typeof exports&&"object"==typeof module?module.exports=e():"function"==typeof define&&define.amd?define([],e):"object"==typeof exports?exports.ClipboardJS=e():t.ClipboardJS=e()}(this,function(){return n={686:function(t,e,n){"use strict";n.d(e,{default:function(){return o}});var e=n(279),i=n.n(e),e=n(370),u=n.n(e),e=n(817),c=n.n(e);function a(t){try{return document.execCommand(t)}catch(t){return}}var f=function(t){t=c()(t);return a("cut"),t};var l=function(t){var e,n,o,r=1 + + + + diff --git a/branch/main/_static/copybutton.css b/branch/main/_static/copybutton.css new file mode 100644 index 0000000..40eafe5 --- /dev/null +++ b/branch/main/_static/copybutton.css @@ -0,0 +1,93 @@ +/* Copy buttons */ +button.copybtn { + position: absolute; + display: flex; + top: .3em; + right: .3em; + width: 1.7em; + height: 1.7em; + opacity: 0; + transition: opacity 0.3s, border .3s, background-color .3s; + user-select: none; + padding: 0; + border: none; + outline: none; + border-radius: 0.4em; + /* The colors that GitHub uses */ + border: #1b1f2426 1px solid; + background-color: #f6f8fa; + color: #57606a; +} + +button.copybtn.success { + border-color: #22863a; + color: #22863a; +} + +button.copybtn svg { + stroke: currentColor; + width: 1.5em; + height: 1.5em; + padding: 0.1em; +} + +div.highlight { + position: relative; +} + +.highlight:hover button.copybtn { + opacity: 1; +} + +.highlight button.copybtn:hover { + background-color: rgb(235, 235, 235); +} + +.highlight button.copybtn:active { + background-color: rgb(187, 187, 187); +} + +/** + * A minimal CSS-only tooltip copied from: + * https://codepen.io/mildrenben/pen/rVBrpK + * + * To use, write HTML like the following: + * + *

Short

+ */ + .o-tooltip--left { + position: relative; + } + + .o-tooltip--left:after { + opacity: 0; + visibility: hidden; + position: absolute; + content: attr(data-tooltip); + padding: .2em; + font-size: .8em; + left: -.2em; + background: grey; + color: white; + white-space: nowrap; + z-index: 2; + border-radius: 2px; + transform: translateX(-102%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); +} + +.o-tooltip--left:hover:after { + display: block; + opacity: 1; + visibility: visible; + transform: translateX(-100%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); + transition-delay: .5s; +} + +/* By default the copy button shouldn't show up when printing a page */ +@media print { + button.copybtn { + display: none; + } +} diff --git a/branch/main/_static/copybutton.js b/branch/main/_static/copybutton.js new file mode 100644 index 0000000..f3ecd03 --- /dev/null +++ b/branch/main/_static/copybutton.js @@ -0,0 +1,241 @@ +// Localization support +const messages = { + 'en': { + 'copy': 'Copy', + 'copy_to_clipboard': 'Copy to clipboard', + 'copy_success': 'Copied!', + 'copy_failure': 'Failed to copy', + }, + 'es' : { + 'copy': 'Copiar', + 'copy_to_clipboard': 'Copiar al portapapeles', + 'copy_success': '¡Copiado!', + 'copy_failure': 'Error al copiar', + }, + 'de' : { + 'copy': 'Kopieren', + 'copy_to_clipboard': 'In die Zwischenablage kopieren', + 'copy_success': 'Kopiert!', + 'copy_failure': 'Fehler beim Kopieren', + }, + 'fr' : { + 'copy': 'Copier', + 'copy_to_clipboard': 'Copié dans le presse-papier', + 'copy_success': 'Copié !', + 'copy_failure': 'Échec de la copie', + }, + 'ru': { + 'copy': 'Скопировать', + 'copy_to_clipboard': 'Скопировать в буфер', + 'copy_success': 'Скопировано!', + 'copy_failure': 'Не удалось скопировать', + }, + 'zh-CN': { + 'copy': '复制', + 'copy_to_clipboard': '复制到剪贴板', + 'copy_success': '复制成功!', + 'copy_failure': '复制失败', + }, + 'it' : { + 'copy': 'Copiare', + 'copy_to_clipboard': 'Copiato negli appunti', + 'copy_success': 'Copiato!', + 'copy_failure': 'Errore durante la copia', + } +} + +let locale = 'en' +if( document.documentElement.lang !== undefined + && messages[document.documentElement.lang] !== undefined ) { + locale = document.documentElement.lang +} + +let doc_url_root = DOCUMENTATION_OPTIONS.URL_ROOT; +if (doc_url_root == '#') { + doc_url_root = ''; +} + +/** + * SVG files for our copy buttons + */ +let iconCheck = ` + ${messages[locale]['copy_success']} + + +` + +// If the user specified their own SVG use that, otherwise use the default +let iconCopy = ``; +if (!iconCopy) { + iconCopy = ` + ${messages[locale]['copy_to_clipboard']} + + + +` +} + +/** + * Set up copy/paste for code blocks + */ + +const runWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} + +const codeCellId = index => `codecell${index}` + +// Clears selected text since ClipboardJS will select the text when copying +const clearSelection = () => { + if (window.getSelection) { + window.getSelection().removeAllRanges() + } else if (document.selection) { + document.selection.empty() + } +} + +// Changes tooltip text for two seconds, then changes it back +const temporarilyChangeTooltip = (el, oldText, newText) => { + el.setAttribute('data-tooltip', newText) + el.classList.add('success') + setTimeout(() => el.setAttribute('data-tooltip', oldText), 2000) + setTimeout(() => el.classList.remove('success'), 2000) +} + +// Changes the copy button icon for two seconds, then changes it back +const temporarilyChangeIcon = (el) => { + el.innerHTML = iconCheck; + setTimeout(() => {el.innerHTML = iconCopy}, 2000) +} + +const addCopyButtonToCodeCells = () => { + // If ClipboardJS hasn't loaded, wait a bit and try again. This + // happens because we load ClipboardJS asynchronously. + if (window.ClipboardJS === undefined) { + setTimeout(addCopyButtonToCodeCells, 250) + return + } + + // Add copybuttons to all of our code cells + const COPYBUTTON_SELECTOR = 'div.highlight pre'; + const codeCells = document.querySelectorAll(COPYBUTTON_SELECTOR) + codeCells.forEach((codeCell, index) => { + const id = codeCellId(index) + codeCell.setAttribute('id', id) + + const clipboardButton = id => + `` + codeCell.insertAdjacentHTML('afterend', clipboardButton(id)) + }) + +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + promptFound = regexp.test(line) + lineGotPrompt.push(promptFound) + if (removePrompts && promptFound) { + outputLines.push(match[2]) + } else { + outputLines.push(line) + } + gotLineCont = line.endsWith(lineContinuationChar) & useLineCont + if (line.includes(hereDocDelim) & useHereDoc) + gotHereDoc = !gotHereDoc + } else if (!onlyCopyPromptLines) { + outputLines.push(line) + } else if (copyEmptyLines && line.trim() === '') { + outputLines.push(line) + } + } + + // If no lines with the prompt were found then just use original lines + if (lineGotPrompt.some(v => v === true)) { + textContent = outputLines.join('\n'); + } + + // Remove a trailing newline to avoid auto-running when pasting + if (textContent.endsWith("\n")) { + textContent = textContent.slice(0, -1) + } + return textContent +} + + +var copyTargetText = (trigger) => { + var target = document.querySelector(trigger.attributes['data-clipboard-target'].value); + + // get filtered text + let exclude = '.linenos, .gp'; + + let text = filterText(target, exclude); + return formatCopyText(text, '', false, true, true, true, '', '') +} + + // Initialize with a callback so we can modify the text before copy + const clipboard = new ClipboardJS('.copybtn', {text: copyTargetText}) + + // Update UI with error/success messages + clipboard.on('success', event => { + clearSelection() + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_success']) + temporarilyChangeIcon(event.trigger) + }) + + clipboard.on('error', event => { + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_failure']) + }) +} + +runWhenDOMLoaded(addCopyButtonToCodeCells) \ No newline at end of file diff --git a/branch/main/_static/copybutton_funcs.js b/branch/main/_static/copybutton_funcs.js new file mode 100644 index 0000000..dbe1aaa --- /dev/null +++ b/branch/main/_static/copybutton_funcs.js @@ -0,0 +1,73 @@ +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +export function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +export function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + promptFound = regexp.test(line) + lineGotPrompt.push(promptFound) + if (removePrompts && promptFound) { + outputLines.push(match[2]) + } else { + outputLines.push(line) + } + gotLineCont = line.endsWith(lineContinuationChar) & useLineCont + if (line.includes(hereDocDelim) & useHereDoc) + gotHereDoc = !gotHereDoc + } else if (!onlyCopyPromptLines) { + outputLines.push(line) + } else if (copyEmptyLines && line.trim() === '') { + outputLines.push(line) + } + } + + // If no lines with the prompt were found then just use original lines + if (lineGotPrompt.some(v => v === true)) { + textContent = outputLines.join('\n'); + } + + // Remove a trailing newline to avoid auto-running when pasting + if (textContent.endsWith("\n")) { + textContent = textContent.slice(0, -1) + } + return textContent +} diff --git a/branch/main/_static/css/badge_only.css b/branch/main/_static/css/badge_only.css new file mode 100644 index 0000000..c718cee --- /dev/null +++ b/branch/main/_static/css/badge_only.css @@ 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+ return this; // for chaining... + } +})(jQuery); + +// NO good way to do this!. Copy a hack from here +// https://stackoverflow.com/questions/901115/how-can-i-get-query-string-values-in-javascript +// https://stackoverflow.com/a/2880929 +var urlParams; +(window.onpopstate = function () { + var match, + pl = /\+/g, // Regex for replacing addition symbol with a space + search = /([^&=]+)=?([^&]*)/g, + decode = function (s) { return decodeURIComponent(s.replace(pl, " ")); }, + query = window.location.search.substring(1); + urlParams = {}; + while (match = search.exec(query)) + urlParams[decode(match[1])] = decode(match[2]); +})(); + +// Select heading levels +var maxHeading = urlParams['h'] +if (maxHeading === undefined) maxHeading = 2 +var headingLevels = []; +for (h=2 ; h (sections.length-1) ) { + // if we would scroll past bottom, or above top, do nothing + return; + } + + console.log('xxxxxx'); + var targetSection = sections[targetPos]; + console.log(targetSection, typeof(targetSection)); + + // Return targetSection top and height + var secProperties = section_top_and_height(targetSection); + var top = secProperties['top']; + var height = secProperties['height'] + var win_height = window.innerHeight; + //console.info(top, height, win_height) + + var scroll_to = 0; + if (height >= win_height || height == 0) { + scroll_to = top; + } else { + scroll_to = top - (win_height-height)/3.; + } + //console.info(top, height, win_height, scroll_to) + + $('html, body').animate({ + scrollTop: scroll_to //+ 'px' + }, 'fast'); + +} + + +function minipres() { + /* Enable the minipres mode: + - call the hide() function + - set up the scrolling listener + */ + document.addEventListener('keydown', function (event) { + switch(event.which) { + case 37: // left + switch_slide(-1); + event.preventDefault(); + return false; + break; + //case 38: // up + case 39: // right + switch_slide(+1); + event.preventDefault(); + return false; + break; + //case 40: // down + default: + return; // exit this handler for other keys + } + }, true) + + hide() + + // Increase space between sections + //$("div .section").css('margin-bottom', '50%'); 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+} + +/* Pandas tables. Pulled from the Jupyter / nbsphinx CSS */ +div.cell_output table { + border: none; + border-collapse: collapse; + border-spacing: 0; + color: black; + font-size: 1em; + table-layout: fixed; +} + +div.cell_output thead { + border-bottom: 1px solid black; + vertical-align: bottom; +} + +div.cell_output tr, +div.cell_output th, +div.cell_output td { + text-align: right; + vertical-align: middle; + padding: 0.5em 0.5em; + line-height: normal; + white-space: normal; + max-width: none; + border: none; +} + +div.cell_output th { + font-weight: bold; +} + +div.cell_output tbody tr:nth-child(odd) { + background: #f5f5f5; +} + +div.cell_output tbody tr:hover { + background: rgba(66, 165, 245, 0.2); +} + +/** source code line numbers **/ +span.linenos { + opacity: 0.5; +} + +/* Inline text from `paste` operation */ + +span.pasted-text { + font-weight: bold; +} + +span.pasted-inline img { + max-height: 2em; +} + +tbody span.pasted-inline img { + max-height: none; +} + +/* Font colors for 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background-color: #E75C58 +} + +div.highlight .-Color[class*=-BGGreen] { + background-color: #00A250 +} + +div.highlight .-Color[class*=-BGYellow] { + background-color: #DDB62B +} + +div.highlight .-Color[class*=-BGBlue] { + background-color: #208FFB +} + +div.highlight .-Color[class*=-BGMagenta] { + background-color: #D160C4 +} + +div.highlight .-Color[class*=-BGCyan] { + background-color: #60C6C8 +} + +div.highlight .-Color[class*=-BGWhite] { + background-color: #C5C1B4 +} + +/* Font colors for 8-bit ANSI */ + +div.highlight .-Color[class*=-C0] { + color: #000000 +} + +div.highlight .-Color[class*=-BGC0] { + background-color: #000000 +} + +div.highlight .-Color[class*=-C1] { + color: #800000 +} + +div.highlight .-Color[class*=-BGC1] { + background-color: #800000 +} + +div.highlight .-Color[class*=-C2] { + color: #008000 +} + +div.highlight .-Color[class*=-BGC2] { + background-color: #008000 +} + +div.highlight .-Color[class*=-C3] { + color: #808000 +} + +div.highlight .-Color[class*=-BGC3] { + background-color: #808000 +} + +div.highlight .-Color[class*=-C4] { + color: #000080 +} + +div.highlight .-Color[class*=-BGC4] { + background-color: #000080 +} + +div.highlight .-Color[class*=-C5] { + color: #800080 +} + +div.highlight .-Color[class*=-BGC5] { + background-color: #800080 +} + +div.highlight .-Color[class*=-C6] { + color: #008080 +} + +div.highlight .-Color[class*=-BGC6] { + background-color: #008080 +} + +div.highlight .-Color[class*=-C7] { + color: #C0C0C0 +} + +div.highlight .-Color[class*=-BGC7] { + background-color: #C0C0C0 +} + +div.highlight .-Color[class*=-C8] { + color: #808080 +} + +div.highlight .-Color[class*=-BGC8] { + background-color: #808080 +} + +div.highlight .-Color[class*=-C9] { + color: #FF0000 +} + +div.highlight .-Color[class*=-BGC9] { + background-color: #FF0000 +} + +div.highlight .-Color[class*=-C10] { + color: #00FF00 +} + +div.highlight .-Color[class*=-BGC10] { + background-color: #00FF00 +} + +div.highlight .-Color[class*=-C11] { + color: #FFFF00 +} + +div.highlight .-Color[class*=-BGC11] { + background-color: #FFFF00 +} + +div.highlight .-Color[class*=-C12] { + color: #0000FF +} + +div.highlight .-Color[class*=-BGC12] { + background-color: #0000FF +} + +div.highlight .-Color[class*=-C13] { + color: #FF00FF +} + +div.highlight .-Color[class*=-BGC13] { + background-color: #FF00FF +} + +div.highlight .-Color[class*=-C14] { + color: #00FFFF +} + +div.highlight .-Color[class*=-BGC14] { + background-color: #00FFFF +} + +div.highlight .-Color[class*=-C15] { + color: #FFFFFF +} + +div.highlight .-Color[class*=-BGC15] { + background-color: #FFFFFF +} + +div.highlight .-Color[class*=-C16] { + color: #000000 +} + +div.highlight .-Color[class*=-BGC16] { + background-color: #000000 +} + +div.highlight .-Color[class*=-C17] { + color: #00005F +} + +div.highlight .-Color[class*=-BGC17] { + background-color: #00005F +} + +div.highlight .-Color[class*=-C18] { + color: #000087 +} + +div.highlight .-Color[class*=-BGC18] { + background-color: #000087 +} + +div.highlight .-Color[class*=-C19] { + color: #0000AF +} + +div.highlight .-Color[class*=-BGC19] { + background-color: #0000AF +} + +div.highlight .-Color[class*=-C20] { + color: #0000D7 +} + +div.highlight .-Color[class*=-BGC20] { + background-color: #0000D7 +} + +div.highlight .-Color[class*=-C21] { + color: #0000FF +} + +div.highlight .-Color[class*=-BGC21] { + background-color: #0000FF +} + +div.highlight .-Color[class*=-C22] { + color: #005F00 +} + +div.highlight .-Color[class*=-BGC22] { + background-color: #005F00 +} + +div.highlight .-Color[class*=-C23] { + color: #005F5F +} + +div.highlight .-Color[class*=-BGC23] { + background-color: #005F5F +} + +div.highlight .-Color[class*=-C24] { + color: #005F87 +} + +div.highlight .-Color[class*=-BGC24] { + background-color: #005F87 +} + +div.highlight .-Color[class*=-C25] { + color: #005FAF +} + +div.highlight .-Color[class*=-BGC25] { + background-color: #005FAF +} + +div.highlight .-Color[class*=-C26] { + color: #005FD7 +} + +div.highlight .-Color[class*=-BGC26] { + background-color: #005FD7 +} + +div.highlight .-Color[class*=-C27] { + color: #005FFF +} + +div.highlight .-Color[class*=-BGC27] { + background-color: #005FFF +} + +div.highlight .-Color[class*=-C28] { + color: #008700 +} + +div.highlight .-Color[class*=-BGC28] { + background-color: #008700 +} + +div.highlight .-Color[class*=-C29] { + color: #00875F +} + +div.highlight .-Color[class*=-BGC29] { + background-color: #00875F +} + +div.highlight .-Color[class*=-C30] { + color: #008787 +} + +div.highlight .-Color[class*=-BGC30] { + background-color: #008787 +} + +div.highlight .-Color[class*=-C31] { + color: #0087AF +} + +div.highlight .-Color[class*=-BGC31] { + background-color: #0087AF +} + +div.highlight .-Color[class*=-C32] { + color: #0087D7 +} + +div.highlight .-Color[class*=-BGC32] { + background-color: #0087D7 +} + +div.highlight .-Color[class*=-C33] { + color: #0087FF +} + +div.highlight .-Color[class*=-BGC33] { + background-color: #0087FF +} + +div.highlight .-Color[class*=-C34] { + color: #00AF00 +} + +div.highlight .-Color[class*=-BGC34] { + background-color: #00AF00 +} + +div.highlight .-Color[class*=-C35] { + color: #00AF5F +} + +div.highlight .-Color[class*=-BGC35] { + background-color: #00AF5F +} + +div.highlight .-Color[class*=-C36] { + color: #00AF87 +} + +div.highlight .-Color[class*=-BGC36] { + background-color: #00AF87 +} + +div.highlight .-Color[class*=-C37] { + color: #00AFAF +} + +div.highlight .-Color[class*=-BGC37] { + background-color: #00AFAF +} + +div.highlight .-Color[class*=-C38] { + color: #00AFD7 +} + +div.highlight .-Color[class*=-BGC38] { + background-color: #00AFD7 +} + +div.highlight .-Color[class*=-C39] { + color: #00AFFF +} + +div.highlight .-Color[class*=-BGC39] { + background-color: #00AFFF +} + +div.highlight .-Color[class*=-C40] { + color: #00D700 +} + +div.highlight .-Color[class*=-BGC40] { + background-color: #00D700 +} + +div.highlight .-Color[class*=-C41] { + color: #00D75F +} + +div.highlight .-Color[class*=-BGC41] { + background-color: #00D75F +} + +div.highlight .-Color[class*=-C42] { + color: #00D787 +} + +div.highlight .-Color[class*=-BGC42] { + background-color: #00D787 +} + +div.highlight .-Color[class*=-C43] { + color: #00D7AF +} + +div.highlight .-Color[class*=-BGC43] { + background-color: #00D7AF +} + +div.highlight .-Color[class*=-C44] { + color: #00D7D7 +} + +div.highlight .-Color[class*=-BGC44] { + background-color: #00D7D7 +} + +div.highlight .-Color[class*=-C45] { + color: #00D7FF +} + +div.highlight .-Color[class*=-BGC45] { + background-color: #00D7FF +} + +div.highlight .-Color[class*=-C46] { + color: #00FF00 +} + +div.highlight .-Color[class*=-BGC46] { + background-color: #00FF00 +} + +div.highlight .-Color[class*=-C47] { + color: #00FF5F +} + +div.highlight .-Color[class*=-BGC47] { + background-color: #00FF5F +} + +div.highlight .-Color[class*=-C48] { + color: #00FF87 +} + +div.highlight .-Color[class*=-BGC48] { + background-color: #00FF87 +} + +div.highlight .-Color[class*=-C49] { + color: #00FFAF +} + +div.highlight .-Color[class*=-BGC49] { + background-color: #00FFAF +} + +div.highlight .-Color[class*=-C50] { + color: #00FFD7 +} + +div.highlight .-Color[class*=-BGC50] { + background-color: #00FFD7 +} + +div.highlight .-Color[class*=-C51] { + color: #00FFFF +} + +div.highlight .-Color[class*=-BGC51] { + background-color: #00FFFF +} + +div.highlight .-Color[class*=-C52] { + color: #5F0000 +} + +div.highlight .-Color[class*=-BGC52] { + background-color: #5F0000 +} + +div.highlight .-Color[class*=-C53] { + color: #5F005F +} + +div.highlight .-Color[class*=-BGC53] { + background-color: #5F005F +} + +div.highlight .-Color[class*=-C54] { + color: #5F0087 +} + +div.highlight .-Color[class*=-BGC54] { + background-color: #5F0087 +} + +div.highlight .-Color[class*=-C55] { + color: #5F00AF +} + +div.highlight .-Color[class*=-BGC55] { + background-color: #5F00AF +} + +div.highlight .-Color[class*=-C56] { + color: #5F00D7 +} + +div.highlight .-Color[class*=-BGC56] { + background-color: #5F00D7 +} + +div.highlight .-Color[class*=-C57] { + color: #5F00FF +} + +div.highlight .-Color[class*=-BGC57] { + background-color: #5F00FF +} + +div.highlight .-Color[class*=-C58] { + color: #5F5F00 +} + +div.highlight .-Color[class*=-BGC58] { + background-color: #5F5F00 +} + +div.highlight .-Color[class*=-C59] { + color: #5F5F5F +} + +div.highlight .-Color[class*=-BGC59] { + background-color: #5F5F5F +} + +div.highlight .-Color[class*=-C60] { + color: #5F5F87 +} + +div.highlight .-Color[class*=-BGC60] { + background-color: #5F5F87 +} + +div.highlight .-Color[class*=-C61] { + color: #5F5FAF +} + +div.highlight .-Color[class*=-BGC61] { + background-color: #5F5FAF +} + +div.highlight .-Color[class*=-C62] { + color: #5F5FD7 +} + +div.highlight .-Color[class*=-BGC62] { + background-color: #5F5FD7 +} + +div.highlight .-Color[class*=-C63] { + color: #5F5FFF +} + +div.highlight .-Color[class*=-BGC63] { + background-color: #5F5FFF +} + +div.highlight .-Color[class*=-C64] { + color: #5F8700 +} + +div.highlight .-Color[class*=-BGC64] { + background-color: #5F8700 +} + +div.highlight .-Color[class*=-C65] { + color: #5F875F +} + +div.highlight .-Color[class*=-BGC65] { + background-color: #5F875F +} + +div.highlight .-Color[class*=-C66] { + color: #5F8787 +} + +div.highlight .-Color[class*=-BGC66] { + background-color: #5F8787 +} + +div.highlight .-Color[class*=-C67] { + color: #5F87AF +} + +div.highlight .-Color[class*=-BGC67] { + background-color: #5F87AF +} + +div.highlight .-Color[class*=-C68] { + color: #5F87D7 +} + +div.highlight .-Color[class*=-BGC68] { + background-color: #5F87D7 +} + +div.highlight .-Color[class*=-C69] { + color: #5F87FF +} + +div.highlight .-Color[class*=-BGC69] { + background-color: #5F87FF +} + +div.highlight .-Color[class*=-C70] { + color: #5FAF00 +} + +div.highlight .-Color[class*=-BGC70] { + background-color: #5FAF00 +} + +div.highlight .-Color[class*=-C71] { + color: #5FAF5F +} + +div.highlight .-Color[class*=-BGC71] { + background-color: #5FAF5F +} + +div.highlight .-Color[class*=-C72] { + color: #5FAF87 +} + +div.highlight .-Color[class*=-BGC72] { + background-color: #5FAF87 +} + +div.highlight .-Color[class*=-C73] { + color: #5FAFAF +} + +div.highlight .-Color[class*=-BGC73] { + background-color: #5FAFAF +} + +div.highlight .-Color[class*=-C74] { + color: #5FAFD7 +} + +div.highlight .-Color[class*=-BGC74] { + background-color: #5FAFD7 +} + +div.highlight .-Color[class*=-C75] { + color: #5FAFFF +} + +div.highlight .-Color[class*=-BGC75] { + background-color: #5FAFFF +} + +div.highlight .-Color[class*=-C76] { + color: #5FD700 +} + +div.highlight .-Color[class*=-BGC76] { + background-color: #5FD700 +} + +div.highlight .-Color[class*=-C77] { + color: #5FD75F +} + +div.highlight .-Color[class*=-BGC77] { + background-color: #5FD75F +} + +div.highlight .-Color[class*=-C78] { + color: #5FD787 +} + +div.highlight .-Color[class*=-BGC78] { + background-color: #5FD787 +} + +div.highlight .-Color[class*=-C79] { + color: #5FD7AF +} + +div.highlight .-Color[class*=-BGC79] { + background-color: #5FD7AF +} + +div.highlight .-Color[class*=-C80] { + color: #5FD7D7 +} + +div.highlight .-Color[class*=-BGC80] { + background-color: #5FD7D7 +} + +div.highlight .-Color[class*=-C81] { + color: #5FD7FF +} + +div.highlight .-Color[class*=-BGC81] { + background-color: #5FD7FF +} + +div.highlight .-Color[class*=-C82] { + color: #5FFF00 +} + +div.highlight .-Color[class*=-BGC82] { + background-color: #5FFF00 +} + +div.highlight .-Color[class*=-C83] { + color: #5FFF5F +} + +div.highlight .-Color[class*=-BGC83] { + background-color: #5FFF5F +} + +div.highlight .-Color[class*=-C84] { + color: #5FFF87 +} + +div.highlight .-Color[class*=-BGC84] { + background-color: #5FFF87 +} + +div.highlight .-Color[class*=-C85] { + color: #5FFFAF +} + +div.highlight .-Color[class*=-BGC85] { + background-color: #5FFFAF +} + +div.highlight .-Color[class*=-C86] { + color: #5FFFD7 +} + +div.highlight .-Color[class*=-BGC86] { + background-color: #5FFFD7 +} + +div.highlight .-Color[class*=-C87] { + color: #5FFFFF +} + +div.highlight .-Color[class*=-BGC87] { + background-color: #5FFFFF +} + +div.highlight .-Color[class*=-C88] { + color: #870000 +} + +div.highlight .-Color[class*=-BGC88] { + background-color: #870000 +} + +div.highlight .-Color[class*=-C89] { + color: #87005F +} + +div.highlight .-Color[class*=-BGC89] { + background-color: #87005F +} + +div.highlight .-Color[class*=-C90] { + color: #870087 +} + +div.highlight .-Color[class*=-BGC90] { + background-color: #870087 +} + +div.highlight .-Color[class*=-C91] { + color: #8700AF +} + +div.highlight .-Color[class*=-BGC91] { + background-color: #8700AF +} + +div.highlight .-Color[class*=-C92] { + color: #8700D7 +} + +div.highlight .-Color[class*=-BGC92] { + background-color: #8700D7 +} + +div.highlight .-Color[class*=-C93] { + color: #8700FF +} + +div.highlight .-Color[class*=-BGC93] { + background-color: #8700FF +} + +div.highlight .-Color[class*=-C94] { + color: #875F00 +} + +div.highlight .-Color[class*=-BGC94] { + background-color: #875F00 +} + +div.highlight .-Color[class*=-C95] { + color: #875F5F +} + +div.highlight .-Color[class*=-BGC95] { + background-color: #875F5F +} + +div.highlight .-Color[class*=-C96] { + color: #875F87 +} + +div.highlight .-Color[class*=-BGC96] { + background-color: #875F87 +} + +div.highlight .-Color[class*=-C97] { + color: #875FAF +} + +div.highlight .-Color[class*=-BGC97] { + background-color: #875FAF +} + +div.highlight .-Color[class*=-C98] { + color: #875FD7 +} + +div.highlight .-Color[class*=-BGC98] { + background-color: #875FD7 +} + +div.highlight .-Color[class*=-C99] { + color: #875FFF +} + +div.highlight .-Color[class*=-BGC99] { + background-color: #875FFF +} + +div.highlight .-Color[class*=-C100] { + color: #878700 +} + +div.highlight .-Color[class*=-BGC100] { + background-color: #878700 +} + +div.highlight .-Color[class*=-C101] { + color: #87875F +} + +div.highlight .-Color[class*=-BGC101] { + background-color: #87875F +} + +div.highlight .-Color[class*=-C102] { + color: #878787 +} + +div.highlight .-Color[class*=-BGC102] { + background-color: #878787 +} + +div.highlight .-Color[class*=-C103] { + color: #8787AF +} + +div.highlight .-Color[class*=-BGC103] { + background-color: #8787AF +} + +div.highlight .-Color[class*=-C104] { + color: #8787D7 +} + +div.highlight .-Color[class*=-BGC104] { + background-color: #8787D7 +} + +div.highlight .-Color[class*=-C105] { + color: #8787FF +} + +div.highlight .-Color[class*=-BGC105] { + background-color: #8787FF +} + +div.highlight .-Color[class*=-C106] { + color: #87AF00 +} + +div.highlight .-Color[class*=-BGC106] { + background-color: #87AF00 +} + +div.highlight .-Color[class*=-C107] { + color: #87AF5F +} + +div.highlight .-Color[class*=-BGC107] { + background-color: #87AF5F +} + +div.highlight .-Color[class*=-C108] { + color: #87AF87 +} + +div.highlight .-Color[class*=-BGC108] { + background-color: #87AF87 +} + +div.highlight .-Color[class*=-C109] { + color: #87AFAF +} + +div.highlight .-Color[class*=-BGC109] { + background-color: #87AFAF +} + +div.highlight .-Color[class*=-C110] { + color: #87AFD7 +} + +div.highlight .-Color[class*=-BGC110] { + background-color: #87AFD7 +} + +div.highlight .-Color[class*=-C111] { + color: #87AFFF +} + +div.highlight .-Color[class*=-BGC111] { + background-color: #87AFFF +} + +div.highlight .-Color[class*=-C112] { + color: #87D700 +} + +div.highlight .-Color[class*=-BGC112] { + background-color: #87D700 +} + +div.highlight .-Color[class*=-C113] { + color: #87D75F +} + +div.highlight .-Color[class*=-BGC113] { + background-color: #87D75F +} + +div.highlight .-Color[class*=-C114] { + color: #87D787 +} + +div.highlight .-Color[class*=-BGC114] { + background-color: #87D787 +} + +div.highlight .-Color[class*=-C115] { + color: #87D7AF +} + +div.highlight .-Color[class*=-BGC115] { + background-color: #87D7AF +} + +div.highlight .-Color[class*=-C116] { + color: #87D7D7 +} + +div.highlight .-Color[class*=-BGC116] { + background-color: #87D7D7 +} + +div.highlight .-Color[class*=-C117] { + color: #87D7FF +} + +div.highlight .-Color[class*=-BGC117] { + background-color: #87D7FF +} + +div.highlight .-Color[class*=-C118] { + color: #87FF00 +} + +div.highlight .-Color[class*=-BGC118] { + background-color: #87FF00 +} + +div.highlight .-Color[class*=-C119] { + color: #87FF5F +} + +div.highlight .-Color[class*=-BGC119] { + background-color: #87FF5F +} + +div.highlight .-Color[class*=-C120] { + color: #87FF87 +} + +div.highlight .-Color[class*=-BGC120] { + background-color: #87FF87 +} + +div.highlight .-Color[class*=-C121] { + color: #87FFAF +} + +div.highlight .-Color[class*=-BGC121] { + background-color: #87FFAF +} + +div.highlight .-Color[class*=-C122] { + color: #87FFD7 +} + +div.highlight .-Color[class*=-BGC122] { + background-color: #87FFD7 +} + +div.highlight .-Color[class*=-C123] { + color: #87FFFF +} + +div.highlight .-Color[class*=-BGC123] { + background-color: #87FFFF +} + +div.highlight .-Color[class*=-C124] { + color: #AF0000 +} + +div.highlight .-Color[class*=-BGC124] { + background-color: #AF0000 +} + +div.highlight .-Color[class*=-C125] { + color: #AF005F +} + +div.highlight .-Color[class*=-BGC125] { + background-color: #AF005F +} + +div.highlight .-Color[class*=-C126] { + color: #AF0087 +} + +div.highlight .-Color[class*=-BGC126] { + background-color: #AF0087 +} + +div.highlight .-Color[class*=-C127] { + color: #AF00AF +} + +div.highlight .-Color[class*=-BGC127] { + background-color: #AF00AF +} + +div.highlight .-Color[class*=-C128] { + color: #AF00D7 +} + +div.highlight .-Color[class*=-BGC128] { + background-color: #AF00D7 +} + +div.highlight .-Color[class*=-C129] { + color: #AF00FF +} + +div.highlight .-Color[class*=-BGC129] { + background-color: #AF00FF +} + +div.highlight .-Color[class*=-C130] { + color: #AF5F00 +} + +div.highlight .-Color[class*=-BGC130] { + background-color: #AF5F00 +} + +div.highlight .-Color[class*=-C131] { + color: #AF5F5F +} + +div.highlight .-Color[class*=-BGC131] { + background-color: #AF5F5F +} + +div.highlight .-Color[class*=-C132] { + color: #AF5F87 +} + +div.highlight .-Color[class*=-BGC132] { + background-color: #AF5F87 +} + +div.highlight .-Color[class*=-C133] { + color: #AF5FAF +} + +div.highlight .-Color[class*=-BGC133] { + background-color: #AF5FAF +} + +div.highlight .-Color[class*=-C134] { + color: #AF5FD7 +} + +div.highlight .-Color[class*=-BGC134] { + background-color: #AF5FD7 +} + +div.highlight .-Color[class*=-C135] { + color: #AF5FFF +} + +div.highlight .-Color[class*=-BGC135] { + background-color: #AF5FFF +} + +div.highlight .-Color[class*=-C136] { + color: #AF8700 +} + +div.highlight .-Color[class*=-BGC136] { + background-color: #AF8700 +} + +div.highlight .-Color[class*=-C137] { + color: #AF875F +} + +div.highlight .-Color[class*=-BGC137] { + background-color: #AF875F +} + +div.highlight .-Color[class*=-C138] { + color: #AF8787 +} + +div.highlight .-Color[class*=-BGC138] { + background-color: #AF8787 +} + +div.highlight .-Color[class*=-C139] { + color: #AF87AF +} + +div.highlight .-Color[class*=-BGC139] { + background-color: #AF87AF +} + +div.highlight .-Color[class*=-C140] { + color: #AF87D7 +} + +div.highlight .-Color[class*=-BGC140] { + background-color: #AF87D7 +} + +div.highlight .-Color[class*=-C141] { + color: #AF87FF +} + +div.highlight .-Color[class*=-BGC141] { + background-color: #AF87FF +} + +div.highlight .-Color[class*=-C142] { + color: #AFAF00 +} + +div.highlight .-Color[class*=-BGC142] { + background-color: #AFAF00 +} + +div.highlight .-Color[class*=-C143] { + color: #AFAF5F +} + +div.highlight .-Color[class*=-BGC143] { + background-color: #AFAF5F +} + +div.highlight .-Color[class*=-C144] { + color: #AFAF87 +} + +div.highlight .-Color[class*=-BGC144] { + background-color: #AFAF87 +} + +div.highlight .-Color[class*=-C145] { + color: #AFAFAF +} + +div.highlight .-Color[class*=-BGC145] { + background-color: #AFAFAF +} + +div.highlight .-Color[class*=-C146] { + color: #AFAFD7 +} + +div.highlight .-Color[class*=-BGC146] { + background-color: #AFAFD7 +} + +div.highlight .-Color[class*=-C147] { + color: #AFAFFF +} + +div.highlight .-Color[class*=-BGC147] { + background-color: #AFAFFF +} + +div.highlight .-Color[class*=-C148] { + color: #AFD700 +} + +div.highlight .-Color[class*=-BGC148] { + background-color: #AFD700 +} + +div.highlight .-Color[class*=-C149] { + color: #AFD75F +} + +div.highlight .-Color[class*=-BGC149] { + background-color: #AFD75F +} + +div.highlight .-Color[class*=-C150] { + color: #AFD787 +} + +div.highlight .-Color[class*=-BGC150] { + background-color: #AFD787 +} + +div.highlight .-Color[class*=-C151] { + color: #AFD7AF +} + +div.highlight .-Color[class*=-BGC151] { + background-color: #AFD7AF +} + +div.highlight .-Color[class*=-C152] { + color: #AFD7D7 +} + +div.highlight .-Color[class*=-BGC152] { + background-color: #AFD7D7 +} + +div.highlight .-Color[class*=-C153] { + color: #AFD7FF +} + +div.highlight .-Color[class*=-BGC153] { + background-color: #AFD7FF +} + +div.highlight .-Color[class*=-C154] { + color: #AFFF00 +} + +div.highlight .-Color[class*=-BGC154] { + background-color: #AFFF00 +} + +div.highlight .-Color[class*=-C155] { + color: #AFFF5F +} + +div.highlight .-Color[class*=-BGC155] { + background-color: #AFFF5F +} + +div.highlight .-Color[class*=-C156] { + color: #AFFF87 +} + +div.highlight .-Color[class*=-BGC156] { + background-color: #AFFF87 +} + +div.highlight .-Color[class*=-C157] { + color: #AFFFAF +} + +div.highlight .-Color[class*=-BGC157] { + background-color: #AFFFAF +} + +div.highlight .-Color[class*=-C158] { + color: #AFFFD7 +} + +div.highlight .-Color[class*=-BGC158] { + background-color: #AFFFD7 +} + +div.highlight .-Color[class*=-C159] { + color: #AFFFFF +} + +div.highlight .-Color[class*=-BGC159] { + background-color: #AFFFFF +} + +div.highlight .-Color[class*=-C160] { + color: #D70000 +} + +div.highlight .-Color[class*=-BGC160] { + background-color: #D70000 +} + +div.highlight .-Color[class*=-C161] { + color: #D7005F +} + +div.highlight .-Color[class*=-BGC161] { + background-color: #D7005F +} + +div.highlight .-Color[class*=-C162] { + color: #D70087 +} + +div.highlight .-Color[class*=-BGC162] { + background-color: #D70087 +} + +div.highlight .-Color[class*=-C163] { + color: #D700AF +} + +div.highlight .-Color[class*=-BGC163] { + background-color: #D700AF +} + +div.highlight .-Color[class*=-C164] { + color: #D700D7 +} + +div.highlight .-Color[class*=-BGC164] { + background-color: #D700D7 +} + +div.highlight .-Color[class*=-C165] { + color: #D700FF +} + +div.highlight .-Color[class*=-BGC165] { + background-color: #D700FF +} + +div.highlight .-Color[class*=-C166] { + color: #D75F00 +} + +div.highlight .-Color[class*=-BGC166] { + background-color: #D75F00 +} + +div.highlight .-Color[class*=-C167] { + color: #D75F5F +} + +div.highlight .-Color[class*=-BGC167] { + background-color: #D75F5F +} + +div.highlight .-Color[class*=-C168] { + color: #D75F87 +} + +div.highlight .-Color[class*=-BGC168] { + background-color: #D75F87 +} + +div.highlight .-Color[class*=-C169] { + color: #D75FAF +} + +div.highlight .-Color[class*=-BGC169] { + background-color: #D75FAF +} + +div.highlight .-Color[class*=-C170] { + color: #D75FD7 +} + +div.highlight .-Color[class*=-BGC170] { + background-color: #D75FD7 +} + +div.highlight .-Color[class*=-C171] { + color: #D75FFF +} + +div.highlight .-Color[class*=-BGC171] { + background-color: #D75FFF +} + +div.highlight .-Color[class*=-C172] { + color: #D78700 +} + +div.highlight .-Color[class*=-BGC172] { + background-color: #D78700 +} + +div.highlight .-Color[class*=-C173] { + color: #D7875F +} + +div.highlight .-Color[class*=-BGC173] { + background-color: #D7875F +} + +div.highlight .-Color[class*=-C174] { + color: #D78787 +} + +div.highlight .-Color[class*=-BGC174] { + background-color: #D78787 +} + +div.highlight .-Color[class*=-C175] { + color: #D787AF +} + +div.highlight .-Color[class*=-BGC175] { + background-color: #D787AF +} + +div.highlight .-Color[class*=-C176] { + color: #D787D7 +} + +div.highlight .-Color[class*=-BGC176] { + background-color: #D787D7 +} + +div.highlight .-Color[class*=-C177] { + color: #D787FF +} + +div.highlight .-Color[class*=-BGC177] { + background-color: #D787FF +} + +div.highlight .-Color[class*=-C178] { + color: #D7AF00 +} + +div.highlight .-Color[class*=-BGC178] { + background-color: #D7AF00 +} + +div.highlight .-Color[class*=-C179] { + color: #D7AF5F +} + +div.highlight .-Color[class*=-BGC179] { + background-color: #D7AF5F +} + +div.highlight .-Color[class*=-C180] { + color: #D7AF87 +} + +div.highlight .-Color[class*=-BGC180] { + background-color: #D7AF87 +} + +div.highlight .-Color[class*=-C181] { + color: #D7AFAF +} + +div.highlight .-Color[class*=-BGC181] { + background-color: #D7AFAF +} + +div.highlight .-Color[class*=-C182] { + color: #D7AFD7 +} + +div.highlight .-Color[class*=-BGC182] { + background-color: #D7AFD7 +} + +div.highlight .-Color[class*=-C183] { + color: #D7AFFF +} + +div.highlight .-Color[class*=-BGC183] { + background-color: #D7AFFF +} + +div.highlight .-Color[class*=-C184] { + color: #D7D700 +} + +div.highlight .-Color[class*=-BGC184] { + background-color: #D7D700 +} + +div.highlight .-Color[class*=-C185] { + color: #D7D75F +} + +div.highlight .-Color[class*=-BGC185] { + background-color: #D7D75F +} + +div.highlight .-Color[class*=-C186] { + color: #D7D787 +} + +div.highlight .-Color[class*=-BGC186] { + background-color: #D7D787 +} + +div.highlight .-Color[class*=-C187] { + color: #D7D7AF +} + +div.highlight .-Color[class*=-BGC187] { + background-color: #D7D7AF +} + +div.highlight .-Color[class*=-C188] { + color: #D7D7D7 +} + +div.highlight .-Color[class*=-BGC188] { + background-color: #D7D7D7 +} + +div.highlight .-Color[class*=-C189] { + color: #D7D7FF +} + +div.highlight .-Color[class*=-BGC189] { + background-color: #D7D7FF +} + +div.highlight .-Color[class*=-C190] { + color: #D7FF00 +} + +div.highlight .-Color[class*=-BGC190] { + background-color: #D7FF00 +} + +div.highlight .-Color[class*=-C191] { + color: #D7FF5F +} + +div.highlight .-Color[class*=-BGC191] { + background-color: #D7FF5F +} + +div.highlight .-Color[class*=-C192] { + color: #D7FF87 +} + +div.highlight .-Color[class*=-BGC192] { + background-color: #D7FF87 +} + +div.highlight .-Color[class*=-C193] { + color: #D7FFAF +} + +div.highlight .-Color[class*=-BGC193] { + background-color: #D7FFAF +} + +div.highlight .-Color[class*=-C194] { + color: #D7FFD7 +} + +div.highlight .-Color[class*=-BGC194] { + background-color: #D7FFD7 +} + +div.highlight .-Color[class*=-C195] { + color: #D7FFFF +} + +div.highlight .-Color[class*=-BGC195] { + background-color: #D7FFFF +} + +div.highlight .-Color[class*=-C196] { + color: #FF0000 +} + +div.highlight .-Color[class*=-BGC196] { + background-color: #FF0000 +} + +div.highlight .-Color[class*=-C197] { + color: #FF005F +} + +div.highlight .-Color[class*=-BGC197] { + background-color: #FF005F +} + +div.highlight .-Color[class*=-C198] { + color: #FF0087 +} + +div.highlight .-Color[class*=-BGC198] { + background-color: #FF0087 +} + +div.highlight .-Color[class*=-C199] { + color: #FF00AF +} + +div.highlight .-Color[class*=-BGC199] { + background-color: #FF00AF +} + +div.highlight .-Color[class*=-C200] { + color: #FF00D7 +} + +div.highlight .-Color[class*=-BGC200] { + background-color: #FF00D7 +} + +div.highlight .-Color[class*=-C201] { + color: #FF00FF +} + +div.highlight .-Color[class*=-BGC201] { + background-color: #FF00FF +} + +div.highlight .-Color[class*=-C202] { + color: #FF5F00 +} + +div.highlight .-Color[class*=-BGC202] { + background-color: #FF5F00 +} + +div.highlight .-Color[class*=-C203] { + color: #FF5F5F +} + +div.highlight .-Color[class*=-BGC203] { + background-color: #FF5F5F +} + +div.highlight .-Color[class*=-C204] { + color: #FF5F87 +} + +div.highlight .-Color[class*=-BGC204] { + background-color: #FF5F87 +} + +div.highlight .-Color[class*=-C205] { + color: #FF5FAF +} + +div.highlight .-Color[class*=-BGC205] { + background-color: #FF5FAF +} + +div.highlight .-Color[class*=-C206] { + color: #FF5FD7 +} + +div.highlight .-Color[class*=-BGC206] { + background-color: #FF5FD7 +} + +div.highlight .-Color[class*=-C207] { + color: #FF5FFF +} + +div.highlight .-Color[class*=-BGC207] { + background-color: #FF5FFF +} + +div.highlight .-Color[class*=-C208] { + color: #FF8700 +} + +div.highlight .-Color[class*=-BGC208] { + background-color: #FF8700 +} + +div.highlight .-Color[class*=-C209] { + color: #FF875F +} + +div.highlight .-Color[class*=-BGC209] { + background-color: #FF875F +} + +div.highlight .-Color[class*=-C210] { + color: #FF8787 +} + +div.highlight .-Color[class*=-BGC210] { + background-color: #FF8787 +} + +div.highlight .-Color[class*=-C211] { + color: #FF87AF +} + +div.highlight .-Color[class*=-BGC211] { + background-color: #FF87AF +} + +div.highlight .-Color[class*=-C212] { + color: #FF87D7 +} + +div.highlight .-Color[class*=-BGC212] { + background-color: #FF87D7 +} + +div.highlight .-Color[class*=-C213] { + color: #FF87FF +} + +div.highlight .-Color[class*=-BGC213] { + background-color: #FF87FF +} + +div.highlight .-Color[class*=-C214] { + color: #FFAF00 +} + +div.highlight .-Color[class*=-BGC214] { + background-color: #FFAF00 +} + +div.highlight .-Color[class*=-C215] { + color: #FFAF5F +} + +div.highlight .-Color[class*=-BGC215] { + background-color: #FFAF5F +} + +div.highlight .-Color[class*=-C216] { + color: #FFAF87 +} + +div.highlight .-Color[class*=-BGC216] { + background-color: #FFAF87 +} + +div.highlight .-Color[class*=-C217] { + color: #FFAFAF +} + +div.highlight .-Color[class*=-BGC217] { + background-color: #FFAFAF +} + +div.highlight .-Color[class*=-C218] { + color: #FFAFD7 +} + +div.highlight .-Color[class*=-BGC218] { + background-color: #FFAFD7 +} + +div.highlight .-Color[class*=-C219] { + color: #FFAFFF +} + +div.highlight .-Color[class*=-BGC219] { + background-color: #FFAFFF +} + +div.highlight .-Color[class*=-C220] { + color: #FFD700 +} + +div.highlight .-Color[class*=-BGC220] { + background-color: #FFD700 +} + +div.highlight .-Color[class*=-C221] { + color: #FFD75F +} + +div.highlight .-Color[class*=-BGC221] { + background-color: #FFD75F +} + +div.highlight .-Color[class*=-C222] { + color: #FFD787 +} + +div.highlight .-Color[class*=-BGC222] { + background-color: #FFD787 +} + +div.highlight .-Color[class*=-C223] { + color: #FFD7AF +} + +div.highlight .-Color[class*=-BGC223] { + background-color: #FFD7AF +} + +div.highlight .-Color[class*=-C224] { + color: #FFD7D7 +} + +div.highlight .-Color[class*=-BGC224] { + background-color: #FFD7D7 +} + +div.highlight .-Color[class*=-C225] { + color: #FFD7FF +} + +div.highlight .-Color[class*=-BGC225] { + background-color: #FFD7FF +} + +div.highlight .-Color[class*=-C226] { + color: #FFFF00 +} + +div.highlight .-Color[class*=-BGC226] { + background-color: #FFFF00 +} + +div.highlight .-Color[class*=-C227] { + color: #FFFF5F +} + +div.highlight .-Color[class*=-BGC227] { + background-color: #FFFF5F +} + +div.highlight .-Color[class*=-C228] { + color: #FFFF87 +} + +div.highlight .-Color[class*=-BGC228] { + background-color: #FFFF87 +} + +div.highlight .-Color[class*=-C229] { + color: #FFFFAF +} + +div.highlight .-Color[class*=-BGC229] { + background-color: #FFFFAF +} + +div.highlight .-Color[class*=-C230] { + color: #FFFFD7 +} + +div.highlight .-Color[class*=-BGC230] { + background-color: #FFFFD7 +} + +div.highlight .-Color[class*=-C231] { + color: #FFFFFF +} + +div.highlight .-Color[class*=-BGC231] { + background-color: #FFFFFF +} + +div.highlight .-Color[class*=-C232] { + color: #080808 +} + +div.highlight .-Color[class*=-BGC232] { + background-color: #080808 +} + +div.highlight .-Color[class*=-C233] { + color: #121212 +} + +div.highlight .-Color[class*=-BGC233] { + background-color: #121212 +} + +div.highlight .-Color[class*=-C234] { + color: #1C1C1C +} + +div.highlight .-Color[class*=-BGC234] { + background-color: #1C1C1C +} + +div.highlight .-Color[class*=-C235] { + color: #262626 +} + +div.highlight .-Color[class*=-BGC235] { + background-color: #262626 +} + +div.highlight .-Color[class*=-C236] { + color: #303030 +} + +div.highlight .-Color[class*=-BGC236] { + background-color: #303030 +} + +div.highlight .-Color[class*=-C237] { + color: #3A3A3A +} + +div.highlight .-Color[class*=-BGC237] { + background-color: #3A3A3A +} + +div.highlight .-Color[class*=-C238] { + color: #444444 +} + +div.highlight .-Color[class*=-BGC238] { + background-color: #444444 +} + +div.highlight .-Color[class*=-C239] { + color: #4E4E4E +} + +div.highlight .-Color[class*=-BGC239] { + background-color: #4E4E4E +} + +div.highlight .-Color[class*=-C240] { + color: #585858 +} + +div.highlight .-Color[class*=-BGC240] { + background-color: #585858 +} + +div.highlight .-Color[class*=-C241] { + color: #626262 +} + +div.highlight .-Color[class*=-BGC241] { + background-color: #626262 +} + +div.highlight .-Color[class*=-C242] { + color: #6C6C6C +} + +div.highlight .-Color[class*=-BGC242] { + background-color: #6C6C6C +} + +div.highlight .-Color[class*=-C243] { + color: #767676 +} + +div.highlight .-Color[class*=-BGC243] { + background-color: #767676 +} + +div.highlight .-Color[class*=-C244] { + color: #808080 +} + +div.highlight .-Color[class*=-BGC244] { + background-color: #808080 +} + +div.highlight .-Color[class*=-C245] { + color: #8A8A8A +} + +div.highlight .-Color[class*=-BGC245] { + background-color: #8A8A8A +} + +div.highlight .-Color[class*=-C246] { + color: #949494 +} + +div.highlight .-Color[class*=-BGC246] { + background-color: #949494 +} + +div.highlight .-Color[class*=-C247] { + color: #9E9E9E +} + +div.highlight .-Color[class*=-BGC247] { + background-color: #9E9E9E +} + +div.highlight .-Color[class*=-C248] { + color: #A8A8A8 +} + +div.highlight .-Color[class*=-BGC248] { + background-color: #A8A8A8 +} + +div.highlight .-Color[class*=-C249] { + color: #B2B2B2 +} + +div.highlight .-Color[class*=-BGC249] { + background-color: #B2B2B2 +} + +div.highlight .-Color[class*=-C250] { + color: #BCBCBC +} + +div.highlight .-Color[class*=-BGC250] { + background-color: #BCBCBC +} + +div.highlight .-Color[class*=-C251] { + color: #C6C6C6 +} + +div.highlight .-Color[class*=-BGC251] { + background-color: #C6C6C6 +} + +div.highlight .-Color[class*=-C252] { + color: #D0D0D0 +} + +div.highlight .-Color[class*=-BGC252] { + background-color: #D0D0D0 +} + +div.highlight .-Color[class*=-C253] { + color: #DADADA +} + +div.highlight .-Color[class*=-BGC253] { + background-color: #DADADA +} + +div.highlight .-Color[class*=-C254] { + color: #E4E4E4 +} + +div.highlight .-Color[class*=-BGC254] { + background-color: #E4E4E4 +} + +div.highlight .-Color[class*=-C255] { + color: #EEEEEE +} + +div.highlight .-Color[class*=-BGC255] { + background-color: #EEEEEE +} diff --git a/branch/main/_static/plus.png b/branch/main/_static/plus.png new file mode 100644 index 0000000..7107cec Binary files /dev/null and b/branch/main/_static/plus.png differ diff --git a/branch/main/_static/pygments.css b/branch/main/_static/pygments.css new file mode 100644 index 0000000..84ab303 --- /dev/null +++ b/branch/main/_static/pygments.css @@ -0,0 +1,75 @@ +pre { line-height: 125%; } +td.linenos .normal { color: inherit; background-color: transparent; padding-left: 5px; padding-right: 5px; } +span.linenos { color: inherit; background-color: transparent; padding-left: 5px; padding-right: 5px; } +td.linenos .special { color: #000000; background-color: #ffffc0; padding-left: 5px; padding-right: 5px; } +span.linenos.special { color: #000000; background-color: #ffffc0; padding-left: 5px; padding-right: 5px; } +.highlight .hll { background-color: #ffffcc } 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#19177C } /* Literal.String.Symbol */ +.highlight .bp { color: #008000 } /* Name.Builtin.Pseudo */ +.highlight .fm { color: #0000FF } /* Name.Function.Magic */ +.highlight .vc { color: #19177C } /* Name.Variable.Class */ +.highlight .vg { color: #19177C } /* Name.Variable.Global */ +.highlight .vi { color: #19177C } /* Name.Variable.Instance */ +.highlight .vm { color: #19177C } /* Name.Variable.Magic */ +.highlight .il { color: #666666 } /* Literal.Number.Integer.Long */ \ No newline at end of file diff --git a/branch/main/_static/searchtools.js b/branch/main/_static/searchtools.js new file mode 100644 index 0000000..b08d58c --- /dev/null +++ b/branch/main/_static/searchtools.js @@ -0,0 +1,620 @@ +/* + * searchtools.js + * ~~~~~~~~~~~~~~~~ + * + * Sphinx JavaScript utilities for the full-text search. + * + * :copyright: Copyright 2007-2024 by the Sphinx team, see AUTHORS. + * :license: BSD, see LICENSE for details. + * + */ +"use strict"; + +/** + * Simple result scoring code. + */ +if (typeof Scorer === "undefined") { + var Scorer = { + // Implement the following function to further tweak the score for each result + // The function takes a result array [docname, title, anchor, descr, score, filename] + // and returns the new score. + /* + score: result => { + const [docname, title, anchor, descr, score, filename] = result + return score + }, + */ + + // query matches the full name of an object + objNameMatch: 11, + // or matches in the last dotted part of the object name + objPartialMatch: 6, + // Additive scores depending on the priority of the object + objPrio: { + 0: 15, // used to be importantResults + 1: 5, // used to be objectResults + 2: -5, // used to be unimportantResults + }, + // Used when the priority is not in the mapping. + objPrioDefault: 0, + + // query found in title + title: 15, + partialTitle: 7, + // query found in terms + term: 5, + partialTerm: 2, + }; +} + +const _removeChildren = (element) => { + while (element && element.lastChild) element.removeChild(element.lastChild); +}; + +/** + * See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Guide/Regular_Expressions#escaping + */ +const _escapeRegExp = (string) => + string.replace(/[.*+\-?^${}()|[\]\\]/g, "\\$&"); // $& means the whole matched string + +const _displayItem = (item, searchTerms, highlightTerms) => { + const docBuilder = DOCUMENTATION_OPTIONS.BUILDER; + const docFileSuffix = DOCUMENTATION_OPTIONS.FILE_SUFFIX; + const docLinkSuffix = DOCUMENTATION_OPTIONS.LINK_SUFFIX; + const showSearchSummary = DOCUMENTATION_OPTIONS.SHOW_SEARCH_SUMMARY; + const contentRoot = document.documentElement.dataset.content_root; + + const [docName, title, anchor, descr, score, _filename] = item; + + let listItem = document.createElement("li"); + let requestUrl; + let linkUrl; + if (docBuilder === "dirhtml") { + // dirhtml builder + let dirname = docName + "/"; + if (dirname.match(/\/index\/$/)) + dirname = dirname.substring(0, dirname.length - 6); + else if (dirname === "index/") dirname = ""; + requestUrl = contentRoot + dirname; + linkUrl = requestUrl; + } else { + // normal html builders + requestUrl = contentRoot + docName + docFileSuffix; + linkUrl = docName + docLinkSuffix; + } + let linkEl = listItem.appendChild(document.createElement("a")); + linkEl.href = linkUrl + anchor; + linkEl.dataset.score = score; + linkEl.innerHTML = title; + if (descr) { + listItem.appendChild(document.createElement("span")).innerHTML = + " (" + descr + ")"; + // highlight search terms in the description + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + } + else if (showSearchSummary) + fetch(requestUrl) + .then((responseData) => responseData.text()) + .then((data) => { + if (data) + listItem.appendChild( + Search.makeSearchSummary(data, searchTerms, anchor) + ); + // highlight search terms in the summary + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + }); + Search.output.appendChild(listItem); +}; +const _finishSearch = (resultCount) => { + Search.stopPulse(); + Search.title.innerText = _("Search Results"); + if (!resultCount) + Search.status.innerText = Documentation.gettext( + "Your search did not match any documents. Please make sure that all words are spelled correctly and that you've selected enough categories." + ); + else + Search.status.innerText = _( + "Search finished, found ${resultCount} page(s) matching the search query." + ).replace('${resultCount}', resultCount); +}; +const _displayNextItem = ( + results, + resultCount, + searchTerms, + highlightTerms, +) => { + // results left, load the summary and display it + // this is intended to be dynamic (don't sub resultsCount) + if (results.length) { + _displayItem(results.pop(), searchTerms, highlightTerms); + setTimeout( + () => _displayNextItem(results, resultCount, searchTerms, highlightTerms), + 5 + ); + } + // search finished, update title and status message + else _finishSearch(resultCount); +}; +// Helper function used by query() to order search results. +// Each input is an array of [docname, title, anchor, descr, score, filename]. +// Order the results by score (in opposite order of appearance, since the +// `_displayNextItem` function uses pop() to retrieve items) and then alphabetically. +const _orderResultsByScoreThenName = (a, b) => { + const leftScore = a[4]; + const rightScore = b[4]; + if (leftScore === rightScore) { + // same score: sort alphabetically + const leftTitle = a[1].toLowerCase(); + const rightTitle = b[1].toLowerCase(); + if (leftTitle === rightTitle) return 0; + return leftTitle > rightTitle ? -1 : 1; // inverted is intentional + } + return leftScore > rightScore ? 1 : -1; +}; + +/** + * Default splitQuery function. Can be overridden in ``sphinx.search`` with a + * custom function per language. + * + * The regular expression works by splitting the string on consecutive characters + * that are not Unicode letters, numbers, underscores, or emoji characters. + * This is the same as ``\W+`` in Python, preserving the surrogate pair area. + */ +if (typeof splitQuery === "undefined") { + var splitQuery = (query) => query + .split(/[^\p{Letter}\p{Number}_\p{Emoji_Presentation}]+/gu) + .filter(term => term) // remove remaining empty strings +} + +/** + * Search Module + */ +const Search = { + _index: null, + _queued_query: null, + _pulse_status: -1, + + htmlToText: (htmlString, anchor) => { + const htmlElement = new DOMParser().parseFromString(htmlString, 'text/html'); + for (const removalQuery of [".headerlink", "script", "style"]) { + htmlElement.querySelectorAll(removalQuery).forEach((el) => { el.remove() }); + } + if (anchor) { + const anchorContent = htmlElement.querySelector(`[role="main"] ${anchor}`); + if (anchorContent) return anchorContent.textContent; + + console.warn( + `Anchored content block not found. Sphinx search tries to obtain it via DOM query '[role=main] ${anchor}'. Check your theme or template.` + ); + } + + // if anchor not specified or not found, fall back to main content + const docContent = htmlElement.querySelector('[role="main"]'); + if (docContent) return docContent.textContent; + + console.warn( + "Content block not found. Sphinx search tries to obtain it via DOM query '[role=main]'. Check your theme or template." + ); + return ""; + }, + + init: () => { + const query = new URLSearchParams(window.location.search).get("q"); + document + .querySelectorAll('input[name="q"]') + .forEach((el) => (el.value = query)); + if (query) Search.performSearch(query); + }, + + loadIndex: (url) => + (document.body.appendChild(document.createElement("script")).src = url), + + setIndex: (index) => { + Search._index = index; + if (Search._queued_query !== null) { + const query = Search._queued_query; + Search._queued_query = null; + Search.query(query); + } + }, + + hasIndex: () => Search._index !== null, + + deferQuery: (query) => (Search._queued_query = query), + + stopPulse: () => (Search._pulse_status = -1), + + startPulse: () => { + if (Search._pulse_status >= 0) return; + + const pulse = () => { + Search._pulse_status = (Search._pulse_status + 1) % 4; + Search.dots.innerText = ".".repeat(Search._pulse_status); + if (Search._pulse_status >= 0) window.setTimeout(pulse, 500); + }; + pulse(); + }, + + /** + * perform a search for something (or wait until index is loaded) + */ + performSearch: (query) => { + // create the required interface elements + const searchText = document.createElement("h2"); + searchText.textContent = _("Searching"); + const searchSummary = document.createElement("p"); + searchSummary.classList.add("search-summary"); + searchSummary.innerText = ""; + const searchList = document.createElement("ul"); + searchList.classList.add("search"); + + const out = document.getElementById("search-results"); + Search.title = out.appendChild(searchText); + Search.dots = Search.title.appendChild(document.createElement("span")); + Search.status = out.appendChild(searchSummary); + Search.output = out.appendChild(searchList); + + const searchProgress = document.getElementById("search-progress"); + // Some themes don't use the search progress node + if (searchProgress) { + searchProgress.innerText = _("Preparing search..."); + } + Search.startPulse(); + + // index already loaded, the browser was quick! + if (Search.hasIndex()) Search.query(query); + else Search.deferQuery(query); + }, + + _parseQuery: (query) => { + // stem the search terms and add them to the correct list + const stemmer = new Stemmer(); + const searchTerms = new Set(); + const excludedTerms = new Set(); + const highlightTerms = new Set(); + const objectTerms = new Set(splitQuery(query.toLowerCase().trim())); + splitQuery(query.trim()).forEach((queryTerm) => { + const queryTermLower = queryTerm.toLowerCase(); + + // maybe skip this "word" + // stopwords array is from language_data.js + if ( + stopwords.indexOf(queryTermLower) !== -1 || + queryTerm.match(/^\d+$/) + ) + return; + + // stem the word + let word = stemmer.stemWord(queryTermLower); + // select the correct list + if (word[0] === "-") excludedTerms.add(word.substr(1)); + else { + searchTerms.add(word); + highlightTerms.add(queryTermLower); + } + }); + + if (SPHINX_HIGHLIGHT_ENABLED) { // set in sphinx_highlight.js + localStorage.setItem("sphinx_highlight_terms", [...highlightTerms].join(" ")) + } + + // console.debug("SEARCH: searching for:"); + // console.info("required: ", [...searchTerms]); + // console.info("excluded: ", [...excludedTerms]); + + return [query, searchTerms, excludedTerms, highlightTerms, objectTerms]; + }, + + /** + * execute search (requires search index to be loaded) + */ + _performSearch: (query, searchTerms, excludedTerms, highlightTerms, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + const allTitles = Search._index.alltitles; + const indexEntries = Search._index.indexentries; + + // Collect multiple result groups to be sorted separately and then ordered. + // Each is an array of [docname, title, anchor, descr, score, filename]. + const normalResults = []; + const nonMainIndexResults = []; + + _removeChildren(document.getElementById("search-progress")); + + const queryLower = query.toLowerCase().trim(); + for (const [title, foundTitles] of Object.entries(allTitles)) { + if (title.toLowerCase().trim().includes(queryLower) && (queryLower.length >= title.length/2)) { + for (const [file, id] of foundTitles) { + const score = Math.round(Scorer.title * queryLower.length / title.length); + const boost = titles[file] === title ? 1 : 0; // add a boost for document titles + normalResults.push([ + docNames[file], + titles[file] !== title ? `${titles[file]} > ${title}` : title, + id !== null ? "#" + id : "", + null, + score + boost, + filenames[file], + ]); + } + } + } + + // search for explicit entries in index directives + for (const [entry, foundEntries] of Object.entries(indexEntries)) { + if (entry.includes(queryLower) && (queryLower.length >= entry.length/2)) { + for (const [file, id, isMain] of foundEntries) { + const score = Math.round(100 * queryLower.length / entry.length); + const result = [ + docNames[file], + titles[file], + id ? "#" + id : "", + null, + score, + filenames[file], + ]; + if (isMain) { + normalResults.push(result); + } else { + nonMainIndexResults.push(result); + } + } + } + } + + // lookup as object + objectTerms.forEach((term) => + normalResults.push(...Search.performObjectSearch(term, objectTerms)) + ); + + // lookup as search terms in fulltext + normalResults.push(...Search.performTermsSearch(searchTerms, excludedTerms)); + + // let the scorer override scores with a custom scoring function + if (Scorer.score) { + normalResults.forEach((item) => (item[4] = Scorer.score(item))); + nonMainIndexResults.forEach((item) => (item[4] = Scorer.score(item))); + } + + // Sort each group of results by score and then alphabetically by name. + normalResults.sort(_orderResultsByScoreThenName); + nonMainIndexResults.sort(_orderResultsByScoreThenName); + + // Combine the result groups in (reverse) order. + // Non-main index entries are typically arbitrary cross-references, + // so display them after other results. + let results = [...nonMainIndexResults, ...normalResults]; + + // remove duplicate search results + // note the reversing of results, so that in the case of duplicates, the highest-scoring entry is kept + let seen = new Set(); + results = results.reverse().reduce((acc, result) => { + let resultStr = result.slice(0, 4).concat([result[5]]).map(v => String(v)).join(','); + if (!seen.has(resultStr)) { + acc.push(result); + seen.add(resultStr); + } + return acc; + }, []); + + return results.reverse(); + }, + + query: (query) => { + const [searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms] = Search._parseQuery(query); + const results = Search._performSearch(searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms); + + // for debugging + //Search.lastresults = results.slice(); // a copy + // console.info("search results:", Search.lastresults); + + // print the results + _displayNextItem(results, results.length, searchTerms, highlightTerms); + }, + + /** + * search for object names + */ + performObjectSearch: (object, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const objects = Search._index.objects; + const objNames = Search._index.objnames; + const titles = Search._index.titles; + + const results = []; + + const objectSearchCallback = (prefix, match) => { + const name = match[4] + const fullname = (prefix ? prefix + "." : "") + name; + const fullnameLower = fullname.toLowerCase(); + if (fullnameLower.indexOf(object) < 0) return; + + let score = 0; + const parts = fullnameLower.split("."); + + // check for different match types: exact matches of full name or + // "last name" (i.e. last dotted part) + if (fullnameLower === object || parts.slice(-1)[0] === object) + score += Scorer.objNameMatch; + else if (parts.slice(-1)[0].indexOf(object) > -1) + score += Scorer.objPartialMatch; // matches in last name + + const objName = objNames[match[1]][2]; + const title = titles[match[0]]; + + // If more than one term searched for, we require other words to be + // found in the name/title/description + const otherTerms = new Set(objectTerms); + otherTerms.delete(object); + if (otherTerms.size > 0) { + const haystack = `${prefix} ${name} ${objName} ${title}`.toLowerCase(); + if ( + [...otherTerms].some((otherTerm) => haystack.indexOf(otherTerm) < 0) + ) + return; + } + + let anchor = match[3]; + if (anchor === "") anchor = fullname; + else if (anchor === "-") anchor = objNames[match[1]][1] + "-" + fullname; + + const descr = objName + _(", in ") + title; + + // add custom score for some objects according to scorer + if (Scorer.objPrio.hasOwnProperty(match[2])) + score += Scorer.objPrio[match[2]]; + else score += Scorer.objPrioDefault; + + results.push([ + docNames[match[0]], + fullname, + "#" + anchor, + descr, + score, + filenames[match[0]], + ]); + }; + Object.keys(objects).forEach((prefix) => + objects[prefix].forEach((array) => + objectSearchCallback(prefix, array) + ) + ); + return results; + }, + + /** + * search for full-text terms in the index + */ + performTermsSearch: (searchTerms, excludedTerms) => { + // prepare search + const terms = Search._index.terms; + const titleTerms = Search._index.titleterms; + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + + const scoreMap = new Map(); + const fileMap = new Map(); + + // perform the search on the required terms + searchTerms.forEach((word) => { + const files = []; + const arr = [ + { files: terms[word], score: Scorer.term }, + { files: titleTerms[word], score: Scorer.title }, + ]; + // add support for partial matches + if (word.length > 2) { + const escapedWord = _escapeRegExp(word); + if (!terms.hasOwnProperty(word)) { + Object.keys(terms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: terms[term], score: Scorer.partialTerm }); + }); + } + if (!titleTerms.hasOwnProperty(word)) { + Object.keys(titleTerms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: titleTerms[term], score: Scorer.partialTitle }); + }); + } + } + + // no match but word was a required one + if (arr.every((record) => record.files === undefined)) return; + + // found search word in contents + arr.forEach((record) => { + if (record.files === undefined) return; + + let recordFiles = record.files; + if (recordFiles.length === undefined) recordFiles = [recordFiles]; + files.push(...recordFiles); + + // set score for the word in each file + recordFiles.forEach((file) => { + if (!scoreMap.has(file)) scoreMap.set(file, {}); + scoreMap.get(file)[word] = record.score; + }); + }); + + // create the mapping + files.forEach((file) => { + if (!fileMap.has(file)) fileMap.set(file, [word]); + else if (fileMap.get(file).indexOf(word) === -1) fileMap.get(file).push(word); + }); + }); + + // now check if the files don't contain excluded terms + const results = []; + for (const [file, wordList] of fileMap) { + // check if all requirements are matched + + // as search terms with length < 3 are discarded + const filteredTermCount = [...searchTerms].filter( + (term) => term.length > 2 + ).length; + if ( + wordList.length !== searchTerms.size && + wordList.length !== filteredTermCount + ) + continue; + + // ensure that none of the excluded terms is in the search result + if ( + [...excludedTerms].some( + (term) => + terms[term] === file || + titleTerms[term] === file || + (terms[term] || []).includes(file) || + (titleTerms[term] || []).includes(file) + ) + ) + break; + + // select one (max) score for the file. + const score = Math.max(...wordList.map((w) => scoreMap.get(file)[w])); + // add result to the result list + results.push([ + docNames[file], + titles[file], + "", + null, + score, + filenames[file], + ]); + } + return results; + }, + + /** + * helper function to return a node containing the + * search summary for a given text. keywords is a list + * of stemmed words. + */ + makeSearchSummary: (htmlText, keywords, anchor) => { + const text = Search.htmlToText(htmlText, anchor); + if (text === "") return null; + + const textLower = text.toLowerCase(); + const actualStartPosition = [...keywords] + .map((k) => textLower.indexOf(k.toLowerCase())) + .filter((i) => i > -1) + .slice(-1)[0]; + const startWithContext = Math.max(actualStartPosition - 120, 0); + + const top = startWithContext === 0 ? "" : "..."; + const tail = startWithContext + 240 < text.length ? "..." : ""; + + let summary = document.createElement("p"); + summary.classList.add("context"); + summary.textContent = top + text.substr(startWithContext, 240).trim() + tail; + + return summary; + }, +}; + +_ready(Search.init); diff --git a/branch/main/_static/sphinx_highlight.js b/branch/main/_static/sphinx_highlight.js new file mode 100644 index 0000000..8a96c69 --- /dev/null +++ b/branch/main/_static/sphinx_highlight.js @@ -0,0 +1,154 @@ +/* Highlighting utilities for Sphinx HTML documentation. */ +"use strict"; + +const SPHINX_HIGHLIGHT_ENABLED = true + +/** + * highlight a given string on a node by wrapping it in + * span elements with the given class name. + */ +const _highlight = (node, addItems, text, className) => { + if (node.nodeType === Node.TEXT_NODE) { + const val = node.nodeValue; + const parent = node.parentNode; + const pos = val.toLowerCase().indexOf(text); + if ( + pos >= 0 && + !parent.classList.contains(className) && + !parent.classList.contains("nohighlight") + ) { + let span; + + const closestNode = parent.closest("body, svg, foreignObject"); + const isInSVG = closestNode && closestNode.matches("svg"); + if (isInSVG) { + span = document.createElementNS("http://www.w3.org/2000/svg", "tspan"); + } else { + span = document.createElement("span"); + span.classList.add(className); + } + + span.appendChild(document.createTextNode(val.substr(pos, text.length))); + const rest = document.createTextNode(val.substr(pos + text.length)); + parent.insertBefore( + span, + parent.insertBefore( + rest, + node.nextSibling + ) + ); + node.nodeValue = val.substr(0, pos); + /* There may be more occurrences of search term in this node. So call this + * function recursively on the remaining fragment. + */ + _highlight(rest, addItems, text, className); + + if (isInSVG) { + const rect = document.createElementNS( + "http://www.w3.org/2000/svg", + "rect" + ); + const bbox = parent.getBBox(); + rect.x.baseVal.value = bbox.x; + rect.y.baseVal.value = bbox.y; + rect.width.baseVal.value = bbox.width; + rect.height.baseVal.value = bbox.height; + rect.setAttribute("class", className); + addItems.push({ parent: parent, target: rect }); + } + } + } else if (node.matches && !node.matches("button, select, textarea")) { + node.childNodes.forEach((el) => _highlight(el, addItems, text, className)); + } +}; +const _highlightText = (thisNode, text, className) => { + let addItems = []; + _highlight(thisNode, addItems, text, className); + addItems.forEach((obj) => + obj.parent.insertAdjacentElement("beforebegin", obj.target) + ); +}; + +/** + * Small JavaScript module for the documentation. + */ +const SphinxHighlight = { + + /** + * highlight the search words provided in localstorage in the text + */ + highlightSearchWords: () => { + if (!SPHINX_HIGHLIGHT_ENABLED) return; // bail if no highlight + + // get and clear terms from localstorage + const url = new URL(window.location); + const highlight = + localStorage.getItem("sphinx_highlight_terms") + || url.searchParams.get("highlight") + || ""; + localStorage.removeItem("sphinx_highlight_terms") + url.searchParams.delete("highlight"); + window.history.replaceState({}, "", url); + + // get individual terms from highlight string + const terms = highlight.toLowerCase().split(/\s+/).filter(x => x); + if (terms.length === 0) return; // nothing to do + + // There should never be more than one element matching "div.body" + const divBody = document.querySelectorAll("div.body"); + const body = divBody.length ? divBody[0] : document.querySelector("body"); + window.setTimeout(() => { + terms.forEach((term) => _highlightText(body, term, "highlighted")); + }, 10); + + const searchBox = document.getElementById("searchbox"); + if (searchBox === null) return; + searchBox.appendChild( + document + .createRange() + .createContextualFragment( + '

' + + '' + + _("Hide Search Matches") + + "

" + ) + ); + }, + + /** + * helper function to hide the search marks again + */ + hideSearchWords: () => { + document + .querySelectorAll("#searchbox .highlight-link") + .forEach((el) => el.remove()); + document + .querySelectorAll("span.highlighted") + .forEach((el) => el.classList.remove("highlighted")); + localStorage.removeItem("sphinx_highlight_terms") + }, + + initEscapeListener: () => { + // only install a listener if it is really needed + if (!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS) return; + + document.addEventListener("keydown", (event) => { + // bail for input elements + if (BLACKLISTED_KEY_CONTROL_ELEMENTS.has(document.activeElement.tagName)) return; + // bail with special keys + if (event.shiftKey || event.altKey || event.ctrlKey || event.metaKey) return; + if (DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS && (event.key === "Escape")) { + SphinxHighlight.hideSearchWords(); + event.preventDefault(); + } + }); + }, +}; + +_ready(() => { + /* Do not call highlightSearchWords() when we are on the search page. + * It will highlight words from the *previous* search query. + */ + if (typeof Search === "undefined") SphinxHighlight.highlightSearchWords(); + SphinxHighlight.initEscapeListener(); +}); diff --git a/branch/main/_static/sphinx_lesson.css b/branch/main/_static/sphinx_lesson.css new file mode 100644 index 0000000..14b20c6 --- /dev/null +++ b/branch/main/_static/sphinx_lesson.css @@ -0,0 +1,51 @@ +/* sphinx_lesson.css */ + +body.wy-body-for-nav img.with-border { + border: 2px solid; +} + +.rst-content .admonition-no-content { + padding-bottom: 0px; +} + +.rst-content .demo > .admonition-title::before { + content: "\01F440"; /* Eyes */ } +.rst-content .type-along > .admonition-title::before { + content: "\02328\0FE0F"; /* Keyboard */ } +.rst-content .exercise > .admonition-title::before { + content: "\0270D\0FE0F"; /* Hand */ } +.rst-content .solution > .admonition-title::before { + content: "\02714\0FE0E"; /* Check mark */ } +.rst-content .homework > .admonition-title::before { + content: "\01F4DD"; /* Memo */ } +.rst-content .discussion > .admonition-title::before { + content: "\01F4AC"; /* Speech balloon */ } +.rst-content .questions > .admonition-title::before { + content: "\02753\0FE0E"; /* Question mark */ } +.rst-content .prerequisites > .admonition-title::before { + content: "\02699"; /* Gear */ } +.rst-content .seealso > .admonition-title::before { + content: "\027A1\0FE0E"; /* Question mark */ } + + +/* instructor-note */ +.rst-content .instructor-note { + background: #e7e7e7; +} +.rst-content .instructor-note > .admonition-title { + background: #6a6a6a; +} +.rst-content .instructor-note > .admonition-title::before { + content: ""; +} + + +/* sphinx_toggle_button, make the font white */ +.rst-content .toggle.admonition button.toggle-button { + color: white; +} + +/* sphinx-togglebutton, remove underflow when toggled to hidden mode */ +.rst-content .admonition.toggle-hidden { + padding-bottom: 0px; +} diff --git a/branch/main/_static/sphinx_rtd_theme_ext_color_contrast.css b/branch/main/_static/sphinx_rtd_theme_ext_color_contrast.css new file mode 100644 index 0000000..e68feb8 --- /dev/null +++ b/branch/main/_static/sphinx_rtd_theme_ext_color_contrast.css @@ -0,0 +1,47 @@ +/* The following are for web accessibility of sphinx_rtd_theme: they + * solve some of the most frequent contrast issues. Remove when this + * solved: + * https://github.com/readthedocs/sphinx_rtd_theme/issues/971 + */ +/* background: #fcfcfc, note boxes #E7F2FA */ +a { color: #2573A7; } /* original #2980B9, #1F5C84; */ +body { color: #242424; } /* original #404040, #383838 */ +.wy-side-nav-search>a, .wy-side-nav-search .wy-dropdown>a { + color: #ffffff; +} /* original #fcfcfc */ +footer { color: #737373; } /* original gray=#808080*/ +footer span.commit code, footer span.commit .rst-content tt, .rst-content footer span.commit tt { + color: #737373; +} /* original gray=#808080*/ +.rst-content tt.literal, .rst-content tt.literal, .rst-content code.literal { + color: #AB2314; +} +/* Sidebar background */ +.wy-side-nav-search { background-color: #277CB4;} + +/* Same, but for pygments */ +.highlight .ch { color: #3E7A89; } /* #! line */ +.highlight .c1 { color: #3E7A89; } /* also comments */ +.highlight .nv { color: #AD3ECC; } /* variable */ +.highlight .gp { color: #B45608; } /* prompt character, $*/ +.highlight .si { color: #3975B1; } /* ${} variable text */ +.highlight .nc { color: #0C78A7; } + +/* Sphinx admonitions */ +/* warning */ +.wy-alert.wy-alert-warning .wy-alert-title, .rst-content .wy-alert-warning.note .wy-alert-title, .rst-content .attention .wy-alert-title, .rst-content .caution .wy-alert-title, .rst-content .wy-alert-warning.danger .wy-alert-title, .rst-content .wy-alert-warning.error .wy-alert-title, .rst-content .wy-alert-warning.hint .wy-alert-title, .rst-content .wy-alert-warning.important .wy-alert-title, .rst-content .wy-alert-warning.tip .wy-alert-title, .rst-content .warning .wy-alert-title, .rst-content .wy-alert-warning.seealso .wy-alert-title, .rst-content .admonition-todo .wy-alert-title, .rst-content .wy-alert-warning.admonition .wy-alert-title, .wy-alert.wy-alert-warning .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-warning .admonition-title, .rst-content .wy-alert-warning.note .admonition-title, .rst-content .attention .admonition-title, .rst-content .caution .admonition-title, .rst-content .wy-alert-warning.danger .admonition-title, .rst-content .wy-alert-warning.error .admonition-title, .rst-content .wy-alert-warning.hint .admonition-title, .rst-content .wy-alert-warning.important .admonition-title, .rst-content .wy-alert-warning.tip .admonition-title, .rst-content .warning .admonition-title, .rst-content .wy-alert-warning.seealso .admonition-title, .rst-content .admonition-todo .admonition-title, .rst-content .wy-alert-warning.admonition .admonition-title { + background: #B15E16; } +/* important */ +.wy-alert.wy-alert-success .wy-alert-title, .rst-content .wy-alert-success.note .wy-alert-title, .rst-content .wy-alert-success.attention .wy-alert-title, .rst-content .wy-alert-success.caution .wy-alert-title, .rst-content .wy-alert-success.danger .wy-alert-title, .rst-content .wy-alert-success.error .wy-alert-title, .rst-content .hint .wy-alert-title, .rst-content .important .wy-alert-title, .rst-content .tip .wy-alert-title, .rst-content .wy-alert-success.warning .wy-alert-title, .rst-content .wy-alert-success.seealso .wy-alert-title, .rst-content .wy-alert-success.admonition-todo .wy-alert-title, .rst-content .wy-alert-success.admonition .wy-alert-title, .wy-alert.wy-alert-success .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-success .admonition-title, .rst-content .wy-alert-success.note .admonition-title, .rst-content .wy-alert-success.attention .admonition-title, .rst-content .wy-alert-success.caution .admonition-title, .rst-content .wy-alert-success.danger .admonition-title, .rst-content .wy-alert-success.error .admonition-title, .rst-content .hint .admonition-title, .rst-content .important .admonition-title, .rst-content .tip .admonition-title, .rst-content .wy-alert-success.warning .admonition-title, .rst-content .wy-alert-success.seealso .admonition-title, .rst-content .wy-alert-success.admonition-todo .admonition-title, .rst-content .wy-alert-success.admonition .admonition-title { + background: #12826C; } +/* seealso, note, etc */ +.wy-alert.wy-alert-info .wy-alert-title, .rst-content .note .wy-alert-title, .rst-content .wy-alert-info.attention .wy-alert-title, .rst-content .wy-alert-info.caution .wy-alert-title, .rst-content .wy-alert-info.danger .wy-alert-title, .rst-content .wy-alert-info.error .wy-alert-title, .rst-content .wy-alert-info.hint .wy-alert-title, .rst-content .wy-alert-info.important .wy-alert-title, .rst-content .wy-alert-info.tip .wy-alert-title, .rst-content .wy-alert-info.warning .wy-alert-title, .rst-content .seealso .wy-alert-title, .rst-content .wy-alert-info.admonition-todo .wy-alert-title, .rst-content .wy-alert-info.admonition .wy-alert-title, .wy-alert.wy-alert-info .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-info .admonition-title, .rst-content .note .admonition-title, .rst-content .wy-alert-info.attention .admonition-title, .rst-content .wy-alert-info.caution .admonition-title, .rst-content .wy-alert-info.danger .admonition-title, .rst-content .wy-alert-info.error .admonition-title, .rst-content .wy-alert-info.hint .admonition-title, .rst-content .wy-alert-info.important .admonition-title, .rst-content .wy-alert-info.tip .admonition-title, .rst-content .wy-alert-info.warning .admonition-title, .rst-content .seealso .admonition-title, .rst-content .wy-alert-info.admonition-todo .admonition-title, .rst-content .wy-alert-info.admonition .admonition-title { + background: #277CB4; } +/* error, danger */ +.rst-content .danger .admonition-title, .rst-content .danger .wy-alert-title, .rst-content .error .admonition-title, .rst-content .error .wy-alert-title, .rst-content .wy-alert-danger.admonition-todo .admonition-title, .rst-content .wy-alert-danger.admonition-todo .wy-alert-title, .rst-content .wy-alert-danger.admonition .admonition-title, .rst-content .wy-alert-danger.admonition .wy-alert-title, .rst-content .wy-alert-danger.attention .admonition-title, .rst-content .wy-alert-danger.attention .wy-alert-title, .rst-content .wy-alert-danger.caution .admonition-title, .rst-content .wy-alert-danger.caution .wy-alert-title, .rst-content .wy-alert-danger.hint .admonition-title, .rst-content .wy-alert-danger.hint .wy-alert-title, .rst-content .wy-alert-danger.important .admonition-title, .rst-content .wy-alert-danger.important .wy-alert-title, .rst-content .wy-alert-danger.note .admonition-title, .rst-content .wy-alert-danger.note .wy-alert-title, .rst-content .wy-alert-danger.seealso .admonition-title, .rst-content .wy-alert-danger.seealso .wy-alert-title, .rst-content .wy-alert-danger.tip .admonition-title, .rst-content .wy-alert-danger.tip .wy-alert-title, .rst-content .wy-alert-danger.warning .admonition-title, .rst-content .wy-alert-danger.warning .wy-alert-title, .rst-content .wy-alert.wy-alert-danger .admonition-title, .wy-alert.wy-alert-danger .rst-content .admonition-title, .wy-alert.wy-alert-danger .wy-alert-title { + background: #e31704; +} + +/* Generic admonition titles */ +.wy-alert-title, .rst-content .admonition-title { + background: #277CB4; } diff --git a/branch/main/_static/tabs.css b/branch/main/_static/tabs.css new file mode 100644 index 0000000..957ba60 --- /dev/null +++ b/branch/main/_static/tabs.css @@ -0,0 +1,89 @@ +.sphinx-tabs { + margin-bottom: 1rem; +} + +[role="tablist"] { + border-bottom: 1px solid #a0b3bf; +} + +.sphinx-tabs-tab { + position: relative; + font-family: Lato,'Helvetica Neue',Arial,Helvetica,sans-serif; + color: #1D5C87; + line-height: 24px; + margin: 0; + font-size: 16px; + font-weight: 400; + background-color: rgba(255, 255, 255, 0); + border-radius: 5px 5px 0 0; + border: 0; + padding: 1rem 1.5rem; + margin-bottom: 0; +} + +.sphinx-tabs-tab[aria-selected="true"] { + font-weight: 700; + border: 1px solid #a0b3bf; + border-bottom: 1px solid white; + margin: -1px; + background-color: white; +} + +.sphinx-tabs-tab:focus { + z-index: 1; + outline-offset: 1px; +} + +.sphinx-tabs-panel { + position: relative; + padding: 1rem; + border: 1px solid #a0b3bf; + margin: 0px -1px -1px -1px; + border-radius: 0 0 5px 5px; + border-top: 0; + background: white; +} + +.sphinx-tabs-panel.code-tab { + padding: 0.4rem; +} + +.sphinx-tab img { + margin-bottom: 24 px; +} + +/* Dark theme preference styling */ + +@media (prefers-color-scheme: dark) { + body[data-theme="auto"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); + } + + body[data-theme="auto"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); + } + + body[data-theme="auto"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 1px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); + } +} + +/* Explicit dark theme styling */ + +body[data-theme="dark"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); +} + +body[data-theme="dark"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); +} + +body[data-theme="dark"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 2px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); +} diff --git a/branch/main/_static/tabs.js b/branch/main/_static/tabs.js new file mode 100644 index 0000000..48dc303 --- /dev/null +++ b/branch/main/_static/tabs.js @@ -0,0 +1,145 @@ +try { + var session = window.sessionStorage || {}; +} catch (e) { + var session = {}; +} + +window.addEventListener("DOMContentLoaded", () => { + const allTabs = document.querySelectorAll('.sphinx-tabs-tab'); + const tabLists = document.querySelectorAll('[role="tablist"]'); + + allTabs.forEach(tab => { + tab.addEventListener("click", changeTabs); + }); + + tabLists.forEach(tabList => { + tabList.addEventListener("keydown", keyTabs); + }); + + // Restore group tab selection from session + const lastSelected = session.getItem('sphinx-tabs-last-selected'); + if (lastSelected != null) selectNamedTabs(lastSelected); +}); + +/** + * Key focus left and right between sibling elements using arrows + * @param {Node} e the element in focus when key was pressed + */ +function keyTabs(e) { + const tab = e.target; + let nextTab = null; + if (e.keyCode === 39 || e.keyCode === 37) { + tab.setAttribute("tabindex", -1); + // Move right + if (e.keyCode === 39) { + nextTab = tab.nextElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.firstElementChild; + } + // Move left + } else if (e.keyCode === 37) { + nextTab = tab.previousElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.lastElementChild; + } + } + } + + if (nextTab !== null) { + nextTab.setAttribute("tabindex", 0); + nextTab.focus(); + } +} + +/** + * Select or deselect clicked tab. If a group tab + * is selected, also select tab in other tabLists. + * @param {Node} e the element that was clicked + */ +function changeTabs(e) { + // Use this instead of the element that was clicked, in case it's a child + const notSelected = this.getAttribute("aria-selected") === "false"; + const positionBefore = this.parentNode.getBoundingClientRect().top; + const notClosable = !this.parentNode.classList.contains("closeable"); + + deselectTabList(this); + + if (notSelected || notClosable) { + selectTab(this); + const name = this.getAttribute("name"); + selectNamedTabs(name, this.id); + + if (this.classList.contains("group-tab")) { + // Persist during session + session.setItem('sphinx-tabs-last-selected', name); + } + } + + const positionAfter = this.parentNode.getBoundingClientRect().top; + const positionDelta = positionAfter - positionBefore; + // Scroll to offset content resizing + window.scrollTo(0, window.scrollY + positionDelta); +} + +/** + * Select tab and show associated panel. + * @param {Node} tab tab to select + */ +function selectTab(tab) { + tab.setAttribute("aria-selected", true); + + // Show the associated panel + document + .getElementById(tab.getAttribute("aria-controls")) + .removeAttribute("hidden"); +} + +/** + * Hide the panels associated with all tabs within the + * tablist containing this tab. + * @param {Node} tab a tab within the tablist to deselect + */ +function deselectTabList(tab) { + const parent = tab.parentNode; + const grandparent = parent.parentNode; + + Array.from(parent.children) + .forEach(t => t.setAttribute("aria-selected", false)); + + Array.from(grandparent.children) + .slice(1) // Skip tablist + .forEach(panel => panel.setAttribute("hidden", true)); +} + +/** + * Select grouped tabs with the same name, but no the tab + * with the given id. + * @param {Node} name name of grouped tab to be selected + * @param {Node} clickedId id of clicked tab + */ +function selectNamedTabs(name, clickedId=null) { + const groupedTabs = document.querySelectorAll(`.sphinx-tabs-tab[name="${name}"]`); + const tabLists = Array.from(groupedTabs).map(tab => tab.parentNode); + + tabLists + .forEach(tabList => { + // Don't want to change the tabList containing the clicked tab + const clickedTab = tabList.querySelector(`[id="${clickedId}"]`); + if (clickedTab === null ) { + // Select first tab with matching name + const tab = tabList.querySelector(`.sphinx-tabs-tab[name="${name}"]`); + deselectTabList(tab); + selectTab(tab); + } + }) +} + +if (typeof exports === 'undefined') { + exports = {}; +} + +exports.keyTabs = keyTabs; +exports.changeTabs = changeTabs; +exports.selectTab = selectTab; +exports.deselectTabList = deselectTabList; +exports.selectNamedTabs = selectNamedTabs; diff --git a/branch/main/_static/term_role_formatting.css b/branch/main/_static/term_role_formatting.css new file mode 100644 index 0000000..0b66095 --- /dev/null +++ b/branch/main/_static/term_role_formatting.css @@ -0,0 +1,4 @@ +/* Make terms bold */ +a.reference span.std-term { + font-weight: bold; +} diff --git a/branch/main/_static/togglebutton.css b/branch/main/_static/togglebutton.css new file mode 100644 index 0000000..54a6787 --- /dev/null +++ b/branch/main/_static/togglebutton.css @@ -0,0 +1,160 @@ +/** + * Admonition-based toggles + */ + +/* Visibility of the target */ +.admonition.toggle .admonition-title ~ * { + transition: opacity .3s, height .3s; +} + +/* Toggle buttons inside admonitions so we see the title */ +.admonition.toggle { + position: relative; +} + +/* Titles should cut off earlier to avoid overlapping w/ button */ +.admonition.toggle .admonition-title { + padding-right: 25%; + cursor: pointer; +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:hover { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 1%); +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:active { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 3%); +} + +/* Remove extra whitespace below the admonition title when hidden */ +.admonition.toggle-hidden { + padding-bottom: 0; +} + +.admonition.toggle-hidden .admonition-title { + margin-bottom: 0; +} + +/* hides all the content of a page until de-toggled */ +.admonition.toggle-hidden .admonition-title ~ * { + height: 0; + margin: 0; + opacity: 0; + visibility: hidden; +} + +/* General button style and position*/ +button.toggle-button { + /** + * Background and shape. By default there's no background + * but users can style as they wish + */ + background: none; + border: none; + outline: none; + + /* Positioning just inside the admonition title */ + position: absolute; + right: 0.5em; + padding: 0px; + border: none; + outline: none; +} + +/* Display the toggle hint on wide screens */ +@media (min-width: 768px) { + button.toggle-button.toggle-button-hidden:before { + content: attr(data-toggle-hint); /* This will be filled in by JS */ + font-size: .8em; + align-self: center; + } +} + +/* Icon behavior */ +.tb-icon { + transition: transform .2s ease-out; + height: 1.5em; + width: 1.5em; + stroke: currentColor; /* So that we inherit the color of other text */ +} + +/* The icon should point right when closed, down when open. */ +/* Open */ +.admonition.toggle button .tb-icon { + transform: rotate(90deg); +} + +/* Closed */ +.admonition.toggle button.toggle-button-hidden .tb-icon { + transform: rotate(0deg); +} + +/* With details toggles, we don't rotate the icon so it points right */ +details.toggle-details .tb-icon { + height: 1.4em; + width: 1.4em; + margin-top: 0.1em; /* To center the button vertically */ +} + + +/** + * Details-based toggles. + * In this case, we wrap elements with `.toggle` in a details block. + */ + +/* Details blocks */ +details.toggle-details { + margin: 1em 0; +} + + +details.toggle-details summary { + display: flex; + align-items: center; + cursor: pointer; + list-style: none; + border-radius: .2em; + border-left: 3px solid #1976d2; + background-color: rgb(204 204 204 / 10%); + padding: 0.2em 0.7em 0.3em 0.5em; /* Less padding on left because the SVG has left margin */ + font-size: 0.9em; +} + +details.toggle-details summary:hover { + background-color: rgb(204 204 204 / 20%); +} + +details.toggle-details summary:active { + background: rgb(204 204 204 / 28%); +} + +.toggle-details__summary-text { + margin-left: 0.2em; +} + +details.toggle-details[open] summary { + margin-bottom: .5em; +} + +details.toggle-details[open] summary .tb-icon { + transform: rotate(90deg); +} + +details.toggle-details[open] summary ~ * { + animation: toggle-fade-in .3s ease-out; +} + +@keyframes toggle-fade-in { + from {opacity: 0%;} + to {opacity: 100%;} +} + +/* Print rules - we hide all toggle button elements at print */ +@media print { + /* Always hide the summary so the button doesn't show up */ + details.toggle-details summary { + display: none; + } +} \ No newline at end of file diff --git a/branch/main/_static/togglebutton.js b/branch/main/_static/togglebutton.js new file mode 100644 index 0000000..215a7ee --- /dev/null +++ b/branch/main/_static/togglebutton.js @@ -0,0 +1,187 @@ +/** + * Add Toggle Buttons to elements + */ + +let toggleChevron = ` + + + +`; + +var initToggleItems = () => { + var itemsToToggle = document.querySelectorAll(togglebuttonSelector); + console.log(`[togglebutton]: Adding toggle buttons to ${itemsToToggle.length} items`) + // Add the button to each admonition and hook up a callback to toggle visibility + itemsToToggle.forEach((item, index) => { + if (item.classList.contains("admonition")) { + // If it's an admonition block, then we'll add a button inside + // Generate unique IDs for this item + var toggleID = `toggle-${index}`; + var buttonID = `button-${toggleID}`; + + item.setAttribute('id', toggleID); + if (!item.classList.contains("toggle")){ + item.classList.add("toggle"); + } + // This is the button that will be added to each item to trigger the toggle + var collapseButton = ` + `; + + title = item.querySelector(".admonition-title") + title.insertAdjacentHTML("beforeend", collapseButton); + thisButton = document.getElementById(buttonID); + + // Add click handlers for the button + admonition title (if admonition) + admonitionTitle = document.querySelector(`#${toggleID} > .admonition-title`) + if (admonitionTitle) { + // If an admonition, then make the whole title block clickable + admonitionTitle.addEventListener('click', toggleClickHandler); + admonitionTitle.dataset.target = toggleID + admonitionTitle.dataset.button = buttonID + } else { + // If not an admonition then we'll listen for the button click + thisButton.addEventListener('click', toggleClickHandler); + } + + // Now hide the item for this toggle button unless explicitly noted to show + if (!item.classList.contains("toggle-shown")) { + toggleHidden(thisButton); + } + } else { + // If not an admonition, wrap the block in a
block + // Define the structure of the details block and insert it as a sibling + var detailsBlock = ` +
+ + ${toggleChevron} + ${toggleHintShow} + +
`; + item.insertAdjacentHTML("beforebegin", detailsBlock); + + // Now move the toggle-able content inside of the details block + details = item.previousElementSibling + details.appendChild(item) + item.classList.add("toggle-details__container") + + // Set up a click trigger to change the text as needed + details.addEventListener('click', (click) => { + let parent = click.target.parentElement; + if (parent.tagName.toLowerCase() == "details") { + summary = parent.querySelector("summary"); + details = parent; + } else { + summary = parent; + details = parent.parentElement; + } + // Update the inner text for the proper hint + if (details.open) { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintShow; + } else { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintHide; + } + + }); + + // If we have a toggle-shown class, open details block should be open + if (item.classList.contains("toggle-shown")) { + details.click(); + } + } + }) +}; + +// This should simply add / remove the collapsed class and change the button text +var toggleHidden = (button) => { + target = button.dataset['target'] + var itemToToggle = document.getElementById(target); + if (itemToToggle.classList.contains("toggle-hidden")) { + itemToToggle.classList.remove("toggle-hidden"); + button.classList.remove("toggle-button-hidden"); + } else { + itemToToggle.classList.add("toggle-hidden"); + button.classList.add("toggle-button-hidden"); + } +} + +var toggleClickHandler = (click) => { + // Be cause the admonition title is clickable and extends to the whole admonition + // We only look for a click event on this title to trigger the toggle. + + if (click.target.classList.contains("admonition-title")) { + button = click.target.querySelector(".toggle-button"); + } else if (click.target.classList.contains("tb-icon")) { + // We've clicked the icon and need to search up one parent for the button + button = click.target.parentElement; + } else if (click.target.tagName == "polyline") { + // We've clicked the SVG elements inside the button, need to up 2 layers + button = click.target.parentElement.parentElement; + } else if (click.target.classList.contains("toggle-button")) { + // We've clicked the button itself and so don't need to do anything + button = click.target; + } else { + console.log(`[togglebutton]: Couldn't find button for ${click.target}`) + } + target = document.getElementById(button.dataset['button']); + toggleHidden(target); +} + +// If we want to blanket-add toggle classes to certain cells +var addToggleToSelector = () => { + const selector = ""; + if (selector.length > 0) { + document.querySelectorAll(selector).forEach((item) => { + item.classList.add("toggle"); + }) + } +} + +// Helper function to run when the DOM is finished +const sphinxToggleRunWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} +sphinxToggleRunWhenDOMLoaded(addToggleToSelector) +sphinxToggleRunWhenDOMLoaded(initToggleItems) + +/** Toggle details blocks to be open when printing */ +if (toggleOpenOnPrint == "true") { + window.addEventListener("beforeprint", () => { + // Open the details + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.dataset["togglestatus"] = el.open; + el.open = true; + }); + + // Open the admonitions + document.querySelectorAll(".admonition.toggle.toggle-hidden").forEach((el) => { + console.log(el); + el.querySelector("button.toggle-button").click(); + el.dataset["toggle_after_print"] = "true"; + }); + }); + window.addEventListener("afterprint", () => { + // Re-close the details that were closed + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.open = el.dataset["togglestatus"] == "true"; + delete el.dataset["togglestatus"]; + }); + + // Re-close the admonition toggle buttons + document.querySelectorAll(".admonition.toggle").forEach((el) => { + if (el.dataset["toggle_after_print"] == "true") { + el.querySelector("button.toggle-button").click(); + delete el.dataset["toggle_after_print"]; + } + }); + }); +} diff --git a/branch/main/exercises/index.html b/branch/main/exercises/index.html new file mode 100644 index 0000000..de3753e --- /dev/null +++ b/branch/main/exercises/index.html @@ -0,0 +1,762 @@ + + + + + + + List of exercises — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

List of exercises

+
+

Full list

+

This is a list of all exercises and solutions in this lesson, mainly +as a reference for helpers and instructors. This list is +automatically generated from all of the other pages in the lesson. +Any single teaching event will probably cover only a subset of these, +depending on their interests.

+
+

Motivation and wishlist

+

In wishlist.md:

+ +

In wishlist.md:

+ +
+
+

In-code documentation

+

In in-code-documentation.md:

+
+

In-code-1: Comments

+

Let’s take a look at two example comments (comments in Python start with #):

+

Comment A

+
# now we check if temperature is below -50
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Comment B

+
# we regard temperatures below -50 degrees as measurement errors
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Which of these comments is more useful? Can you explain why?

+ +
+
+
+

Writing good README files

+

In writing-readme-files.md:

+
+

Exercise README-1: Have fun testing some README features you may not have heard about

+
    +

  • Test the effect of adding the following to your GitHub README (read +more):

    +
    > [!NOTE]
+> Highlights information that users should take into account, even when skimming.
+
+> [!IMPORTANT]
+> Crucial information necessary for users to succeed.
+
+> [!WARNING]
+> Critical content demanding immediate user attention due to potential risks.
+
    +
    +
    • +

  • For more detailed descriptions which you don’t want to show by default you +might find this useful (please try it out):

    +
    <details>
+<summary>
+Short summary
+</summary>
+
+Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod
+tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam,
+quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo
+consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse
+cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non
+proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+</details>
+
    +
    +
    • +

  • Would you like to add a badge like this one: please replace with alt text?

    +

    Badge that links to a website (see also https://shields.io/):

    +
    [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)
+
    +
    +

    Badge without link:

    +
    ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)
+
    +
    +
    • +

  • Know about other tips and tricks? Please share them (send a pull request to this lesson).

    • +
+
+

In writing-readme-files.md:

+
+

Exercise README-2: Draft or improve a README for one of your recent projects

+

Try to draft a brief README or review a README which you have written for one +of your projects.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • Use the checklist which we have discussed earlier.

    • +

  • Think about the user (which can be a future you) of your project, what does this user need to know to use or +contribute to the project? And how do you make your project attractive to use or contribute to?

    • +

  • (Optional): Try the https://hemingwayapp.com/ to analyse your README file and make your writing bold and clear.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+

In writing-readme-files.md:

+
+

Exercise README-3: Review and discuss a README of a project that you have used

+

In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • When discussing other people’s projects please remember to be respectful and +constructive. The goal of this exercise is not to criticize other projects but +to learn from other projects and to collect the aspects that you enjoyed +finding in a README and to also collect aspects which you have searched for but +which are sometimes missing.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+

Sphinx and Markdown

+

In sphinx.md:

+
+

Sphinx-1: Generate the basic documentation template

+

Create a directory for the example documentation, step into it, and inside +generate the basic documentation template:

+
$ mkdir doc-example
+$ cd doc-example
+$ sphinx-quickstart
+
+
+

The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release:

+
> Separate source and build directories (y/n) [n]: <hit enter>
+> Project name: <your project name>
+> Author name(s): <your name>
+> Project release []: 0.1
+> Project language [en]: <hit enter>
+
+
+

A couple of files and directories are created:

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

File/directory

Contents

conf.py

Documentation configuration file

index.rst

Main file in Sphinx

_build/

Directory where docs are built (you can decide the name)

_templates/

Your own HTML templates

_static/

Static files (images, styles, etc.) copied to output directory on build

Makefile

Makefile to build documentation using make

make.bat

Makefile to build documentation using make (Windows)

+

Makefile and make.bat (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly.

+

Let’s have a look at the index.rst file, which is the main file of your documentation:

+
.. myproject documentation master file, created by
+   sphinx-quickstart on Sat Sep 23 17:35:26 2023.
+   You can adapt this file completely to your liking, but it should at least
+   contain the root `toctree` directive.
+
+Welcome to myproject's documentation!
+=====================================
+
+.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+
+
+
    +

  • We will not use the Indices and tables section now, so remove it and everything below.

    • +

  • The top four lines, starting with .., are a comment.

    • +

  • The next lines are the table of contents. We can add content below:

    • +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+
+
+

Note that some-feature.md needs to be indented to align with :caption:.

+

We now need to tell Sphinx to use markdown files. To do this, we open +conf.py and replace the line:

+
extensions = []
+
+
+

with this line so that Sphinx can parse Markdown files:

+
extensions = ['myst_parser']
+
+
+

Let’s create the file some-feature.md (in Markdown format) which we have just listed in +index.rst (which uses reStructured Text format).

+
# Some feature
+
+## Subsection
+
+Exciting documentation in here.
+Let's make a list (empty surrounding lines required):
+
+- item 1
+
+  - nested item 1
+  - nested item 2
+
+- item 2
+- item 3
+
+
+

We now build the site:

+
$ ls -1
+
+_static
+_templates
+conf.py
+index.rst
+make.bat
+Makefile
+some-feature.md
+
+$ sphinx-build . _build
+
+... lots of output ...
+build succeeded.
+
+The HTML pages are in _build.
+
+$ ls -1 _build
+
+_sources
+_static
+genindex.html
+index.html
+objects.inv
+search.html
+searchindex.js
+some-feature.html
+
+
+

Now open the file _build/index.html in your browser.

+
    +

  • Linux users, type:

    +
    $ xdg-open _build/index.html
+
    +
    +
    • +

  • macOS users, type:

    +
    $ open _build/index.html
+
    +
    +
    • +

  • Windows users, type:

    +
    $ start _build/index.html
+
    +
    +
    • +

  • If the above does not work: +Enter file:///home/user/doc-example/_build/index.html in your browser (adapting the path to your case).

    • +
+

Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere.

+

Note that you can change the styling by editing conf.py and changing the value html_theme +(for instance you can set it to sphinx_rtd_theme (if you have that Python package installed) +to have the Read the Docs look).

+
+

In sphinx.md:

+
+

Sphinx-2: Add more content to your example documentation

+
    +

  1. Add a entry below some-feature.md labeled another-feature.md (or a better name) to the index.rst file.

    2. +

  2. Create a file another-feature.md in the same directory as the index.rst file.

    3. +

  3. Add some content to another-feature.md, rebuild with sphinx-build . _build, and refresh the browser to look at the results.

    4. +

  4. Use the MyST Typography page as help.

    5. +
+

Experiment with the following Markdown syntax:

+
    +

  • *Emphasized text* and **bold text**

    • +

  • Headings:

    • +
+
# Level 1
+
+## Level 2
+
+### Level 3
+
+#### Level 4
+
+
+
    +

  • An image: ![alt text](image.png)

    • +

  • [A link](https://www.example.org)

    • +

  • Numbered lists (numbers adjusted automatically):

    • +
+
1. item 1
+2. item 2
+3. item 3
+1. item 4
+1. item 5
+
+
+
    +

  • Simple tables:

    • +
+
| No.  |  Prime |
+| ---- | ------ |
+| 1    |  No    |
+| 2    |  Yes   |
+| 3    |  Yes   |
+| 4    |  No    |
+
+
+
    +

  • Code blocks:

    • +
+
The following is a Python code block:
+```python
+  def hello():
+      print("Hello world")
+```
+
+And this is a C code block:
+```c
+#include <stdio.h>
+int main()
+{
+    printf("Hello, World!");
+    return 0;
+}
+```
+
+
+
    +

  • You could include an external file (here we assume a file called “example.py” +exists; at the same time we highlight lines 2 and 3):

    • +
+
```{literalinclude} example.py
+:language: python
+:emphasize-lines: 2-3
+```
+
+
+
    +

  • We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the +myst-nb extension to be installed.

    • +
+
+

In sphinx.md:

+
+

Sphinx-3: Rendering (LaTeX) math equations

+

Math equations should work out of the box. In some older versions, you might need +to edit conf.py and add sphinx.ext.mathjax:

+
extensions = ['myst_parser', 'sphinx.ext.mathjax']
+
+
+

Try this (result below):

+
This creates an equation:
+```{math}
+a^2 + b^2 = c^2
+```
+
+This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text.
+
+
+

This creates an equation:

+
+\[a^2 + b^2 = c^2\]
+

This is an in-line equation, \(a^2 + b^2 = c^2\), embedded in text.

+
+

In sphinx.md:

+
+

(optional) Sphinx-4: Auto-generating documentation from Python docstrings

+
    +

  1. Write some docstrings in functions and/or class definitions of an example python module:

    2. +
+
def multiply(a: float, b: float) -> float:
+    """
+    Multiply two numbers.
+
+    :param a: First number.
+    :param b: Second number.
+    :return: The product of a and b.
+    """
+    return a * b
+
+
+
    +

  1. In the file conf.py modify “extensions” and add 3 lines:

    2. +
+
extensions = ['myst_parser', "sphinx.ext.autodoc"]
+
+autodoc2_packages = [
+    "multiply.py"
+]
+
+
+
    +

  1. List apidocs/index in the toctree in index.rst.

    2. +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+   apidocs/index
+
+
+
    +

  1. Re-build the documentation and check the “API reference” section.

    2. +
+
+
+
+

Deploying Sphinx documentation to GitHub Pages

+

In gh_workflow.md:

+
+

GH-Pages-1: Deploy Sphinx documentation to GitHub Pages

+

In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages.

+

Step 1: Go to the documentation-example project template +on GitHub and create a copy to your namespace.

+
    +

  • Give it a name, for instance “documentation-example”.

    • +

  • You don’t need to “Include all branches”

    • +

  • Click on “Create a repository”.

    • +
+

Step 2: Browse the new repository.

+
    +

  • It will look very familar to the previous episode.

    • +

  • However, we have moved the documentation part under doc/ (many projects do it this +way). But it is still a Sphinx documentation project.

    • +

  • The source code for your project could then go under src/.

    • +
+

Step 3: Add the GitHub Action to your new Git repository.

+
    +

  • Add a new file at .github/workflows/documentation.yml (either through terminal or web interface), containing:

    • +
+
name: documentation
+
+on: [push, pull_request, workflow_dispatch]
+
+permissions:
+  contents: write
+
+jobs:
+  docs:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+      - name: Install dependencies
+        run: |
+          pip install sphinx sphinx_rtd_theme myst_parser
+      - name: Sphinx build
+        run: |
+          sphinx-build doc _build
+      - name: Deploy to GitHub Pages
+        uses: peaceiris/actions-gh-pages@v3
+        if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }}
+        with:
+          publish_branch: gh-pages
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: _build/
+          force_orphan: true
+
+
+
    +

  • You don’t need to understand all of the above, but you +might spot familiar commands in the run: sections.

    • +

  • After the file has been committed (and pushed), +check the action at https://github.com/USER/documentation-example/actions +(replace USER with your GitHub username).

    • +
+

Step 4: Enable GitHub Pages

+
    +

  • On GitHub go to “Settings” -> “Pages”.

    • +

  • In the “Source” section, choose “Deploy from a branch” in the dropdown menu.

    • +

  • In the “Branch” section choose “gh-pages” and “/root” in the dropdown menus and click +save.

    • +

  • You should now be able to verify the pages deployment in the Actions list).

    • +
+

Step 5: Verify the result

+
    +

  • Your site should now be live on https://USER.github.io/documentation-example/ (replace USER).

    • +
+

Step 6: Verify refreshing the documentation

+
    +

  • Commit some changes to your documentation

    • +

  • Verify that the documentation website refreshes after your changes (can take few seconds or a minute)

    • +
+
+
+
+

Hosting websites/homepages on GitHub Pages

+

In gh-pages.md:

+
+

GH-Pages-2: Host your own github page

+
    +

  • Deploy own website reusing a template:

    +
      +

    • Follow the steps from GitHub Pages https://pages.github.com/. +The documentation there is very good so there is no need for us to duplicate the screenshots.

      • +

    • Select “Project site”.

      • +

    • Select “Choose a theme”.

      • +

    • Follow the instructions on https://pages.github.com/.

      • +

    • Browse your page on https://USERNAME.github.io/REPOSITORY (adjust “USERNAME” and “REPOSITORY”).

      • +
    +
    • +

  • Make a change to the repository after the webpage has been deployed for the first time.

    • +

  • Please wait few minutes and then verify that the change shows up on the website.

    • +
+
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/genindex/index.html b/branch/main/genindex/index.html new file mode 100644 index 0000000..8d3a30f --- /dev/null +++ b/branch/main/genindex/index.html @@ -0,0 +1,146 @@ + + + + + + Index — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ + +

Index

+ +
+ +
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/gh-pages/index.html b/branch/main/gh-pages/index.html new file mode 100644 index 0000000..ec59a99 --- /dev/null +++ b/branch/main/gh-pages/index.html @@ -0,0 +1,226 @@ + + + + + + + Hosting websites/homepages on GitHub Pages — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Hosting websites/homepages on GitHub Pages

+
+

Often we don’t need more than a static website

+

You can host your personal homepage or group webpage or project website on +GitHub using GitHub Pages. +GitLab and +Bitbucket +also offer a very similar solution.

+

Unless you need user authentication or a sophisticated database behind your +website, GitHub Pages can be a very nice +alternative to running your own web servers. This is how all +https://coderefinery.org material is hosted.

+
+
+

How to find the website URL

+

Here below, NAMESPACE can either be a username or an organizational account.

+

Personal homepage or organizational homepage

+
    +

  • Generated URL: https://NAMESPACE.github.io

    • +

  • Generated from: https://github.com/NAMESPACE/NAMESPACE.github.io (main branch)

    • +
+

Project website

+
    +

  • Generated URL: https://NAMESPACE.github.io/REPOSITORY

    • +

  • Generated from: https://github.com/NAMESPACE/REPOSITORY (gh-pages branch)

    • +
+
+
+

Exercise - Your own website on GitHub Pages

+
+

GH-Pages-2: Host your own github page

+
    +

  • Deploy own website reusing a template:

    +
      +

    • Follow the steps from GitHub Pages https://pages.github.com/. +The documentation there is very good so there is no need for us to duplicate the screenshots.

      • +

    • Select “Project site”.

      • +

    • Select “Choose a theme”.

      • +

    • Follow the instructions on https://pages.github.com/.

      • +

    • Browse your page on https://USERNAME.github.io/REPOSITORY (adjust “USERNAME” and “REPOSITORY”).

      • +
    +
    • +

  • Make a change to the repository after the webpage has been deployed for the first time.

    • +

  • Please wait few minutes and then verify that the change shows up on the website.

    • +
+
+
+

Real-life examples

+ +
+
+

Note

+
    +

  • You can use HTML directly or another static site generator if you prefer +to not use the default Jekyll.

    • +

  • It is no problem to use a custom domain instead of *.github.io.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/gh_workflow/index.html b/branch/main/gh_workflow/index.html new file mode 100644 index 0000000..bd23427 --- /dev/null +++ b/branch/main/gh_workflow/index.html @@ -0,0 +1,298 @@ + + + + + + + Deploying Sphinx documentation to GitHub Pages — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+
    +
    • +
  • Deploying Sphinx documentation to GitHub Pages
    • +
  • + Edit on GitHub +
    • +
+
+
+
+
+ +
+

Deploying Sphinx documentation to GitHub Pages

+
+

Objectives

+
    +

  • Create a basic workflow which you can take home and adapt for your project.

    • +
+
+
+

GitHub Pages

+
    +

  • Serve websites from a GitHub repository.

    • +

  • It is no problem to serve using your own URL https://myproject.org instead of https://myuser.github.io/myproject.

    • +
+
+
+

GitHub Actions

+
    +

  • Automatically runs code when your repository changes.

    • +

  • We will let it run sphinx-build and make the result available to GitHub Pages.

    • +
+
+
+

Our goal: putting it all together

+
    +

  • Host source code with documentation sources on a public Git repository.

    • +

  • Each time we git push to the repository, a GitHub action triggers to +rebuild the documentation.

    • +

  • The documentation is pushed to a separate branch called ‘gh-pages’.

    • +
+
+
+
+

Exercise - Deploy Sphinx documentation to GitHub Pages

+
+

GH-Pages-1: Deploy Sphinx documentation to GitHub Pages

+

In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages.

+

Step 1: Go to the documentation-example project template +on GitHub and create a copy to your namespace.

+
    +

  • Give it a name, for instance “documentation-example”.

    • +

  • You don’t need to “Include all branches”

    • +

  • Click on “Create a repository”.

    • +
+

Step 2: Browse the new repository.

+
    +

  • It will look very familar to the previous episode.

    • +

  • However, we have moved the documentation part under doc/ (many projects do it this +way). But it is still a Sphinx documentation project.

    • +

  • The source code for your project could then go under src/.

    • +
+

Step 3: Add the GitHub Action to your new Git repository.

+
    +

  • Add a new file at .github/workflows/documentation.yml (either through terminal or web interface), containing:

    • +
+
name: documentation
+
+on: [push, pull_request, workflow_dispatch]
+
+permissions:
+  contents: write
+
+jobs:
+  docs:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+      - name: Install dependencies
+        run: |
+          pip install sphinx sphinx_rtd_theme myst_parser
+      - name: Sphinx build
+        run: |
+          sphinx-build doc _build
+      - name: Deploy to GitHub Pages
+        uses: peaceiris/actions-gh-pages@v3
+        if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }}
+        with:
+          publish_branch: gh-pages
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: _build/
+          force_orphan: true
+
+
+
    +

  • You don’t need to understand all of the above, but you +might spot familiar commands in the run: sections.

    • +

  • After the file has been committed (and pushed), +check the action at https://github.com/USER/documentation-example/actions +(replace USER with your GitHub username).

    • +
+

Step 4: Enable GitHub Pages

+
    +

  • On GitHub go to “Settings” -> “Pages”.

    • +

  • In the “Source” section, choose “Deploy from a branch” in the dropdown menu.

    • +

  • In the “Branch” section choose “gh-pages” and “/root” in the dropdown menus and click +save.

    • +

  • You should now be able to verify the pages deployment in the Actions list).

    • +
+

Step 5: Verify the result

+
    +

  • Your site should now be live on https://USER.github.io/documentation-example/ (replace USER).

    • +
+

Step 6: Verify refreshing the documentation

+
    +

  • Commit some changes to your documentation

    • +

  • Verify that the documentation website refreshes after your changes (can take few seconds or a minute)

    • +
+
+
+
+

Alternatives to GitHub Pages

+
    +

  • GitLab Pages +and GitLab CI can create a very similar workflow.

    • +

  • Read the Docs is the most common alternative to +hosting in GitHub Pages.

    • +

  • Sphinx builds HTML files (this is what static site generators do), and you +can host them anywhere, for example your university’s web space or own web server.

    • +
+
+
+

Migrating your own documentation to Sphinx

+
    +

  • First convert your documentation to Markdown using Pandoc.

    • +

  • Create a file index.rst which lists all other Markdown files and provides the +table of contents.

    • +

  • Add a conf.py file. You can generate a starting point for conf.py and +index.rst with sphinx-quickstart, or you can take the examples in this +lesson as inspiration.

    • +

  • Test building the documentation locally with sphinx-build.

    • +

  • Once this works, follow the above steps to build and deploy to GitHub Pages or some other web space.

    • +
+
+
+

Keypoints

+
    +

  • Sphinx makes simple HTML (and more) files, so it is easy to find a place to host them.

    • +

  • Github Pages + Github Actions provides a convenient way to make +sites and host them on the web.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/guide/index.html b/branch/main/guide/index.html new file mode 100644 index 0000000..75607ba --- /dev/null +++ b/branch/main/guide/index.html @@ -0,0 +1,287 @@ + + + + + + + Instructor guide — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Instructor guide

+
+

Why we teach this lesson

+

Everyone should document their code, even if they’re working alone.

+

These are the main points:

+
    +

  • Code documentation has to be versionnable and branchable

    • +

  • Code documentation should be tracked together with the source code

    • +

  • README is often enough

    • +
+

Please do not skim over the two above points. Please take few minutes to +explain why documentation (sources) should be tracked together with the source +code. Please discuss this aspect with workshop participants and connect it to +reproducibility. This is for me (Radovan) the most important take-home +message.

+

Specific motivations:

+
    +

  • Code documentation becomes quickly unmanageable if not part of the source code.

    • +

  • It helps people to quickly use your code thus reducing the time spent to explain over and again to new users.

    • +

  • It helps people to collaborate.

    • +

  • It improves the design of your code.

    • +
+
+
+

Intended learning outcomes

+

By the end of this lesson, learners should:

+
    +

  • Understand the importance of writing code documentation together with the source code

    • +

  • Know what makes a good documentation

    • +

  • Learn what tools can be used for writing documentation

    • +

  • Be able to motivate a balanced decision: sometimes READMEs are absolutely enough

    • +
+
+
+

Timing

+

As an instructor you should prepare all bullet points but do not go through +each bullet point in detail. Only highlight the main points and rather give +time for a discussion. Leave details for a later lecture for those who want to +find out more. If you go through each bullet point in detail, the motivation +can easily take up 30 minutes and you will run out of time.

+

The lesson does not fit into 1.5 hours if you go through everything. Optimize +for discussions and prepare well to be able to jump over bullet points which +can be left for a later lecture. Some sections can be skipped if needed (see +below). However, we recommend to have a discussion with your learners to make +them aware of what the training material contains.

+
    +

  • Do not insist on practicing Markdown or RST syntax.

    • +

  • The section Rendering (LaTeX) math equations may be optional if your +attendees do not have to deal with equations.

    • +

  • In the GitHub Pages episode, the +goal is not anymore to write code documentation but to show how to build +project website with GitHub. If time is tight, the GitHub pages episode can be +skipped or can be done as demonstration instead of exercise.

    • +
+
+
+

Detailed schedule

+
    +

  • 09:00 - 09:10 Motivation and tools

    +
      +

    • create a wishlist in collaborative notes

      • +
    +
    • +

  • 09:10 - 09:20 Writing good README files

    +
      +

    • brief discussion

      • +
    +
    • +

  • 09:20 - 09:40 Exercises: README-1, README-2, README-3 (choose one or multiple)

    • +

  • 09:40 - 10:00 Sphinx and Markdown: Sphinx-1 as type along

    • +

  • 10:00 - 10:10 Break

    • +

  • 10:10 - 10:40 Exercises, Sphinx-2, Sphinx-3, GH-Pages-1

    • +

  • 10:40 - 11:00 Discussion, GH Pages, Summary

    • +
+
+
+

Place this lesson towards the end of the workshop

+

Reason is that with collaborative Git we can create more interesting +documentation exercises. Currently there are some elements of forking and +pushing and this is only really introduced on day two. We have tried this +lesson on day one and it felt too early and disconnected/abrupt. It works best +after the reproducibility lesson since we then reuse the example and it feels +familiar.

+
+
+

Troubleshooting

+
+

Character encoding issues

+

Can arise when using non-utf8 characters in conf.py. Diagnose this with file -i conf.py +and locale.

+
+
+
+

Live better than reading the website material

+

It is better to demonstrate the commands live and type-along. Ideally connecting +to examples discussed earlier.

+

In online workshops most of the type-along becomes group exercise work where groups +can share screen and discuss.

+
+
+

Field reports

+
+

2022 September

+

We were pressed for time (we started 5-10 minutes late, relative to +the schedule below), so we made most of the first lessons fast. In +the schedule below, note that we had the first 10 minutes for +“Motivation” and “Popular tools”, which we didn’t fully realize so +that put us even further behind. Doing these introduction +parts quickly was hard but was probably worth it since we had plenty +of time in the end. For the “tools”, one person summarized the point +of each section on the page quickly. The README episode was done +quickly, we basically skipped the exercises to get to Sphinx, and this +put us back on schedule.

+

For Sphinx, we did it a lot like you see in the schedule: first +exercise (the basic setup) was type-along, but it was a bit too much +to do in the 10 minutes we had allotted (we typed too fast). But, +people then had a nice long time to make it up and do everything. It +seemed to work well. The GitHub pages deployment could then be done +as a nice, slow demo, and we had plenty of time to ask questions.

+

Overall, I think this was the right track, but we could have practiced +doing the first parts even faster, and warned people that we focus on +the Sphinx exercises.

+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/in-code-documentation/index.html b/branch/main/in-code-documentation/index.html new file mode 100644 index 0000000..860daf6 --- /dev/null +++ b/branch/main/in-code-documentation/index.html @@ -0,0 +1,386 @@ + + + + + + + In-code documentation — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

In-code documentation

+
+

Questions

+
    +

  • What can I do to make my code more easily understandable?

    • +

  • What information should go into comments?

    • +

  • What are docstrings and what information should go into docstrings?

    • +
+
+

In this episode we will learn how to write good documentation inside your code.

+
+

Exercise - Writing good comments

+
+

In-code-1: Comments

+

Let’s take a look at two example comments (comments in Python start with #):

+

Comment A

+
# now we check if temperature is below -50
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Comment B

+
# we regard temperatures below -50 degrees as measurement errors
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Which of these comments is more useful? Can you explain why?

+ +
+
+
+

Sometimes version control is better than a comment

+
+

Examples for code comments where Git is a better solution

+

Keeping zombie code “just in case” (rather use version control):

+
# do not run this code!
+# if temperature > 0:
+#     print("It is warm")
+
+
+

Instead: Remove the code, you can always find it back in a previous version of your code in Git.

+

Emulating version control:

+
# John Doe: threshold changed from 0 to 15 on August 5, 2013
+if temperature > 15:
+    print("It is warm")
+
+
+

Instead: You can get this information from git log or git show or git   annotate or similar.

+
+
+
+

What are “docstrings” and how can they be useful?

+

Here is function fahrenheit_to_celsius which converts temperature in +Fahrenheit to Celsius, implemented in a couple of different languages. +Your language is missing? Please contribute an example.

+

The first set of examples uses regular comments:

+
+
# This function converts a temperature in Fahrenheit to Celsius.
+def fahrenheit_to_celsius(temp_f: float) -> float:
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+
+

The second set uses docstrings or similar concepts. Please compare the two +(above and below):

+
+
def fahrenheit_to_celsius(temp_f: float) -> float:
+    """
+    Converts a temperature in Fahrenheit to Celsius.
+
+    Parameters
+    ----------
+    temp_f : float
+        The temperature in Fahrenheit.
+
+    Returns
+    -------
+    float
+        The temperature in Celsius.
+    """
+
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+

Read more: https://peps.python.org/pep-0257/

+
+

Docstrings can do a bit more than just comments:

+
    +

  • Tools can generate help text automatically from the docstrings.

    • +

  • Tools can generate documentation pages automatically from code.

    • +
+

It is common to write docstrings for functions, classes, and modules.

+

Good docstrings describe:

+
    +

  • What the function does

    • +

  • What goes in (including the type of the input variables)

    • +

  • What goes out (including the return type)

    • +
+

Naming is documentation: +Giving explicit, descriptive names to your code segments (functions, classes, +variables) already provides very useful and important documentation. In +practice you will find that for simple functions it is unnecessary to add a +docstring when the function name and variable names already give enough +information.

+
+
+

Keypoints

+
    +

  • Comments should describe the why for your code not the what.

    • +

  • Writing docstrings can be a good way to write documentation while you type +code since it also makes it possible +to query that information from outside the code or to auto-generate +documentation pages.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/index.html b/branch/main/index.html new file mode 100644 index 0000000..0f8055e --- /dev/null +++ b/branch/main/index.html @@ -0,0 +1,229 @@ + + + + + + + How to document your research software — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

How to document your research software

+

In this lesson we will discuss different solutions for implementing and +deploying code documentation.

+

We will start with a discussion about what makes a good README. For many +projects, a README is more than enough.

+

We will then learn how to build documentation with the +documentation generator Sphinx (and compare it +with others) and how to +deploy it to Read the Docs, a service which hosts +open documentation for free.

+

This demonstration will be independent of programming languages.

+

We will also learn how +to deploy a project website or personal homepage to GitHub Pages. +The approach that we will learn will be transferable to +GitLab Pages and +Bitbucket Pages.

+
+

Prerequisites

+
    +

  1. Basic understanding of Git.

    2. +

  2. For the Sphinx part, You need to have +sphinx and sphinx_rtd_theme installed +(they are part of the coderefinery environment).

    3. +

  3. For the GitHub Pages part you need a GitHub account.

    4. +
+
+ + + + + + + + + + + + + + + + + + + + + + + + + + + +

10 min

Motivation and wishlist

10 min

Popular tools and solutions

20 min

In-code documentation

30 min

Writing good README files

30 min

Sphinx and Markdown

20 min

Deploying Sphinx documentation to GitHub Pages

20 min

Hosting websites/homepages on GitHub Pages

5 min

Summary

+
+

The lesson

+ +
+
+

Reference

+ +
+
+

About

+ +
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/lesson.pdf b/branch/main/lesson.pdf new file mode 100644 index 0000000..126b518 Binary files /dev/null and b/branch/main/lesson.pdf differ diff --git a/branch/main/license/index.html b/branch/main/license/index.html new file mode 100644 index 0000000..47fd6ec --- /dev/null +++ b/branch/main/license/index.html @@ -0,0 +1,191 @@ + + + + + + + Credit and license — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Credit and license

+

This material is provided by CodeRefinery under the licenses stated below.

+
+

Website template

+

The website template is maintained by CodeRefinery +and rendered with sphinx-lesson: structured lessons with Sphinx.

+
+
+

Instructional material

+

All CodeRefinery instructional material is made available under the +Creative Commons Attribution license (CC-BY-4.0). +The following is a human-readable summary of (and not a substitute for) +the full legal text of the CC-BY-4.0 license.

+

You are free:

+
    +

  • to Share - copy and redistribute the material in any medium or format

    • +

  • to Adapt - remix, transform, and build upon the material

    • +
+

for any purpose, even commercially. The licensor cannot revoke these freedoms as long as you follow these license terms:

+
    +

  • Attribution - You must give appropriate credit +(mentioning that your work is derived from work that is Copyright +(c) CodeRefinery and, where practical, linking to +https://coderefinery.org, provide +a link to the license, +and indicate if changes were made. You may do so in any +reasonable manner, but not in any way that suggests the licensor +endorses you or your use.

    • +
+

No additional restrictions - You may not apply legal terms or technological +measures that legally restrict others from doing anything the license permits. +With the understanding that:

+
    +

  • You do not have to comply with the license for elements of the material in +the public domain or where your use is permitted by an applicable exception +or limitation.

    • +

  • No warranties are given. The license may not give you all of the +permissions necessary for your intended use. For example, other +rights such as publicity, privacy, or moral rights may limit how +you use the material.

    • +
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+ + + + \ No newline at end of file diff --git a/branch/main/objects.inv b/branch/main/objects.inv new file mode 100644 index 0000000..7744a48 Binary files /dev/null and b/branch/main/objects.inv differ diff --git a/branch/main/search/index.html b/branch/main/search/index.html new file mode 100644 index 0000000..b5a2b36 --- /dev/null +++ b/branch/main/search/index.html @@ -0,0 +1,160 @@ + + + + + + Search — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
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+
+ + + + + + + + + \ No newline at end of file diff --git a/branch/main/searchindex.js b/branch/main/searchindex.js new file mode 100644 index 0000000..4726e5b --- /dev/null +++ b/branch/main/searchindex.js @@ -0,0 +1 @@ +Search.setIndex({"alltitles": {"(optional) Sphinx-4: Auto-generating documentation from Python docstrings": [[0, "exercise-3"], [7, "exercise-3"]], "2022 September": [[3, "september"]], "About": [[5, null]], "Alternatives to GitHub Pages": [[2, "alternatives-to-github-pages"]], "Before we start, let us verify whether we have the software we need": [[7, "prerequisites-0"]], "Character encoding issues": [[3, "character-encoding-issues"]], "Confused about reStructuredText vs. Markdown vs. MyST?": [[7, "confused-about-restructuredtext-vs-markdown-vs-myst"]], "Creating a checklist": [[10, "creating-a-checklist"]], "Credit and license": [[6, null]], "Deploying Sphinx documentation to GitHub Pages": [[0, "deploying-sphinx-documentation-to-github-pages"], [2, null]], "Detailed 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Multiple values per key are supported, + * it will always return arrays of strings for the value parts. + */ +jQuery.getQueryParameters = function(s) { + if (typeof s === 'undefined') + s = document.location.search; + var parts = s.substr(s.indexOf('?') + 1).split('&'); + var result = {}; + for (var i = 0; i < parts.length; i++) { + var tmp = parts[i].split('=', 2); + var key = jQuery.urldecode(tmp[0]); + var value = jQuery.urldecode(tmp[1]); + if (key in result) + result[key].push(value); + else + result[key] = [value]; + } + return result; +}; + +/** + * highlight a given string on a jquery object by wrapping it in + * span elements with the given class name. + */ +jQuery.fn.highlightText = function(text, className) { + function highlight(node, addItems) { + if (node.nodeType === 3) { + var val = node.nodeValue; + var pos = val.toLowerCase().indexOf(text); + if (pos >= 0 && + !jQuery(node.parentNode).hasClass(className) && + !jQuery(node.parentNode).hasClass("nohighlight")) { + var span; 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+ }); + } + } + var addItems = []; + var result = this.each(function() { + highlight(this, addItems); + }); + for (var i = 0; i < addItems.length; ++i) { + jQuery(addItems[i].parent).before(addItems[i].target); + } + return result; +}; + +/* + * backward compatibility for jQuery.browser + * This will be supported until firefox bug is fixed. + */ +if (!jQuery.browser) { + jQuery.uaMatch = function(ua) { + ua = ua.toLowerCase(); + + var match = /(chrome)[ \/]([\w.]+)/.exec(ua) || + /(webkit)[ \/]([\w.]+)/.exec(ua) || + /(opera)(?:.*version|)[ \/]([\w.]+)/.exec(ua) || + /(msie) ([\w.]+)/.exec(ua) || + ua.indexOf("compatible") < 0 && /(mozilla)(?:.*? rv:([\w.]+)|)/.exec(ua) || + []; + + return { + browser: match[ 1 ] || "", + version: match[ 2 ] || "0" + }; + }; + jQuery.browser = {}; + jQuery.browser[jQuery.uaMatch(navigator.userAgent).browser] = true; +} diff --git a/branch/main/singlehtml/_static/basic.css b/branch/main/singlehtml/_static/basic.css new file mode 100644 index 0000000..f316efc --- /dev/null +++ b/branch/main/singlehtml/_static/basic.css @@ -0,0 +1,925 @@ +/* + * basic.css + * ~~~~~~~~~ + * + * Sphinx stylesheet -- basic theme. + * + * :copyright: Copyright 2007-2024 by the Sphinx team, see AUTHORS. + * :license: BSD, see LICENSE for details. + * + */ + +/* -- main layout ----------------------------------------------------------- */ + +div.clearer { + clear: both; +} + +div.section::after { + display: block; + content: ''; + clear: left; +} + +/* -- relbar ---------------------------------------------------------------- */ + +div.related { + width: 100%; + font-size: 90%; +} + +div.related h3 { + display: none; +} + +div.related ul { + margin: 0; + padding: 0 0 0 10px; + list-style: none; +} + +div.related li { + display: inline; +} + +div.related li.right { + float: right; + margin-right: 5px; +} + +/* -- sidebar --------------------------------------------------------------- */ + +div.sphinxsidebarwrapper { + padding: 10px 5px 0 10px; +} + +div.sphinxsidebar { + float: left; + width: 230px; + margin-left: -100%; + font-size: 90%; + word-wrap: break-word; + overflow-wrap : break-word; +} + +div.sphinxsidebar ul { + list-style: none; +} + +div.sphinxsidebar ul ul, +div.sphinxsidebar ul.want-points { + margin-left: 20px; + list-style: square; +} + +div.sphinxsidebar ul ul { + margin-top: 0; + margin-bottom: 0; +} + +div.sphinxsidebar form { + margin-top: 10px; +} + +div.sphinxsidebar input { + border: 1px solid #98dbcc; + font-family: sans-serif; + font-size: 1em; +} + +div.sphinxsidebar #searchbox form.search { + overflow: hidden; +} + +div.sphinxsidebar #searchbox input[type="text"] { + float: left; + width: 80%; + padding: 0.25em; + box-sizing: border-box; +} + +div.sphinxsidebar #searchbox input[type="submit"] { + float: left; + width: 20%; + border-left: none; + padding: 0.25em; + box-sizing: border-box; +} + + +img { + border: 0; + max-width: 100%; +} + +/* -- search page ----------------------------------------------------------- */ + +ul.search { + margin: 10px 0 0 20px; + padding: 0; +} + +ul.search li { + padding: 5px 0 5px 20px; + background-image: url(file.png); + background-repeat: no-repeat; + background-position: 0 7px; +} + +ul.search li a { + font-weight: bold; +} + +ul.search li p.context { + color: #888; + margin: 2px 0 0 30px; + text-align: left; +} + +ul.keywordmatches li.goodmatch a { + font-weight: bold; +} + +/* -- index page ------------------------------------------------------------ */ + +table.contentstable { + width: 90%; + margin-left: auto; + margin-right: auto; +} + +table.contentstable p.biglink { + line-height: 150%; +} + +a.biglink { + font-size: 1.3em; +} + +span.linkdescr { + font-style: italic; + padding-top: 5px; + font-size: 90%; +} + +/* -- general index --------------------------------------------------------- */ + +table.indextable { + width: 100%; +} + +table.indextable td { + text-align: left; + vertical-align: top; +} + +table.indextable ul { + margin-top: 0; + margin-bottom: 0; + list-style-type: none; +} + +table.indextable > tbody > tr > td > ul { + padding-left: 0em; +} + +table.indextable tr.pcap { + height: 10px; +} + +table.indextable tr.cap { + margin-top: 10px; + background-color: #f2f2f2; +} + +img.toggler { + margin-right: 3px; + margin-top: 3px; + cursor: pointer; +} + +div.modindex-jumpbox { + border-top: 1px solid #ddd; + border-bottom: 1px solid #ddd; + margin: 1em 0 1em 0; + padding: 0.4em; +} + +div.genindex-jumpbox { + border-top: 1px solid #ddd; + border-bottom: 1px solid #ddd; + margin: 1em 0 1em 0; + padding: 0.4em; +} + +/* -- domain module index --------------------------------------------------- */ + +table.modindextable td { + padding: 2px; + border-collapse: collapse; +} + +/* -- general body styles --------------------------------------------------- */ + +div.body { + min-width: 360px; + max-width: 800px; +} + +div.body p, div.body dd, div.body li, div.body blockquote { + -moz-hyphens: auto; + -ms-hyphens: auto; + -webkit-hyphens: auto; + hyphens: auto; +} + +a.headerlink { + visibility: hidden; +} + +a:visited { + color: #551A8B; +} + +h1:hover > a.headerlink, +h2:hover > a.headerlink, +h3:hover > a.headerlink, +h4:hover > a.headerlink, +h5:hover > a.headerlink, +h6:hover > a.headerlink, +dt:hover > a.headerlink, +caption:hover > a.headerlink, +p.caption:hover > a.headerlink, +div.code-block-caption:hover > a.headerlink { + visibility: visible; +} + +div.body p.caption { + text-align: inherit; +} + +div.body td { + text-align: left; +} + +.first { + margin-top: 0 !important; +} + +p.rubric { + margin-top: 30px; + font-weight: bold; +} + +img.align-left, figure.align-left, .figure.align-left, object.align-left { + clear: left; + float: left; + margin-right: 1em; +} + +img.align-right, figure.align-right, .figure.align-right, object.align-right { + clear: right; + float: right; + margin-left: 1em; +} + +img.align-center, figure.align-center, .figure.align-center, object.align-center { + display: block; + margin-left: auto; + margin-right: auto; +} + +img.align-default, figure.align-default, .figure.align-default { + display: block; + margin-left: auto; + margin-right: auto; +} + +.align-left { + text-align: left; +} + +.align-center { + text-align: center; +} + +.align-default { + text-align: center; +} + +.align-right { + text-align: right; +} + +/* -- sidebars -------------------------------------------------------------- */ + +div.sidebar, +aside.sidebar { + margin: 0 0 0.5em 1em; + border: 1px solid #ddb; + padding: 7px; + background-color: #ffe; + width: 40%; + float: right; + clear: right; + overflow-x: auto; +} + +p.sidebar-title { + font-weight: bold; +} + +nav.contents, +aside.topic, +div.admonition, div.topic, blockquote { + clear: left; +} + +/* -- topics ---------------------------------------------------------------- */ + +nav.contents, +aside.topic, +div.topic { + border: 1px solid #ccc; + padding: 7px; + margin: 10px 0 10px 0; +} + +p.topic-title { + font-size: 1.1em; + font-weight: bold; + margin-top: 10px; +} + +/* -- admonitions ----------------------------------------------------------- */ + +div.admonition { + margin-top: 10px; + margin-bottom: 10px; + padding: 7px; +} + +div.admonition dt { + font-weight: bold; +} + +p.admonition-title { + margin: 0px 10px 5px 0px; + font-weight: bold; +} + +div.body p.centered { + text-align: center; + margin-top: 25px; +} + +/* -- content of sidebars/topics/admonitions -------------------------------- */ + +div.sidebar > :last-child, +aside.sidebar > :last-child, +nav.contents > :last-child, +aside.topic > :last-child, +div.topic > :last-child, +div.admonition > :last-child { + margin-bottom: 0; +} + +div.sidebar::after, +aside.sidebar::after, +nav.contents::after, +aside.topic::after, +div.topic::after, +div.admonition::after, +blockquote::after { + display: block; + content: ''; + clear: both; +} + +/* -- tables ---------------------------------------------------------------- */ + +table.docutils { + margin-top: 10px; + margin-bottom: 10px; + border: 0; + border-collapse: collapse; +} + +table.align-center { + margin-left: auto; + margin-right: auto; +} + +table.align-default { + margin-left: auto; + margin-right: auto; +} + +table caption span.caption-number { + font-style: italic; +} + +table caption span.caption-text { +} + +table.docutils td, table.docutils th { + padding: 1px 8px 1px 5px; + border-top: 0; + border-left: 0; + border-right: 0; + border-bottom: 1px solid #aaa; +} + +th { + text-align: left; + padding-right: 5px; +} + +table.citation { + border-left: solid 1px gray; + margin-left: 1px; +} + +table.citation td { + border-bottom: none; +} + +th > :first-child, +td > :first-child { + margin-top: 0px; +} + +th > :last-child, +td > :last-child { + margin-bottom: 0px; +} + +/* -- figures --------------------------------------------------------------- */ + +div.figure, figure { + margin: 0.5em; + padding: 0.5em; +} + +div.figure p.caption, figcaption { + padding: 0.3em; +} + +div.figure p.caption span.caption-number, +figcaption span.caption-number { + font-style: italic; +} + +div.figure p.caption span.caption-text, +figcaption span.caption-text { +} + +/* -- field list styles ----------------------------------------------------- */ + +table.field-list td, table.field-list th { + border: 0 !important; +} + +.field-list ul { + margin: 0; + padding-left: 1em; +} + +.field-list p { + margin: 0; +} + +.field-name { + -moz-hyphens: manual; + -ms-hyphens: manual; + -webkit-hyphens: manual; + hyphens: manual; +} + +/* -- hlist styles ---------------------------------------------------------- */ + +table.hlist { + margin: 1em 0; +} + +table.hlist td { + vertical-align: top; +} + +/* -- object description styles --------------------------------------------- */ + +.sig { + font-family: 'Consolas', 'Menlo', 'DejaVu Sans Mono', 'Bitstream Vera Sans Mono', monospace; +} + +.sig-name, code.descname { + background-color: transparent; + font-weight: bold; +} + +.sig-name { + font-size: 1.1em; +} + +code.descname { + font-size: 1.2em; +} + +.sig-prename, code.descclassname { + background-color: transparent; +} + +.optional { + font-size: 1.3em; +} + +.sig-paren { + font-size: larger; +} + +.sig-param.n { + font-style: italic; +} + +/* C++ specific styling */ + +.sig-inline.c-texpr, +.sig-inline.cpp-texpr { + font-family: unset; +} + +.sig.c .k, .sig.c .kt, +.sig.cpp .k, .sig.cpp .kt { + color: #0033B3; +} + +.sig.c .m, +.sig.cpp .m { + color: #1750EB; +} + +.sig.c .s, .sig.c .sc, +.sig.cpp .s, .sig.cpp .sc { + color: #067D17; +} + + +/* -- other body styles ----------------------------------------------------- */ + +ol.arabic { + list-style: decimal; +} + +ol.loweralpha { + list-style: lower-alpha; +} + +ol.upperalpha { + list-style: upper-alpha; +} + +ol.lowerroman { + list-style: lower-roman; +} + +ol.upperroman { + list-style: upper-roman; +} + +:not(li) > ol > li:first-child > :first-child, +:not(li) > ul > li:first-child > :first-child { + margin-top: 0px; +} + +:not(li) > ol > li:last-child > :last-child, +:not(li) > ul > li:last-child > :last-child { + margin-bottom: 0px; +} + +ol.simple ol p, +ol.simple ul p, +ul.simple ol p, +ul.simple ul p { + margin-top: 0; +} + +ol.simple > li:not(:first-child) > p, +ul.simple > li:not(:first-child) > p { + margin-top: 0; +} + +ol.simple p, +ul.simple p { + margin-bottom: 0; +} + +aside.footnote > span, +div.citation > span { + float: left; +} +aside.footnote > span:last-of-type, +div.citation > span:last-of-type { + padding-right: 0.5em; +} +aside.footnote > p { + margin-left: 2em; +} +div.citation > p { + margin-left: 4em; +} +aside.footnote > p:last-of-type, +div.citation > p:last-of-type { + margin-bottom: 0em; +} +aside.footnote > p:last-of-type:after, +div.citation > p:last-of-type:after { + content: ""; + clear: both; +} + +dl.field-list { + display: grid; + grid-template-columns: fit-content(30%) auto; +} + +dl.field-list > dt { + font-weight: bold; + word-break: break-word; + padding-left: 0.5em; + padding-right: 5px; +} + +dl.field-list > dd { + padding-left: 0.5em; + margin-top: 0em; + margin-left: 0em; + margin-bottom: 0em; +} + +dl { + margin-bottom: 15px; +} + +dd > :first-child { + margin-top: 0px; +} + +dd ul, dd table { + margin-bottom: 10px; +} + +dd { + margin-top: 3px; + margin-bottom: 10px; + margin-left: 30px; +} + +.sig dd { + margin-top: 0px; + margin-bottom: 0px; +} + +.sig dl { + margin-top: 0px; + margin-bottom: 0px; +} + +dl > dd:last-child, +dl > dd:last-child > :last-child { + margin-bottom: 0; +} + +dt:target, span.highlighted { + background-color: #fbe54e; +} + +rect.highlighted { + fill: #fbe54e; +} + +dl.glossary dt { + font-weight: bold; + font-size: 1.1em; +} + +.versionmodified { + font-style: italic; +} + +.system-message { + background-color: #fda; + padding: 5px; + border: 3px solid red; +} + +.footnote:target { + background-color: #ffa; +} + +.line-block { + display: block; + margin-top: 1em; + margin-bottom: 1em; +} + +.line-block .line-block { + margin-top: 0; + margin-bottom: 0; + margin-left: 1.5em; +} + +.guilabel, .menuselection { + font-family: sans-serif; +} + +.accelerator { + text-decoration: underline; +} + +.classifier { + font-style: oblique; +} + +.classifier:before { + font-style: normal; + margin: 0 0.5em; + content: ":"; + display: inline-block; +} + +abbr, acronym { + border-bottom: dotted 1px; + cursor: help; +} + +.translated { + background-color: rgba(207, 255, 207, 0.2) +} + +.untranslated { + background-color: rgba(255, 207, 207, 0.2) +} + +/* -- code displays --------------------------------------------------------- */ + +pre { + overflow: auto; + overflow-y: hidden; /* fixes display issues on Chrome browsers */ +} + +pre, div[class*="highlight-"] { + clear: both; +} + +span.pre { + -moz-hyphens: none; + -ms-hyphens: none; + -webkit-hyphens: none; + hyphens: none; + white-space: nowrap; +} + +div[class*="highlight-"] { + margin: 1em 0; +} + +td.linenos pre { + border: 0; + background-color: transparent; + color: #aaa; +} + +table.highlighttable { + display: block; +} + +table.highlighttable tbody { + display: block; +} + +table.highlighttable tr { + display: flex; +} + +table.highlighttable td { + margin: 0; + padding: 0; +} + +table.highlighttable td.linenos { + padding-right: 0.5em; +} + +table.highlighttable td.code { + flex: 1; + overflow: hidden; +} + +.highlight .hll { + display: block; +} + +div.highlight pre, +table.highlighttable pre { + margin: 0; +} + +div.code-block-caption + div { + margin-top: 0; +} + +div.code-block-caption { + margin-top: 1em; + padding: 2px 5px; + font-size: small; +} + +div.code-block-caption code { + background-color: transparent; +} + +table.highlighttable td.linenos, +span.linenos, +div.highlight span.gp { /* gp: Generic.Prompt */ + user-select: none; + -webkit-user-select: text; /* Safari fallback only */ + -webkit-user-select: none; /* Chrome/Safari */ + -moz-user-select: none; /* Firefox */ + -ms-user-select: none; /* IE10+ */ +} + +div.code-block-caption span.caption-number { + padding: 0.1em 0.3em; + font-style: italic; +} + +div.code-block-caption span.caption-text { +} + +div.literal-block-wrapper { + margin: 1em 0; +} + +code.xref, a code { + background-color: transparent; + font-weight: bold; +} + +h1 code, h2 code, h3 code, h4 code, h5 code, h6 code { + background-color: transparent; +} + +.viewcode-link { + float: right; +} + +.viewcode-back { + float: right; + font-family: sans-serif; +} + +div.viewcode-block:target { + margin: -1px -10px; + padding: 0 10px; +} + +/* -- math display ---------------------------------------------------------- */ + +img.math { + vertical-align: middle; +} + +div.body div.math p { + text-align: center; +} + +span.eqno { + float: right; +} + +span.eqno a.headerlink { + position: absolute; + z-index: 1; +} + +div.math:hover a.headerlink { + visibility: visible; +} + +/* -- printout stylesheet --------------------------------------------------- */ + +@media print { + div.document, + div.documentwrapper, + div.bodywrapper { + margin: 0 !important; + width: 100%; + } + + div.sphinxsidebar, + div.related, + div.footer, + #top-link { + display: none; + } +} \ No newline at end of file diff --git a/branch/main/singlehtml/_static/check-solid.svg b/branch/main/singlehtml/_static/check-solid.svg new file mode 100644 index 0000000..92fad4b --- /dev/null +++ b/branch/main/singlehtml/_static/check-solid.svg @@ -0,0 +1,4 @@ + + + + diff --git a/branch/main/singlehtml/_static/clipboard.min.js b/branch/main/singlehtml/_static/clipboard.min.js new file mode 100644 index 0000000..54b3c46 --- /dev/null +++ b/branch/main/singlehtml/_static/clipboard.min.js @@ -0,0 +1,7 @@ +/*! + * clipboard.js v2.0.8 + * https://clipboardjs.com/ + * + * Licensed MIT © Zeno Rocha + */ +!function(t,e){"object"==typeof exports&&"object"==typeof module?module.exports=e():"function"==typeof define&&define.amd?define([],e):"object"==typeof exports?exports.ClipboardJS=e():t.ClipboardJS=e()}(this,function(){return n={686:function(t,e,n){"use strict";n.d(e,{default:function(){return o}});var e=n(279),i=n.n(e),e=n(370),u=n.n(e),e=n(817),c=n.n(e);function a(t){try{return document.execCommand(t)}catch(t){return}}var f=function(t){t=c()(t);return a("cut"),t};var l=function(t){var e,n,o,r=1 + + + + diff --git a/branch/main/singlehtml/_static/copybutton.css b/branch/main/singlehtml/_static/copybutton.css new file mode 100644 index 0000000..40eafe5 --- /dev/null +++ b/branch/main/singlehtml/_static/copybutton.css @@ -0,0 +1,93 @@ +/* Copy buttons */ +button.copybtn { + position: absolute; + display: flex; + top: .3em; + right: .3em; + width: 1.7em; + height: 1.7em; + opacity: 0; + transition: opacity 0.3s, border .3s, background-color .3s; + user-select: none; + padding: 0; + border: none; + outline: none; + border-radius: 0.4em; + /* The colors that GitHub uses */ + border: #1b1f2426 1px solid; + background-color: #f6f8fa; + color: #57606a; +} + +button.copybtn.success { + border-color: #22863a; + color: #22863a; +} + +button.copybtn svg { + stroke: currentColor; + width: 1.5em; + height: 1.5em; + padding: 0.1em; +} + +div.highlight { + position: relative; +} + +.highlight:hover button.copybtn { + opacity: 1; +} + +.highlight button.copybtn:hover { + background-color: rgb(235, 235, 235); +} + +.highlight button.copybtn:active { + background-color: rgb(187, 187, 187); +} + +/** + * A minimal CSS-only tooltip copied from: + * https://codepen.io/mildrenben/pen/rVBrpK + * + * To use, write HTML like the following: + * + *

Short

+ */ + .o-tooltip--left { + position: relative; + } + + .o-tooltip--left:after { + opacity: 0; + visibility: hidden; + position: absolute; + content: attr(data-tooltip); + padding: .2em; + font-size: .8em; + left: -.2em; + background: grey; + color: white; + white-space: nowrap; + z-index: 2; + border-radius: 2px; + transform: translateX(-102%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); +} + +.o-tooltip--left:hover:after { + display: block; + opacity: 1; + visibility: visible; + transform: translateX(-100%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); + transition-delay: .5s; +} + +/* By default the copy button shouldn't show up when printing a page */ +@media print { + button.copybtn { + display: none; + } +} diff --git a/branch/main/singlehtml/_static/copybutton.js b/branch/main/singlehtml/_static/copybutton.js new file mode 100644 index 0000000..f3ecd03 --- /dev/null +++ b/branch/main/singlehtml/_static/copybutton.js @@ -0,0 +1,241 @@ +// Localization support +const messages = { + 'en': { + 'copy': 'Copy', + 'copy_to_clipboard': 'Copy to clipboard', + 'copy_success': 'Copied!', + 'copy_failure': 'Failed to copy', + }, + 'es' : { + 'copy': 'Copiar', + 'copy_to_clipboard': 'Copiar al portapapeles', + 'copy_success': '¡Copiado!', + 'copy_failure': 'Error al copiar', + }, + 'de' : { + 'copy': 'Kopieren', + 'copy_to_clipboard': 'In die Zwischenablage kopieren', + 'copy_success': 'Kopiert!', + 'copy_failure': 'Fehler beim Kopieren', + }, + 'fr' : { + 'copy': 'Copier', + 'copy_to_clipboard': 'Copié dans le presse-papier', + 'copy_success': 'Copié !', + 'copy_failure': 'Échec de la copie', + }, + 'ru': { + 'copy': 'Скопировать', + 'copy_to_clipboard': 'Скопировать в буфер', + 'copy_success': 'Скопировано!', + 'copy_failure': 'Не удалось скопировать', + }, + 'zh-CN': { + 'copy': '复制', + 'copy_to_clipboard': '复制到剪贴板', + 'copy_success': '复制成功!', + 'copy_failure': '复制失败', + }, + 'it' : { + 'copy': 'Copiare', + 'copy_to_clipboard': 'Copiato negli appunti', + 'copy_success': 'Copiato!', + 'copy_failure': 'Errore durante la copia', + } +} + +let locale = 'en' +if( document.documentElement.lang !== undefined + && messages[document.documentElement.lang] !== undefined ) { + locale = document.documentElement.lang +} + +let doc_url_root = DOCUMENTATION_OPTIONS.URL_ROOT; +if (doc_url_root == '#') { + doc_url_root = ''; +} + +/** + * SVG files for our copy buttons + */ +let iconCheck = ` + ${messages[locale]['copy_success']} + + +` + +// If the user specified their own SVG use that, otherwise use the default +let iconCopy = ``; +if (!iconCopy) { + iconCopy = ` + ${messages[locale]['copy_to_clipboard']} + + + +` +} + +/** + * Set up copy/paste for code blocks + */ + +const runWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} + +const codeCellId = index => `codecell${index}` + +// Clears selected text since ClipboardJS will select the text when copying +const clearSelection = () => { + if (window.getSelection) { + window.getSelection().removeAllRanges() + } else if (document.selection) { + document.selection.empty() + } +} + +// Changes tooltip text for two seconds, then changes it back +const temporarilyChangeTooltip = (el, oldText, newText) => { + el.setAttribute('data-tooltip', newText) + el.classList.add('success') + setTimeout(() => el.setAttribute('data-tooltip', oldText), 2000) + setTimeout(() => el.classList.remove('success'), 2000) +} + +// Changes the copy button icon for two seconds, then changes it back +const temporarilyChangeIcon = (el) => { + el.innerHTML = iconCheck; + setTimeout(() => {el.innerHTML = iconCopy}, 2000) +} + +const addCopyButtonToCodeCells = () => { + // If ClipboardJS hasn't loaded, wait a bit and try again. This + // happens because we load ClipboardJS asynchronously. + if (window.ClipboardJS === undefined) { + setTimeout(addCopyButtonToCodeCells, 250) + return + } + + // Add copybuttons to all of our code cells + const COPYBUTTON_SELECTOR = 'div.highlight pre'; + const codeCells = document.querySelectorAll(COPYBUTTON_SELECTOR) + codeCells.forEach((codeCell, index) => { + const id = codeCellId(index) + codeCell.setAttribute('id', id) + + const clipboardButton = id => + `` + codeCell.insertAdjacentHTML('afterend', clipboardButton(id)) + }) + +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + promptFound = regexp.test(line) + lineGotPrompt.push(promptFound) + if (removePrompts && promptFound) { + outputLines.push(match[2]) + } else { + outputLines.push(line) + } + gotLineCont = line.endsWith(lineContinuationChar) & useLineCont + if (line.includes(hereDocDelim) & useHereDoc) + gotHereDoc = !gotHereDoc + } else if (!onlyCopyPromptLines) { + outputLines.push(line) + } else if (copyEmptyLines && line.trim() === '') { + outputLines.push(line) + } + } + + // If no lines with the prompt were found then just use original lines + if (lineGotPrompt.some(v => v === true)) { + textContent = outputLines.join('\n'); + } + + // Remove a trailing newline to avoid auto-running when pasting + if (textContent.endsWith("\n")) { + textContent = textContent.slice(0, -1) + } + return textContent +} + + +var copyTargetText = (trigger) => { + var target = document.querySelector(trigger.attributes['data-clipboard-target'].value); + + // get filtered text + let exclude = '.linenos, .gp'; + + let text = filterText(target, exclude); + return formatCopyText(text, '', false, true, true, true, '', '') +} + + // Initialize with a callback so we can modify the text before copy + const clipboard = new ClipboardJS('.copybtn', {text: copyTargetText}) + + // Update UI with error/success messages + clipboard.on('success', event => { + clearSelection() + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_success']) + temporarilyChangeIcon(event.trigger) + }) + + clipboard.on('error', event => { + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_failure']) + }) +} + +runWhenDOMLoaded(addCopyButtonToCodeCells) \ No newline at end of file diff --git a/branch/main/singlehtml/_static/copybutton_funcs.js b/branch/main/singlehtml/_static/copybutton_funcs.js new file mode 100644 index 0000000..dbe1aaa --- /dev/null +++ b/branch/main/singlehtml/_static/copybutton_funcs.js @@ -0,0 +1,73 @@ +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +export function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +export function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + promptFound = regexp.test(line) + lineGotPrompt.push(promptFound) + if (removePrompts && promptFound) { + outputLines.push(match[2]) + } else { + outputLines.push(line) + } + gotLineCont = line.endsWith(lineContinuationChar) & useLineCont + if (line.includes(hereDocDelim) & useHereDoc) + gotHereDoc = !gotHereDoc + } else if (!onlyCopyPromptLines) { + outputLines.push(line) + } else if (copyEmptyLines && line.trim() === '') { + outputLines.push(line) + } + } + + // If no lines with the prompt were found then just use original lines + if (lineGotPrompt.some(v => v === true)) { + textContent = outputLines.join('\n'); + } + + // Remove a trailing newline to avoid auto-running when pasting + if (textContent.endsWith("\n")) { + textContent = textContent.slice(0, -1) + } + return textContent +} diff --git a/branch/main/singlehtml/_static/css/badge_only.css b/branch/main/singlehtml/_static/css/badge_only.css new file mode 100644 index 0000000..c718cee --- /dev/null +++ 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+ return this; // for chaining... + } +})(jQuery); + +// NO good way to do this!. Copy a hack from here +// https://stackoverflow.com/questions/901115/how-can-i-get-query-string-values-in-javascript +// https://stackoverflow.com/a/2880929 +var urlParams; +(window.onpopstate = function () { + var match, + pl = /\+/g, // Regex for replacing addition symbol with a space + search = /([^&=]+)=?([^&]*)/g, + decode = function (s) { return decodeURIComponent(s.replace(pl, " ")); }, + query = window.location.search.substring(1); + urlParams = {}; + while (match = search.exec(query)) + urlParams[decode(match[1])] = decode(match[2]); +})(); + +// Select heading levels +var maxHeading = urlParams['h'] +if (maxHeading === undefined) maxHeading = 2 +var headingLevels = []; +for (h=2 ; h (sections.length-1) ) { + // if we would scroll past bottom, or above top, do nothing + return; + } + + console.log('xxxxxx'); + var targetSection = sections[targetPos]; + console.log(targetSection, typeof(targetSection)); + + // Return targetSection top and height + var secProperties = section_top_and_height(targetSection); + var top = secProperties['top']; + var height = secProperties['height'] + var win_height = window.innerHeight; + //console.info(top, height, win_height) + + var scroll_to = 0; + if (height >= win_height || height == 0) { + scroll_to = top; + } else { + scroll_to = top - (win_height-height)/3.; + } + //console.info(top, height, win_height, scroll_to) + + $('html, body').animate({ + scrollTop: scroll_to //+ 'px' + }, 'fast'); + +} + + +function minipres() { + /* Enable the minipres mode: + - call the hide() function + - set up the scrolling listener + */ + document.addEventListener('keydown', function (event) { + switch(event.which) { + case 37: // left + switch_slide(-1); + event.preventDefault(); + return false; + break; + //case 38: // up + case 39: // right + switch_slide(+1); + event.preventDefault(); + return false; + break; + //case 40: // down + default: + return; // exit this handler for other keys + } + }, true) + + hide() + + // Increase space between sections + //$("div .section").css('margin-bottom', '50%'); 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+} + +/* Math align to the left */ +.cell_output .MathJax_Display { + text-align: left !important; +} + +/* Pandas tables. Pulled from the Jupyter / nbsphinx CSS */ +div.cell_output table { + border: none; + border-collapse: collapse; + border-spacing: 0; + color: black; + font-size: 1em; + table-layout: fixed; +} + +div.cell_output thead { + border-bottom: 1px solid black; + vertical-align: bottom; +} + +div.cell_output tr, +div.cell_output th, +div.cell_output td { + text-align: right; + vertical-align: middle; + padding: 0.5em 0.5em; + line-height: normal; + white-space: normal; + max-width: none; + border: none; +} + +div.cell_output th { + font-weight: bold; +} + +div.cell_output tbody tr:nth-child(odd) { + background: #f5f5f5; +} + +div.cell_output tbody tr:hover { + background: rgba(66, 165, 245, 0.2); +} + +/** source code line numbers **/ +span.linenos { + opacity: 0.5; +} + +/* Inline text from `paste` operation */ + +span.pasted-text { + font-weight: bold; +} + +span.pasted-inline img { + max-height: 2em; +} + +tbody span.pasted-inline img { + max-height: none; +} + +/* Font colors for 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background-color: #E75C58 +} + +div.highlight .-Color[class*=-BGGreen] { + background-color: #00A250 +} + +div.highlight .-Color[class*=-BGYellow] { + background-color: #DDB62B +} + +div.highlight .-Color[class*=-BGBlue] { + background-color: #208FFB +} + +div.highlight .-Color[class*=-BGMagenta] { + background-color: #D160C4 +} + +div.highlight .-Color[class*=-BGCyan] { + background-color: #60C6C8 +} + +div.highlight .-Color[class*=-BGWhite] { + background-color: #C5C1B4 +} + +/* Font colors for 8-bit ANSI */ + +div.highlight .-Color[class*=-C0] { + color: #000000 +} + +div.highlight .-Color[class*=-BGC0] { + background-color: #000000 +} + +div.highlight .-Color[class*=-C1] { + color: #800000 +} + +div.highlight .-Color[class*=-BGC1] { + background-color: #800000 +} + +div.highlight .-Color[class*=-C2] { + color: #008000 +} + +div.highlight .-Color[class*=-BGC2] { + background-color: #008000 +} + +div.highlight .-Color[class*=-C3] { + color: #808000 +} + +div.highlight .-Color[class*=-BGC3] { + background-color: #808000 +} + +div.highlight .-Color[class*=-C4] { + color: #000080 +} + +div.highlight .-Color[class*=-BGC4] { + background-color: #000080 +} + +div.highlight .-Color[class*=-C5] { + color: #800080 +} + +div.highlight .-Color[class*=-BGC5] { + background-color: #800080 +} + +div.highlight .-Color[class*=-C6] { + color: #008080 +} + +div.highlight .-Color[class*=-BGC6] { + background-color: #008080 +} + +div.highlight .-Color[class*=-C7] { + color: #C0C0C0 +} + +div.highlight .-Color[class*=-BGC7] { + background-color: #C0C0C0 +} + +div.highlight .-Color[class*=-C8] { + color: #808080 +} + +div.highlight .-Color[class*=-BGC8] { + background-color: #808080 +} + +div.highlight .-Color[class*=-C9] { + color: #FF0000 +} + +div.highlight .-Color[class*=-BGC9] { + background-color: #FF0000 +} + +div.highlight .-Color[class*=-C10] { + color: #00FF00 +} + +div.highlight .-Color[class*=-BGC10] { + background-color: #00FF00 +} + +div.highlight .-Color[class*=-C11] { + color: #FFFF00 +} + +div.highlight .-Color[class*=-BGC11] { + background-color: #FFFF00 +} + +div.highlight .-Color[class*=-C12] { + color: #0000FF +} + +div.highlight .-Color[class*=-BGC12] { + background-color: #0000FF +} + +div.highlight .-Color[class*=-C13] { + color: #FF00FF +} + +div.highlight .-Color[class*=-BGC13] { + background-color: #FF00FF +} + +div.highlight .-Color[class*=-C14] { + color: #00FFFF +} + +div.highlight .-Color[class*=-BGC14] { + background-color: #00FFFF +} + +div.highlight .-Color[class*=-C15] { + color: #FFFFFF +} + +div.highlight .-Color[class*=-BGC15] { + background-color: #FFFFFF +} + +div.highlight .-Color[class*=-C16] { + color: #000000 +} + +div.highlight .-Color[class*=-BGC16] { + background-color: #000000 +} + +div.highlight .-Color[class*=-C17] { + color: #00005F +} + +div.highlight .-Color[class*=-BGC17] { + background-color: #00005F +} + +div.highlight .-Color[class*=-C18] { + color: #000087 +} + +div.highlight .-Color[class*=-BGC18] { + background-color: #000087 +} + +div.highlight .-Color[class*=-C19] { + color: #0000AF +} + +div.highlight .-Color[class*=-BGC19] { + background-color: #0000AF +} + +div.highlight .-Color[class*=-C20] { + color: #0000D7 +} + +div.highlight .-Color[class*=-BGC20] { + background-color: #0000D7 +} + +div.highlight .-Color[class*=-C21] { + color: #0000FF +} + +div.highlight .-Color[class*=-BGC21] { + background-color: #0000FF +} + +div.highlight .-Color[class*=-C22] { + color: #005F00 +} + +div.highlight .-Color[class*=-BGC22] { + background-color: #005F00 +} + +div.highlight .-Color[class*=-C23] { + color: #005F5F +} + +div.highlight .-Color[class*=-BGC23] { + background-color: #005F5F +} + +div.highlight .-Color[class*=-C24] { + color: #005F87 +} + +div.highlight .-Color[class*=-BGC24] { + background-color: #005F87 +} + +div.highlight .-Color[class*=-C25] { + color: #005FAF +} + +div.highlight .-Color[class*=-BGC25] { + background-color: #005FAF +} + +div.highlight .-Color[class*=-C26] { + color: #005FD7 +} + +div.highlight .-Color[class*=-BGC26] { + background-color: #005FD7 +} + +div.highlight .-Color[class*=-C27] { + color: #005FFF +} + +div.highlight .-Color[class*=-BGC27] { + background-color: #005FFF +} + +div.highlight .-Color[class*=-C28] { + color: #008700 +} + +div.highlight .-Color[class*=-BGC28] { + background-color: #008700 +} + +div.highlight .-Color[class*=-C29] { + color: #00875F +} + +div.highlight .-Color[class*=-BGC29] { + background-color: #00875F +} + +div.highlight .-Color[class*=-C30] { + color: #008787 +} + +div.highlight .-Color[class*=-BGC30] { + background-color: #008787 +} + +div.highlight .-Color[class*=-C31] { + color: #0087AF +} + +div.highlight .-Color[class*=-BGC31] { + background-color: #0087AF +} + +div.highlight .-Color[class*=-C32] { + color: #0087D7 +} + +div.highlight .-Color[class*=-BGC32] { + background-color: #0087D7 +} + +div.highlight .-Color[class*=-C33] { + color: #0087FF +} + +div.highlight .-Color[class*=-BGC33] { + background-color: #0087FF +} + +div.highlight .-Color[class*=-C34] { + color: #00AF00 +} + +div.highlight .-Color[class*=-BGC34] { + background-color: #00AF00 +} + +div.highlight .-Color[class*=-C35] { + color: #00AF5F +} + +div.highlight .-Color[class*=-BGC35] { + background-color: #00AF5F +} + +div.highlight .-Color[class*=-C36] { + color: #00AF87 +} + +div.highlight .-Color[class*=-BGC36] { + background-color: #00AF87 +} + +div.highlight .-Color[class*=-C37] { + color: #00AFAF +} + +div.highlight .-Color[class*=-BGC37] { + background-color: #00AFAF +} + +div.highlight .-Color[class*=-C38] { + color: #00AFD7 +} + +div.highlight .-Color[class*=-BGC38] { + background-color: #00AFD7 +} + +div.highlight .-Color[class*=-C39] { + color: #00AFFF +} + +div.highlight .-Color[class*=-BGC39] { + background-color: #00AFFF +} + +div.highlight .-Color[class*=-C40] { + color: #00D700 +} + +div.highlight .-Color[class*=-BGC40] { + background-color: #00D700 +} + +div.highlight .-Color[class*=-C41] { + color: #00D75F +} + +div.highlight .-Color[class*=-BGC41] { + background-color: #00D75F +} + +div.highlight .-Color[class*=-C42] { + color: #00D787 +} + +div.highlight .-Color[class*=-BGC42] { + background-color: #00D787 +} + +div.highlight .-Color[class*=-C43] { + color: #00D7AF +} + +div.highlight .-Color[class*=-BGC43] { + background-color: #00D7AF +} + +div.highlight .-Color[class*=-C44] { + color: #00D7D7 +} + +div.highlight .-Color[class*=-BGC44] { + background-color: #00D7D7 +} + +div.highlight .-Color[class*=-C45] { + color: #00D7FF +} + +div.highlight .-Color[class*=-BGC45] { + background-color: #00D7FF +} + +div.highlight .-Color[class*=-C46] { + color: #00FF00 +} + +div.highlight .-Color[class*=-BGC46] { + background-color: #00FF00 +} + +div.highlight .-Color[class*=-C47] { + color: #00FF5F +} + +div.highlight .-Color[class*=-BGC47] { + background-color: #00FF5F +} + +div.highlight .-Color[class*=-C48] { + color: #00FF87 +} + +div.highlight .-Color[class*=-BGC48] { + background-color: #00FF87 +} + +div.highlight .-Color[class*=-C49] { + color: #00FFAF +} + +div.highlight .-Color[class*=-BGC49] { + background-color: #00FFAF +} + +div.highlight .-Color[class*=-C50] { + color: #00FFD7 +} + +div.highlight .-Color[class*=-BGC50] { + background-color: #00FFD7 +} + +div.highlight .-Color[class*=-C51] { + color: #00FFFF +} + +div.highlight .-Color[class*=-BGC51] { + background-color: #00FFFF +} + +div.highlight .-Color[class*=-C52] { + color: #5F0000 +} + +div.highlight .-Color[class*=-BGC52] { + background-color: #5F0000 +} + +div.highlight .-Color[class*=-C53] { + color: #5F005F +} + +div.highlight .-Color[class*=-BGC53] { + background-color: #5F005F +} + +div.highlight .-Color[class*=-C54] { + color: #5F0087 +} + +div.highlight .-Color[class*=-BGC54] { + background-color: #5F0087 +} + +div.highlight .-Color[class*=-C55] { + color: #5F00AF +} + +div.highlight .-Color[class*=-BGC55] { + background-color: #5F00AF +} + +div.highlight .-Color[class*=-C56] { + color: #5F00D7 +} + +div.highlight .-Color[class*=-BGC56] { + background-color: #5F00D7 +} + +div.highlight .-Color[class*=-C57] { + color: #5F00FF +} + +div.highlight .-Color[class*=-BGC57] { + background-color: #5F00FF +} + +div.highlight .-Color[class*=-C58] { + color: #5F5F00 +} + +div.highlight .-Color[class*=-BGC58] { + background-color: #5F5F00 +} + +div.highlight .-Color[class*=-C59] { + color: #5F5F5F +} + +div.highlight .-Color[class*=-BGC59] { + background-color: #5F5F5F +} + +div.highlight .-Color[class*=-C60] { + color: #5F5F87 +} + +div.highlight .-Color[class*=-BGC60] { + background-color: #5F5F87 +} + +div.highlight .-Color[class*=-C61] { + color: #5F5FAF +} + +div.highlight .-Color[class*=-BGC61] { + background-color: #5F5FAF +} + +div.highlight .-Color[class*=-C62] { + color: #5F5FD7 +} + +div.highlight .-Color[class*=-BGC62] { + background-color: #5F5FD7 +} + +div.highlight .-Color[class*=-C63] { + color: #5F5FFF +} + +div.highlight .-Color[class*=-BGC63] { + background-color: #5F5FFF +} + +div.highlight .-Color[class*=-C64] { + color: #5F8700 +} + +div.highlight .-Color[class*=-BGC64] { + background-color: #5F8700 +} + +div.highlight .-Color[class*=-C65] { + color: #5F875F +} + +div.highlight .-Color[class*=-BGC65] { + background-color: #5F875F +} + +div.highlight .-Color[class*=-C66] { + color: #5F8787 +} + +div.highlight .-Color[class*=-BGC66] { + background-color: #5F8787 +} + +div.highlight .-Color[class*=-C67] { + color: #5F87AF +} + +div.highlight .-Color[class*=-BGC67] { + background-color: #5F87AF +} + +div.highlight .-Color[class*=-C68] { + color: #5F87D7 +} + +div.highlight .-Color[class*=-BGC68] { + background-color: #5F87D7 +} + +div.highlight .-Color[class*=-C69] { + color: #5F87FF +} + +div.highlight .-Color[class*=-BGC69] { + background-color: #5F87FF +} + +div.highlight .-Color[class*=-C70] { + color: #5FAF00 +} + +div.highlight .-Color[class*=-BGC70] { + background-color: #5FAF00 +} + +div.highlight .-Color[class*=-C71] { + color: #5FAF5F +} + +div.highlight .-Color[class*=-BGC71] { + background-color: #5FAF5F +} + +div.highlight .-Color[class*=-C72] { + color: #5FAF87 +} + +div.highlight .-Color[class*=-BGC72] { + background-color: #5FAF87 +} + +div.highlight .-Color[class*=-C73] { + color: #5FAFAF +} + +div.highlight .-Color[class*=-BGC73] { + background-color: #5FAFAF +} + +div.highlight .-Color[class*=-C74] { + color: #5FAFD7 +} + +div.highlight .-Color[class*=-BGC74] { + background-color: #5FAFD7 +} + +div.highlight .-Color[class*=-C75] { + color: #5FAFFF +} + +div.highlight .-Color[class*=-BGC75] { + background-color: #5FAFFF +} + +div.highlight .-Color[class*=-C76] { + color: #5FD700 +} + +div.highlight .-Color[class*=-BGC76] { + background-color: #5FD700 +} + +div.highlight .-Color[class*=-C77] { + color: #5FD75F +} + +div.highlight .-Color[class*=-BGC77] { + background-color: #5FD75F +} + +div.highlight .-Color[class*=-C78] { + color: #5FD787 +} + +div.highlight .-Color[class*=-BGC78] { + background-color: #5FD787 +} + +div.highlight .-Color[class*=-C79] { + color: #5FD7AF +} + +div.highlight .-Color[class*=-BGC79] { + background-color: #5FD7AF +} + +div.highlight .-Color[class*=-C80] { + color: #5FD7D7 +} + +div.highlight .-Color[class*=-BGC80] { + background-color: #5FD7D7 +} + +div.highlight .-Color[class*=-C81] { + color: #5FD7FF +} + +div.highlight .-Color[class*=-BGC81] { + background-color: #5FD7FF +} + +div.highlight .-Color[class*=-C82] { + color: #5FFF00 +} + +div.highlight .-Color[class*=-BGC82] { + background-color: #5FFF00 +} + +div.highlight .-Color[class*=-C83] { + color: #5FFF5F +} + +div.highlight .-Color[class*=-BGC83] { + background-color: #5FFF5F +} + +div.highlight .-Color[class*=-C84] { + color: #5FFF87 +} + +div.highlight .-Color[class*=-BGC84] { + background-color: #5FFF87 +} + +div.highlight .-Color[class*=-C85] { + color: #5FFFAF +} + +div.highlight .-Color[class*=-BGC85] { + background-color: #5FFFAF +} + +div.highlight .-Color[class*=-C86] { + color: #5FFFD7 +} + +div.highlight .-Color[class*=-BGC86] { + background-color: #5FFFD7 +} + +div.highlight .-Color[class*=-C87] { + color: #5FFFFF +} + +div.highlight .-Color[class*=-BGC87] { + background-color: #5FFFFF +} + +div.highlight .-Color[class*=-C88] { + color: #870000 +} + +div.highlight .-Color[class*=-BGC88] { + background-color: #870000 +} + +div.highlight .-Color[class*=-C89] { + color: #87005F +} + +div.highlight .-Color[class*=-BGC89] { + background-color: #87005F +} + +div.highlight .-Color[class*=-C90] { + color: #870087 +} + +div.highlight .-Color[class*=-BGC90] { + background-color: #870087 +} + +div.highlight .-Color[class*=-C91] { + color: #8700AF +} + +div.highlight .-Color[class*=-BGC91] { + background-color: #8700AF +} + +div.highlight .-Color[class*=-C92] { + color: #8700D7 +} + +div.highlight .-Color[class*=-BGC92] { + background-color: #8700D7 +} + +div.highlight .-Color[class*=-C93] { + color: #8700FF +} + +div.highlight .-Color[class*=-BGC93] { + background-color: #8700FF +} + +div.highlight .-Color[class*=-C94] { + color: #875F00 +} + +div.highlight .-Color[class*=-BGC94] { + background-color: #875F00 +} + +div.highlight .-Color[class*=-C95] { + color: #875F5F +} + +div.highlight .-Color[class*=-BGC95] { + background-color: #875F5F +} + +div.highlight .-Color[class*=-C96] { + color: #875F87 +} + +div.highlight .-Color[class*=-BGC96] { + background-color: #875F87 +} + +div.highlight .-Color[class*=-C97] { + color: #875FAF +} + +div.highlight .-Color[class*=-BGC97] { + background-color: #875FAF +} + +div.highlight .-Color[class*=-C98] { + color: #875FD7 +} + +div.highlight .-Color[class*=-BGC98] { + background-color: #875FD7 +} + +div.highlight .-Color[class*=-C99] { + color: #875FFF +} + +div.highlight .-Color[class*=-BGC99] { + background-color: #875FFF +} + +div.highlight .-Color[class*=-C100] { + color: #878700 +} + +div.highlight .-Color[class*=-BGC100] { + background-color: #878700 +} + +div.highlight .-Color[class*=-C101] { + color: #87875F +} + +div.highlight .-Color[class*=-BGC101] { + background-color: #87875F +} + +div.highlight .-Color[class*=-C102] { + color: #878787 +} + +div.highlight .-Color[class*=-BGC102] { + background-color: #878787 +} + +div.highlight .-Color[class*=-C103] { + color: #8787AF +} + +div.highlight .-Color[class*=-BGC103] { + background-color: #8787AF +} + +div.highlight .-Color[class*=-C104] { + color: #8787D7 +} + +div.highlight .-Color[class*=-BGC104] { + background-color: #8787D7 +} + +div.highlight .-Color[class*=-C105] { + color: #8787FF +} + +div.highlight .-Color[class*=-BGC105] { + background-color: #8787FF +} + +div.highlight .-Color[class*=-C106] { + color: #87AF00 +} + +div.highlight .-Color[class*=-BGC106] { + background-color: #87AF00 +} + +div.highlight .-Color[class*=-C107] { + color: #87AF5F +} + +div.highlight .-Color[class*=-BGC107] { + background-color: #87AF5F +} + +div.highlight .-Color[class*=-C108] { + color: #87AF87 +} + +div.highlight .-Color[class*=-BGC108] { + background-color: #87AF87 +} + +div.highlight .-Color[class*=-C109] { + color: #87AFAF +} + +div.highlight .-Color[class*=-BGC109] { + background-color: #87AFAF +} + +div.highlight .-Color[class*=-C110] { + color: #87AFD7 +} + +div.highlight .-Color[class*=-BGC110] { + background-color: #87AFD7 +} + +div.highlight .-Color[class*=-C111] { + color: #87AFFF +} + +div.highlight .-Color[class*=-BGC111] { + background-color: #87AFFF +} + +div.highlight .-Color[class*=-C112] { + color: #87D700 +} + +div.highlight .-Color[class*=-BGC112] { + background-color: #87D700 +} + +div.highlight .-Color[class*=-C113] { + color: #87D75F +} + +div.highlight .-Color[class*=-BGC113] { + background-color: #87D75F +} + +div.highlight .-Color[class*=-C114] { + color: #87D787 +} + +div.highlight .-Color[class*=-BGC114] { + background-color: #87D787 +} + +div.highlight .-Color[class*=-C115] { + color: #87D7AF +} + +div.highlight .-Color[class*=-BGC115] { + background-color: #87D7AF +} + +div.highlight .-Color[class*=-C116] { + color: #87D7D7 +} + +div.highlight .-Color[class*=-BGC116] { + background-color: #87D7D7 +} + +div.highlight .-Color[class*=-C117] { + color: #87D7FF +} + +div.highlight .-Color[class*=-BGC117] { + background-color: #87D7FF +} + +div.highlight .-Color[class*=-C118] { + color: #87FF00 +} + +div.highlight .-Color[class*=-BGC118] { + background-color: #87FF00 +} + +div.highlight .-Color[class*=-C119] { + color: #87FF5F +} + +div.highlight .-Color[class*=-BGC119] { + background-color: #87FF5F +} + +div.highlight .-Color[class*=-C120] { + color: #87FF87 +} + +div.highlight .-Color[class*=-BGC120] { + background-color: #87FF87 +} + +div.highlight .-Color[class*=-C121] { + color: #87FFAF +} + +div.highlight .-Color[class*=-BGC121] { + background-color: #87FFAF +} + +div.highlight .-Color[class*=-C122] { + color: #87FFD7 +} + +div.highlight .-Color[class*=-BGC122] { + background-color: #87FFD7 +} + +div.highlight .-Color[class*=-C123] { + color: #87FFFF +} + +div.highlight .-Color[class*=-BGC123] { + background-color: #87FFFF +} + +div.highlight .-Color[class*=-C124] { + color: #AF0000 +} + +div.highlight .-Color[class*=-BGC124] { + background-color: #AF0000 +} + +div.highlight .-Color[class*=-C125] { + color: #AF005F +} + +div.highlight .-Color[class*=-BGC125] { + background-color: #AF005F +} + +div.highlight .-Color[class*=-C126] { + color: #AF0087 +} + +div.highlight .-Color[class*=-BGC126] { + background-color: #AF0087 +} + +div.highlight .-Color[class*=-C127] { + color: #AF00AF +} + +div.highlight .-Color[class*=-BGC127] { + background-color: #AF00AF +} + +div.highlight .-Color[class*=-C128] { + color: #AF00D7 +} + +div.highlight .-Color[class*=-BGC128] { + background-color: #AF00D7 +} + +div.highlight .-Color[class*=-C129] { + color: #AF00FF +} + +div.highlight .-Color[class*=-BGC129] { + background-color: #AF00FF +} + +div.highlight .-Color[class*=-C130] { + color: #AF5F00 +} + +div.highlight .-Color[class*=-BGC130] { + background-color: #AF5F00 +} + +div.highlight .-Color[class*=-C131] { + color: #AF5F5F +} + +div.highlight .-Color[class*=-BGC131] { + background-color: #AF5F5F +} + +div.highlight .-Color[class*=-C132] { + color: #AF5F87 +} + +div.highlight .-Color[class*=-BGC132] { + background-color: #AF5F87 +} + +div.highlight .-Color[class*=-C133] { + color: #AF5FAF +} + +div.highlight .-Color[class*=-BGC133] { + background-color: #AF5FAF +} + +div.highlight .-Color[class*=-C134] { + color: #AF5FD7 +} + +div.highlight .-Color[class*=-BGC134] { + background-color: #AF5FD7 +} + +div.highlight .-Color[class*=-C135] { + color: #AF5FFF +} + +div.highlight .-Color[class*=-BGC135] { + background-color: #AF5FFF +} + +div.highlight .-Color[class*=-C136] { + color: #AF8700 +} + +div.highlight .-Color[class*=-BGC136] { + background-color: #AF8700 +} + +div.highlight .-Color[class*=-C137] { + color: #AF875F +} + +div.highlight .-Color[class*=-BGC137] { + background-color: #AF875F +} + +div.highlight .-Color[class*=-C138] { + color: #AF8787 +} + +div.highlight .-Color[class*=-BGC138] { + background-color: #AF8787 +} + +div.highlight .-Color[class*=-C139] { + color: #AF87AF +} + +div.highlight .-Color[class*=-BGC139] { + background-color: #AF87AF +} + +div.highlight .-Color[class*=-C140] { + color: #AF87D7 +} + +div.highlight .-Color[class*=-BGC140] { + background-color: #AF87D7 +} + +div.highlight .-Color[class*=-C141] { + color: #AF87FF +} + +div.highlight .-Color[class*=-BGC141] { + background-color: #AF87FF +} + +div.highlight .-Color[class*=-C142] { + color: #AFAF00 +} + +div.highlight .-Color[class*=-BGC142] { + background-color: #AFAF00 +} + +div.highlight .-Color[class*=-C143] { + color: #AFAF5F +} + +div.highlight .-Color[class*=-BGC143] { + background-color: #AFAF5F +} + +div.highlight .-Color[class*=-C144] { + color: #AFAF87 +} + +div.highlight .-Color[class*=-BGC144] { + background-color: #AFAF87 +} + +div.highlight .-Color[class*=-C145] { + color: #AFAFAF +} + +div.highlight .-Color[class*=-BGC145] { + background-color: #AFAFAF +} + +div.highlight .-Color[class*=-C146] { + color: #AFAFD7 +} + +div.highlight .-Color[class*=-BGC146] { + background-color: #AFAFD7 +} + +div.highlight .-Color[class*=-C147] { + color: #AFAFFF +} + +div.highlight .-Color[class*=-BGC147] { + background-color: #AFAFFF +} + +div.highlight .-Color[class*=-C148] { + color: #AFD700 +} + +div.highlight .-Color[class*=-BGC148] { + background-color: #AFD700 +} + +div.highlight .-Color[class*=-C149] { + color: #AFD75F +} + +div.highlight .-Color[class*=-BGC149] { + background-color: #AFD75F +} + +div.highlight .-Color[class*=-C150] { + color: #AFD787 +} + +div.highlight .-Color[class*=-BGC150] { + background-color: #AFD787 +} + +div.highlight .-Color[class*=-C151] { + color: #AFD7AF +} + +div.highlight .-Color[class*=-BGC151] { + background-color: #AFD7AF +} + +div.highlight .-Color[class*=-C152] { + color: #AFD7D7 +} + +div.highlight .-Color[class*=-BGC152] { + background-color: #AFD7D7 +} + +div.highlight .-Color[class*=-C153] { + color: #AFD7FF +} + +div.highlight .-Color[class*=-BGC153] { + background-color: #AFD7FF +} + +div.highlight .-Color[class*=-C154] { + color: #AFFF00 +} + +div.highlight .-Color[class*=-BGC154] { + background-color: #AFFF00 +} + +div.highlight .-Color[class*=-C155] { + color: #AFFF5F +} + +div.highlight .-Color[class*=-BGC155] { + background-color: #AFFF5F +} + +div.highlight .-Color[class*=-C156] { + color: #AFFF87 +} + +div.highlight .-Color[class*=-BGC156] { + background-color: #AFFF87 +} + +div.highlight .-Color[class*=-C157] { + color: #AFFFAF +} + +div.highlight .-Color[class*=-BGC157] { + background-color: #AFFFAF +} + +div.highlight .-Color[class*=-C158] { + color: #AFFFD7 +} + +div.highlight .-Color[class*=-BGC158] { + background-color: #AFFFD7 +} + +div.highlight .-Color[class*=-C159] { + color: #AFFFFF +} + +div.highlight .-Color[class*=-BGC159] { + background-color: #AFFFFF +} + +div.highlight .-Color[class*=-C160] { + color: #D70000 +} + +div.highlight .-Color[class*=-BGC160] { + background-color: #D70000 +} + +div.highlight .-Color[class*=-C161] { + color: #D7005F +} + +div.highlight .-Color[class*=-BGC161] { + background-color: #D7005F +} + +div.highlight .-Color[class*=-C162] { + color: #D70087 +} + +div.highlight .-Color[class*=-BGC162] { + background-color: #D70087 +} + +div.highlight .-Color[class*=-C163] { + color: #D700AF +} + +div.highlight .-Color[class*=-BGC163] { + background-color: #D700AF +} + +div.highlight .-Color[class*=-C164] { + color: #D700D7 +} + +div.highlight .-Color[class*=-BGC164] { + background-color: #D700D7 +} + +div.highlight .-Color[class*=-C165] { + color: #D700FF +} + +div.highlight .-Color[class*=-BGC165] { + background-color: #D700FF +} + +div.highlight .-Color[class*=-C166] { + color: #D75F00 +} + +div.highlight .-Color[class*=-BGC166] { + background-color: #D75F00 +} + +div.highlight .-Color[class*=-C167] { + color: #D75F5F +} + +div.highlight .-Color[class*=-BGC167] { + background-color: #D75F5F +} + +div.highlight .-Color[class*=-C168] { + color: #D75F87 +} + +div.highlight .-Color[class*=-BGC168] { + background-color: #D75F87 +} + +div.highlight .-Color[class*=-C169] { + color: #D75FAF +} + +div.highlight .-Color[class*=-BGC169] { + background-color: #D75FAF +} + +div.highlight .-Color[class*=-C170] { + color: #D75FD7 +} + +div.highlight .-Color[class*=-BGC170] { + background-color: #D75FD7 +} + +div.highlight .-Color[class*=-C171] { + color: #D75FFF +} + +div.highlight .-Color[class*=-BGC171] { + background-color: #D75FFF +} + +div.highlight .-Color[class*=-C172] { + color: #D78700 +} + +div.highlight .-Color[class*=-BGC172] { + background-color: #D78700 +} + +div.highlight .-Color[class*=-C173] { + color: #D7875F +} + +div.highlight .-Color[class*=-BGC173] { + background-color: #D7875F +} + +div.highlight .-Color[class*=-C174] { + color: #D78787 +} + +div.highlight .-Color[class*=-BGC174] { + background-color: #D78787 +} + +div.highlight .-Color[class*=-C175] { + color: #D787AF +} + +div.highlight .-Color[class*=-BGC175] { + background-color: #D787AF +} + +div.highlight .-Color[class*=-C176] { + color: #D787D7 +} + +div.highlight .-Color[class*=-BGC176] { + background-color: #D787D7 +} + +div.highlight .-Color[class*=-C177] { + color: #D787FF +} + +div.highlight .-Color[class*=-BGC177] { + background-color: #D787FF +} + +div.highlight .-Color[class*=-C178] { + color: #D7AF00 +} + +div.highlight .-Color[class*=-BGC178] { + background-color: #D7AF00 +} + +div.highlight .-Color[class*=-C179] { + color: #D7AF5F +} + +div.highlight .-Color[class*=-BGC179] { + background-color: #D7AF5F +} + +div.highlight .-Color[class*=-C180] { + color: #D7AF87 +} + +div.highlight .-Color[class*=-BGC180] { + background-color: #D7AF87 +} + +div.highlight .-Color[class*=-C181] { + color: #D7AFAF +} + +div.highlight .-Color[class*=-BGC181] { + background-color: #D7AFAF +} + +div.highlight .-Color[class*=-C182] { + color: #D7AFD7 +} + +div.highlight .-Color[class*=-BGC182] { + background-color: #D7AFD7 +} + +div.highlight .-Color[class*=-C183] { + color: #D7AFFF +} + +div.highlight .-Color[class*=-BGC183] { + background-color: #D7AFFF +} + +div.highlight .-Color[class*=-C184] { + color: #D7D700 +} + +div.highlight .-Color[class*=-BGC184] { + background-color: #D7D700 +} + +div.highlight .-Color[class*=-C185] { + color: #D7D75F +} + +div.highlight .-Color[class*=-BGC185] { + background-color: #D7D75F +} + +div.highlight .-Color[class*=-C186] { + color: #D7D787 +} + +div.highlight .-Color[class*=-BGC186] { + background-color: #D7D787 +} + +div.highlight .-Color[class*=-C187] { + color: #D7D7AF +} + +div.highlight .-Color[class*=-BGC187] { + background-color: #D7D7AF +} + +div.highlight .-Color[class*=-C188] { + color: #D7D7D7 +} + +div.highlight .-Color[class*=-BGC188] { + background-color: #D7D7D7 +} + +div.highlight .-Color[class*=-C189] { + color: #D7D7FF +} + +div.highlight .-Color[class*=-BGC189] { + background-color: #D7D7FF +} + +div.highlight .-Color[class*=-C190] { + color: #D7FF00 +} + +div.highlight .-Color[class*=-BGC190] { + background-color: #D7FF00 +} + +div.highlight .-Color[class*=-C191] { + color: #D7FF5F +} + +div.highlight .-Color[class*=-BGC191] { + background-color: #D7FF5F +} + +div.highlight .-Color[class*=-C192] { + color: #D7FF87 +} + +div.highlight .-Color[class*=-BGC192] { + background-color: #D7FF87 +} + +div.highlight .-Color[class*=-C193] { + color: #D7FFAF +} + +div.highlight .-Color[class*=-BGC193] { + background-color: #D7FFAF +} + +div.highlight .-Color[class*=-C194] { + color: #D7FFD7 +} + +div.highlight .-Color[class*=-BGC194] { + background-color: #D7FFD7 +} + +div.highlight .-Color[class*=-C195] { + color: #D7FFFF +} + +div.highlight .-Color[class*=-BGC195] { + background-color: #D7FFFF +} + +div.highlight .-Color[class*=-C196] { + color: #FF0000 +} + +div.highlight .-Color[class*=-BGC196] { + background-color: #FF0000 +} + +div.highlight .-Color[class*=-C197] { + color: #FF005F +} + +div.highlight .-Color[class*=-BGC197] { + background-color: #FF005F +} + +div.highlight .-Color[class*=-C198] { + color: #FF0087 +} + +div.highlight .-Color[class*=-BGC198] { + background-color: #FF0087 +} + +div.highlight .-Color[class*=-C199] { + color: #FF00AF +} + +div.highlight .-Color[class*=-BGC199] { + background-color: #FF00AF +} + +div.highlight .-Color[class*=-C200] { + color: #FF00D7 +} + +div.highlight .-Color[class*=-BGC200] { + background-color: #FF00D7 +} + +div.highlight .-Color[class*=-C201] { + color: #FF00FF +} + +div.highlight .-Color[class*=-BGC201] { + background-color: #FF00FF +} + +div.highlight .-Color[class*=-C202] { + color: #FF5F00 +} + +div.highlight .-Color[class*=-BGC202] { + background-color: #FF5F00 +} + +div.highlight .-Color[class*=-C203] { + color: #FF5F5F +} + +div.highlight .-Color[class*=-BGC203] { + background-color: #FF5F5F +} + +div.highlight .-Color[class*=-C204] { + color: #FF5F87 +} + +div.highlight .-Color[class*=-BGC204] { + background-color: #FF5F87 +} + +div.highlight .-Color[class*=-C205] { + color: #FF5FAF +} + +div.highlight .-Color[class*=-BGC205] { + background-color: #FF5FAF +} + +div.highlight .-Color[class*=-C206] { + color: #FF5FD7 +} + +div.highlight .-Color[class*=-BGC206] { + background-color: #FF5FD7 +} + +div.highlight .-Color[class*=-C207] { + color: #FF5FFF +} + +div.highlight .-Color[class*=-BGC207] { + background-color: #FF5FFF +} + +div.highlight .-Color[class*=-C208] { + color: #FF8700 +} + +div.highlight .-Color[class*=-BGC208] { + background-color: #FF8700 +} + +div.highlight .-Color[class*=-C209] { + color: #FF875F +} + +div.highlight .-Color[class*=-BGC209] { + background-color: #FF875F +} + +div.highlight .-Color[class*=-C210] { + color: #FF8787 +} + +div.highlight .-Color[class*=-BGC210] { + background-color: #FF8787 +} + +div.highlight .-Color[class*=-C211] { + color: #FF87AF +} + +div.highlight .-Color[class*=-BGC211] { + background-color: #FF87AF +} + +div.highlight .-Color[class*=-C212] { + color: #FF87D7 +} + +div.highlight .-Color[class*=-BGC212] { + background-color: #FF87D7 +} + +div.highlight .-Color[class*=-C213] { + color: #FF87FF +} + +div.highlight .-Color[class*=-BGC213] { + background-color: #FF87FF +} + +div.highlight .-Color[class*=-C214] { + color: #FFAF00 +} + +div.highlight .-Color[class*=-BGC214] { + background-color: #FFAF00 +} + +div.highlight .-Color[class*=-C215] { + color: #FFAF5F +} + +div.highlight .-Color[class*=-BGC215] { + background-color: #FFAF5F +} + +div.highlight .-Color[class*=-C216] { + color: #FFAF87 +} + +div.highlight .-Color[class*=-BGC216] { + background-color: #FFAF87 +} + +div.highlight .-Color[class*=-C217] { + color: #FFAFAF +} + +div.highlight .-Color[class*=-BGC217] { + background-color: #FFAFAF +} + +div.highlight .-Color[class*=-C218] { + color: #FFAFD7 +} + +div.highlight .-Color[class*=-BGC218] { + background-color: #FFAFD7 +} + +div.highlight .-Color[class*=-C219] { + color: #FFAFFF +} + +div.highlight .-Color[class*=-BGC219] { + background-color: #FFAFFF +} + +div.highlight .-Color[class*=-C220] { + color: #FFD700 +} + +div.highlight .-Color[class*=-BGC220] { + background-color: #FFD700 +} + +div.highlight .-Color[class*=-C221] { + color: #FFD75F +} + +div.highlight .-Color[class*=-BGC221] { + background-color: #FFD75F +} + +div.highlight .-Color[class*=-C222] { + color: #FFD787 +} + +div.highlight .-Color[class*=-BGC222] { + background-color: #FFD787 +} + +div.highlight .-Color[class*=-C223] { + color: #FFD7AF +} + +div.highlight .-Color[class*=-BGC223] { + background-color: #FFD7AF +} + +div.highlight .-Color[class*=-C224] { + color: #FFD7D7 +} + +div.highlight .-Color[class*=-BGC224] { + background-color: #FFD7D7 +} + +div.highlight .-Color[class*=-C225] { + color: #FFD7FF +} + +div.highlight .-Color[class*=-BGC225] { + background-color: #FFD7FF +} + +div.highlight .-Color[class*=-C226] { + color: #FFFF00 +} + +div.highlight .-Color[class*=-BGC226] { + background-color: #FFFF00 +} + +div.highlight .-Color[class*=-C227] { + color: #FFFF5F +} + +div.highlight .-Color[class*=-BGC227] { + background-color: #FFFF5F +} + +div.highlight .-Color[class*=-C228] { + color: #FFFF87 +} + +div.highlight .-Color[class*=-BGC228] { + background-color: #FFFF87 +} + +div.highlight .-Color[class*=-C229] { + color: #FFFFAF +} + +div.highlight .-Color[class*=-BGC229] { + background-color: #FFFFAF +} + +div.highlight .-Color[class*=-C230] { + color: #FFFFD7 +} + +div.highlight .-Color[class*=-BGC230] { + background-color: #FFFFD7 +} + +div.highlight .-Color[class*=-C231] { + color: #FFFFFF +} + +div.highlight .-Color[class*=-BGC231] { + background-color: #FFFFFF +} + +div.highlight .-Color[class*=-C232] { + color: #080808 +} + +div.highlight .-Color[class*=-BGC232] { + background-color: #080808 +} + +div.highlight .-Color[class*=-C233] { + color: #121212 +} + +div.highlight .-Color[class*=-BGC233] { + background-color: #121212 +} + +div.highlight .-Color[class*=-C234] { + color: #1C1C1C +} + +div.highlight .-Color[class*=-BGC234] { + background-color: #1C1C1C +} + +div.highlight .-Color[class*=-C235] { + color: #262626 +} + +div.highlight .-Color[class*=-BGC235] { + background-color: #262626 +} + +div.highlight .-Color[class*=-C236] { + color: #303030 +} + +div.highlight .-Color[class*=-BGC236] { + background-color: #303030 +} + +div.highlight .-Color[class*=-C237] { + color: #3A3A3A +} + +div.highlight .-Color[class*=-BGC237] { + background-color: #3A3A3A +} + +div.highlight .-Color[class*=-C238] { + color: #444444 +} + +div.highlight .-Color[class*=-BGC238] { + background-color: #444444 +} + +div.highlight .-Color[class*=-C239] { + color: #4E4E4E +} + +div.highlight .-Color[class*=-BGC239] { + background-color: #4E4E4E +} + +div.highlight .-Color[class*=-C240] { + color: #585858 +} + +div.highlight .-Color[class*=-BGC240] { + background-color: #585858 +} + +div.highlight .-Color[class*=-C241] { + color: #626262 +} + +div.highlight .-Color[class*=-BGC241] { + background-color: #626262 +} + +div.highlight .-Color[class*=-C242] { + color: #6C6C6C +} + +div.highlight .-Color[class*=-BGC242] { + background-color: #6C6C6C +} + +div.highlight .-Color[class*=-C243] { + color: #767676 +} + +div.highlight .-Color[class*=-BGC243] { + background-color: #767676 +} + +div.highlight .-Color[class*=-C244] { + color: #808080 +} + +div.highlight .-Color[class*=-BGC244] { + background-color: #808080 +} + +div.highlight .-Color[class*=-C245] { + color: #8A8A8A +} + +div.highlight .-Color[class*=-BGC245] { + background-color: #8A8A8A +} + +div.highlight .-Color[class*=-C246] { + color: #949494 +} + +div.highlight .-Color[class*=-BGC246] { + background-color: #949494 +} + +div.highlight .-Color[class*=-C247] { + color: #9E9E9E +} + +div.highlight .-Color[class*=-BGC247] { + background-color: #9E9E9E +} + +div.highlight .-Color[class*=-C248] { + color: #A8A8A8 +} + +div.highlight .-Color[class*=-BGC248] { + background-color: #A8A8A8 +} + +div.highlight .-Color[class*=-C249] { + color: #B2B2B2 +} + +div.highlight .-Color[class*=-BGC249] { + background-color: #B2B2B2 +} + +div.highlight .-Color[class*=-C250] { + color: #BCBCBC +} + +div.highlight .-Color[class*=-BGC250] { + background-color: #BCBCBC +} + +div.highlight .-Color[class*=-C251] { + color: #C6C6C6 +} + +div.highlight .-Color[class*=-BGC251] { + background-color: #C6C6C6 +} + +div.highlight .-Color[class*=-C252] { + color: #D0D0D0 +} + +div.highlight .-Color[class*=-BGC252] { + background-color: #D0D0D0 +} + +div.highlight .-Color[class*=-C253] { + color: #DADADA +} + +div.highlight .-Color[class*=-BGC253] { + background-color: #DADADA +} + +div.highlight .-Color[class*=-C254] { + color: #E4E4E4 +} + +div.highlight .-Color[class*=-BGC254] { + background-color: #E4E4E4 +} + +div.highlight .-Color[class*=-C255] { + color: #EEEEEE +} + +div.highlight .-Color[class*=-BGC255] { + background-color: #EEEEEE +} diff --git a/branch/main/singlehtml/_static/plus.png b/branch/main/singlehtml/_static/plus.png new file mode 100644 index 0000000..7107cec Binary files /dev/null and b/branch/main/singlehtml/_static/plus.png differ diff --git a/branch/main/singlehtml/_static/pygments.css b/branch/main/singlehtml/_static/pygments.css new file mode 100644 index 0000000..84ab303 --- /dev/null +++ b/branch/main/singlehtml/_static/pygments.css @@ -0,0 +1,75 @@ +pre { line-height: 125%; } +td.linenos .normal { color: inherit; background-color: transparent; padding-left: 5px; padding-right: 5px; } +span.linenos { color: inherit; background-color: transparent; padding-left: 5px; padding-right: 5px; } +td.linenos .special { color: #000000; background-color: #ffffc0; padding-left: 5px; padding-right: 5px; } +span.linenos.special { color: #000000; background-color: #ffffc0; padding-left: 5px; padding-right: 5px; } +.highlight .hll { background-color: #ffffcc } +.highlight { background: #f8f8f8; } +.highlight .c { color: #3D7B7B; font-style: italic } /* Comment */ +.highlight .err { border: 1px solid #FF0000 } /* Error */ +.highlight .k { color: #008000; font-weight: bold } /* Keyword */ +.highlight .o { color: #666666 } /* Operator */ +.highlight .ch { color: #3D7B7B; font-style: italic } /* Comment.Hashbang */ +.highlight .cm { color: #3D7B7B; font-style: italic } /* Comment.Multiline */ +.highlight .cp { color: #9C6500 } /* Comment.Preproc */ +.highlight .cpf { color: #3D7B7B; font-style: italic } /* Comment.PreprocFile */ +.highlight .c1 { color: #3D7B7B; font-style: italic } /* Comment.Single */ +.highlight .cs { color: #3D7B7B; font-style: italic } /* Comment.Special */ +.highlight .gd { color: #A00000 } /* Generic.Deleted */ +.highlight .ge { font-style: italic } /* Generic.Emph */ +.highlight .ges { font-weight: bold; font-style: italic } /* Generic.EmphStrong */ 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+.highlight .s1 { color: #BA2121 } /* Literal.String.Single */ +.highlight .ss { color: #19177C } /* Literal.String.Symbol */ +.highlight .bp { color: #008000 } /* Name.Builtin.Pseudo */ +.highlight .fm { color: #0000FF } /* Name.Function.Magic */ +.highlight .vc { color: #19177C } /* Name.Variable.Class */ +.highlight .vg { color: #19177C } /* Name.Variable.Global */ +.highlight .vi { color: #19177C } /* Name.Variable.Instance */ +.highlight .vm { color: #19177C } /* Name.Variable.Magic */ +.highlight .il { color: #666666 } /* Literal.Number.Integer.Long */ \ No newline at end of file diff --git a/branch/main/singlehtml/_static/searchtools.js b/branch/main/singlehtml/_static/searchtools.js new file mode 100644 index 0000000..b08d58c --- /dev/null +++ b/branch/main/singlehtml/_static/searchtools.js @@ -0,0 +1,620 @@ +/* + * searchtools.js + * ~~~~~~~~~~~~~~~~ + * + * Sphinx JavaScript utilities for the full-text search. + * + * :copyright: Copyright 2007-2024 by the Sphinx team, see AUTHORS. + * :license: BSD, see LICENSE for details. + * + */ +"use strict"; + +/** + * Simple result scoring code. + */ +if (typeof Scorer === "undefined") { + var Scorer = { + // Implement the following function to further tweak the score for each result + // The function takes a result array [docname, title, anchor, descr, score, filename] + // and returns the new score. + /* + score: result => { + const [docname, title, anchor, descr, score, filename] = result + return score + }, + */ + + // query matches the full name of an object + objNameMatch: 11, + // or matches in the last dotted part of the object name + objPartialMatch: 6, + // Additive scores depending on the priority of the object + objPrio: { + 0: 15, // used to be importantResults + 1: 5, // used to be objectResults + 2: -5, // used to be unimportantResults + }, + // Used when the priority is not in the mapping. + objPrioDefault: 0, + + // query found in title + title: 15, + partialTitle: 7, + // query found in terms + term: 5, + partialTerm: 2, + }; +} + +const _removeChildren = (element) => { + while (element && element.lastChild) element.removeChild(element.lastChild); +}; + +/** + * See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Guide/Regular_Expressions#escaping + */ +const _escapeRegExp = (string) => + string.replace(/[.*+\-?^${}()|[\]\\]/g, "\\$&"); // $& means the whole matched string + +const _displayItem = (item, searchTerms, highlightTerms) => { + const docBuilder = DOCUMENTATION_OPTIONS.BUILDER; + const docFileSuffix = DOCUMENTATION_OPTIONS.FILE_SUFFIX; + const docLinkSuffix = DOCUMENTATION_OPTIONS.LINK_SUFFIX; + const showSearchSummary = DOCUMENTATION_OPTIONS.SHOW_SEARCH_SUMMARY; + const contentRoot = document.documentElement.dataset.content_root; + + const [docName, title, anchor, descr, score, _filename] = item; + + let listItem = document.createElement("li"); + let requestUrl; + let linkUrl; + if (docBuilder === "dirhtml") { + // dirhtml builder + let dirname = docName + "/"; + if (dirname.match(/\/index\/$/)) + dirname = dirname.substring(0, dirname.length - 6); + else if (dirname === "index/") dirname = ""; + requestUrl = contentRoot + dirname; + linkUrl = requestUrl; + } else { + // normal html builders + requestUrl = contentRoot + docName + docFileSuffix; + linkUrl = docName + docLinkSuffix; + } + let linkEl = listItem.appendChild(document.createElement("a")); + linkEl.href = linkUrl + anchor; + linkEl.dataset.score = score; + linkEl.innerHTML = title; + if (descr) { + listItem.appendChild(document.createElement("span")).innerHTML = + " (" + descr + ")"; + // highlight search terms in the description + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + } + else if (showSearchSummary) + fetch(requestUrl) + .then((responseData) => responseData.text()) + .then((data) => { + if (data) + listItem.appendChild( + Search.makeSearchSummary(data, searchTerms, anchor) + ); + // highlight search terms in the summary + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + }); + Search.output.appendChild(listItem); +}; +const _finishSearch = (resultCount) => { + Search.stopPulse(); + Search.title.innerText = _("Search Results"); + if (!resultCount) + Search.status.innerText = Documentation.gettext( + "Your search did not match any documents. Please make sure that all words are spelled correctly and that you've selected enough categories." + ); + else + Search.status.innerText = _( + "Search finished, found ${resultCount} page(s) matching the search query." + ).replace('${resultCount}', resultCount); +}; +const _displayNextItem = ( + results, + resultCount, + searchTerms, + highlightTerms, +) => { + // results left, load the summary and display it + // this is intended to be dynamic (don't sub resultsCount) + if (results.length) { + _displayItem(results.pop(), searchTerms, highlightTerms); + setTimeout( + () => _displayNextItem(results, resultCount, searchTerms, highlightTerms), + 5 + ); + } + // search finished, update title and status message + else _finishSearch(resultCount); +}; +// Helper function used by query() to order search results. +// Each input is an array of [docname, title, anchor, descr, score, filename]. +// Order the results by score (in opposite order of appearance, since the +// `_displayNextItem` function uses pop() to retrieve items) and then alphabetically. +const _orderResultsByScoreThenName = (a, b) => { + const leftScore = a[4]; + const rightScore = b[4]; + if (leftScore === rightScore) { + // same score: sort alphabetically + const leftTitle = a[1].toLowerCase(); + const rightTitle = b[1].toLowerCase(); + if (leftTitle === rightTitle) return 0; + return leftTitle > rightTitle ? -1 : 1; // inverted is intentional + } + return leftScore > rightScore ? 1 : -1; +}; + +/** + * Default splitQuery function. Can be overridden in ``sphinx.search`` with a + * custom function per language. + * + * The regular expression works by splitting the string on consecutive characters + * that are not Unicode letters, numbers, underscores, or emoji characters. + * This is the same as ``\W+`` in Python, preserving the surrogate pair area. + */ +if (typeof splitQuery === "undefined") { + var splitQuery = (query) => query + .split(/[^\p{Letter}\p{Number}_\p{Emoji_Presentation}]+/gu) + .filter(term => term) // remove remaining empty strings +} + +/** + * Search Module + */ +const Search = { + _index: null, + _queued_query: null, + _pulse_status: -1, + + htmlToText: (htmlString, anchor) => { + const htmlElement = new DOMParser().parseFromString(htmlString, 'text/html'); + for (const removalQuery of [".headerlink", "script", "style"]) { + htmlElement.querySelectorAll(removalQuery).forEach((el) => { el.remove() }); + } + if (anchor) { + const anchorContent = htmlElement.querySelector(`[role="main"] ${anchor}`); + if (anchorContent) return anchorContent.textContent; + + console.warn( + `Anchored content block not found. Sphinx search tries to obtain it via DOM query '[role=main] ${anchor}'. Check your theme or template.` + ); + } + + // if anchor not specified or not found, fall back to main content + const docContent = htmlElement.querySelector('[role="main"]'); + if (docContent) return docContent.textContent; + + console.warn( + "Content block not found. Sphinx search tries to obtain it via DOM query '[role=main]'. Check your theme or template." + ); + return ""; + }, + + init: () => { + const query = new URLSearchParams(window.location.search).get("q"); + document + .querySelectorAll('input[name="q"]') + .forEach((el) => (el.value = query)); + if (query) Search.performSearch(query); + }, + + loadIndex: (url) => + (document.body.appendChild(document.createElement("script")).src = url), + + setIndex: (index) => { + Search._index = index; + if (Search._queued_query !== null) { + const query = Search._queued_query; + Search._queued_query = null; + Search.query(query); + } + }, + + hasIndex: () => Search._index !== null, + + deferQuery: (query) => (Search._queued_query = query), + + stopPulse: () => (Search._pulse_status = -1), + + startPulse: () => { + if (Search._pulse_status >= 0) return; + + const pulse = () => { + Search._pulse_status = (Search._pulse_status + 1) % 4; + Search.dots.innerText = ".".repeat(Search._pulse_status); + if (Search._pulse_status >= 0) window.setTimeout(pulse, 500); + }; + pulse(); + }, + + /** + * perform a search for something (or wait until index is loaded) + */ + performSearch: (query) => { + // create the required interface elements + const searchText = document.createElement("h2"); + searchText.textContent = _("Searching"); + const searchSummary = document.createElement("p"); + searchSummary.classList.add("search-summary"); + searchSummary.innerText = ""; + const searchList = document.createElement("ul"); + searchList.classList.add("search"); + + const out = document.getElementById("search-results"); + Search.title = out.appendChild(searchText); + Search.dots = Search.title.appendChild(document.createElement("span")); + Search.status = out.appendChild(searchSummary); + Search.output = out.appendChild(searchList); + + const searchProgress = document.getElementById("search-progress"); + // Some themes don't use the search progress node + if (searchProgress) { + searchProgress.innerText = _("Preparing search..."); + } + Search.startPulse(); + + // index already loaded, the browser was quick! + if (Search.hasIndex()) Search.query(query); + else Search.deferQuery(query); + }, + + _parseQuery: (query) => { + // stem the search terms and add them to the correct list + const stemmer = new Stemmer(); + const searchTerms = new Set(); + const excludedTerms = new Set(); + const highlightTerms = new Set(); + const objectTerms = new Set(splitQuery(query.toLowerCase().trim())); + splitQuery(query.trim()).forEach((queryTerm) => { + const queryTermLower = queryTerm.toLowerCase(); + + // maybe skip this "word" + // stopwords array is from language_data.js + if ( + stopwords.indexOf(queryTermLower) !== -1 || + queryTerm.match(/^\d+$/) + ) + return; + + // stem the word + let word = stemmer.stemWord(queryTermLower); + // select the correct list + if (word[0] === "-") excludedTerms.add(word.substr(1)); + else { + searchTerms.add(word); + highlightTerms.add(queryTermLower); + } + }); + + if (SPHINX_HIGHLIGHT_ENABLED) { // set in sphinx_highlight.js + localStorage.setItem("sphinx_highlight_terms", [...highlightTerms].join(" ")) + } + + // console.debug("SEARCH: searching for:"); + // console.info("required: ", [...searchTerms]); + // console.info("excluded: ", [...excludedTerms]); + + return [query, searchTerms, excludedTerms, highlightTerms, objectTerms]; + }, + + /** + * execute search (requires search index to be loaded) + */ + _performSearch: (query, searchTerms, excludedTerms, highlightTerms, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + const allTitles = Search._index.alltitles; + const indexEntries = Search._index.indexentries; + + // Collect multiple result groups to be sorted separately and then ordered. + // Each is an array of [docname, title, anchor, descr, score, filename]. + const normalResults = []; + const nonMainIndexResults = []; + + _removeChildren(document.getElementById("search-progress")); + + const queryLower = query.toLowerCase().trim(); + for (const [title, foundTitles] of Object.entries(allTitles)) { + if (title.toLowerCase().trim().includes(queryLower) && (queryLower.length >= title.length/2)) { + for (const [file, id] of foundTitles) { + const score = Math.round(Scorer.title * queryLower.length / title.length); + const boost = titles[file] === title ? 1 : 0; // add a boost for document titles + normalResults.push([ + docNames[file], + titles[file] !== title ? `${titles[file]} > ${title}` : title, + id !== null ? "#" + id : "", + null, + score + boost, + filenames[file], + ]); + } + } + } + + // search for explicit entries in index directives + for (const [entry, foundEntries] of Object.entries(indexEntries)) { + if (entry.includes(queryLower) && (queryLower.length >= entry.length/2)) { + for (const [file, id, isMain] of foundEntries) { + const score = Math.round(100 * queryLower.length / entry.length); + const result = [ + docNames[file], + titles[file], + id ? "#" + id : "", + null, + score, + filenames[file], + ]; + if (isMain) { + normalResults.push(result); + } else { + nonMainIndexResults.push(result); + } + } + } + } + + // lookup as object + objectTerms.forEach((term) => + normalResults.push(...Search.performObjectSearch(term, objectTerms)) + ); + + // lookup as search terms in fulltext + normalResults.push(...Search.performTermsSearch(searchTerms, excludedTerms)); + + // let the scorer override scores with a custom scoring function + if (Scorer.score) { + normalResults.forEach((item) => (item[4] = Scorer.score(item))); + nonMainIndexResults.forEach((item) => (item[4] = Scorer.score(item))); + } + + // Sort each group of results by score and then alphabetically by name. + normalResults.sort(_orderResultsByScoreThenName); + nonMainIndexResults.sort(_orderResultsByScoreThenName); + + // Combine the result groups in (reverse) order. + // Non-main index entries are typically arbitrary cross-references, + // so display them after other results. + let results = [...nonMainIndexResults, ...normalResults]; + + // remove duplicate search results + // note the reversing of results, so that in the case of duplicates, the highest-scoring entry is kept + let seen = new Set(); + results = results.reverse().reduce((acc, result) => { + let resultStr = result.slice(0, 4).concat([result[5]]).map(v => String(v)).join(','); + if (!seen.has(resultStr)) { + acc.push(result); + seen.add(resultStr); + } + return acc; + }, []); + + return results.reverse(); + }, + + query: (query) => { + const [searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms] = Search._parseQuery(query); + const results = Search._performSearch(searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms); + + // for debugging + //Search.lastresults = results.slice(); // a copy + // console.info("search results:", Search.lastresults); + + // print the results + _displayNextItem(results, results.length, searchTerms, highlightTerms); + }, + + /** + * search for object names + */ + performObjectSearch: (object, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const objects = Search._index.objects; + const objNames = Search._index.objnames; + const titles = Search._index.titles; + + const results = []; + + const objectSearchCallback = (prefix, match) => { + const name = match[4] + const fullname = (prefix ? prefix + "." : "") + name; + const fullnameLower = fullname.toLowerCase(); + if (fullnameLower.indexOf(object) < 0) return; + + let score = 0; + const parts = fullnameLower.split("."); + + // check for different match types: exact matches of full name or + // "last name" (i.e. last dotted part) + if (fullnameLower === object || parts.slice(-1)[0] === object) + score += Scorer.objNameMatch; + else if (parts.slice(-1)[0].indexOf(object) > -1) + score += Scorer.objPartialMatch; // matches in last name + + const objName = objNames[match[1]][2]; + const title = titles[match[0]]; + + // If more than one term searched for, we require other words to be + // found in the name/title/description + const otherTerms = new Set(objectTerms); + otherTerms.delete(object); + if (otherTerms.size > 0) { + const haystack = `${prefix} ${name} ${objName} ${title}`.toLowerCase(); + if ( + [...otherTerms].some((otherTerm) => haystack.indexOf(otherTerm) < 0) + ) + return; + } + + let anchor = match[3]; + if (anchor === "") anchor = fullname; + else if (anchor === "-") anchor = objNames[match[1]][1] + "-" + fullname; + + const descr = objName + _(", in ") + title; + + // add custom score for some objects according to scorer + if (Scorer.objPrio.hasOwnProperty(match[2])) + score += Scorer.objPrio[match[2]]; + else score += Scorer.objPrioDefault; + + results.push([ + docNames[match[0]], + fullname, + "#" + anchor, + descr, + score, + filenames[match[0]], + ]); + }; + Object.keys(objects).forEach((prefix) => + objects[prefix].forEach((array) => + objectSearchCallback(prefix, array) + ) + ); + return results; + }, + + /** + * search for full-text terms in the index + */ + performTermsSearch: (searchTerms, excludedTerms) => { + // prepare search + const terms = Search._index.terms; + const titleTerms = Search._index.titleterms; + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + + const scoreMap = new Map(); + const fileMap = new Map(); + + // perform the search on the required terms + searchTerms.forEach((word) => { + const files = []; + const arr = [ + { files: terms[word], score: Scorer.term }, + { files: titleTerms[word], score: Scorer.title }, + ]; + // add support for partial matches + if (word.length > 2) { + const escapedWord = _escapeRegExp(word); + if (!terms.hasOwnProperty(word)) { + Object.keys(terms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: terms[term], score: Scorer.partialTerm }); + }); + } + if (!titleTerms.hasOwnProperty(word)) { + Object.keys(titleTerms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: titleTerms[term], score: Scorer.partialTitle }); + }); + } + } + + // no match but word was a required one + if (arr.every((record) => record.files === undefined)) return; + + // found search word in contents + arr.forEach((record) => { + if (record.files === undefined) return; + + let recordFiles = record.files; + if (recordFiles.length === undefined) recordFiles = [recordFiles]; + files.push(...recordFiles); + + // set score for the word in each file + recordFiles.forEach((file) => { + if (!scoreMap.has(file)) scoreMap.set(file, {}); + scoreMap.get(file)[word] = record.score; + }); + }); + + // create the mapping + files.forEach((file) => { + if (!fileMap.has(file)) fileMap.set(file, [word]); + else if (fileMap.get(file).indexOf(word) === -1) fileMap.get(file).push(word); + }); + }); + + // now check if the files don't contain excluded terms + const results = []; + for (const [file, wordList] of fileMap) { + // check if all requirements are matched + + // as search terms with length < 3 are discarded + const filteredTermCount = [...searchTerms].filter( + (term) => term.length > 2 + ).length; + if ( + wordList.length !== searchTerms.size && + wordList.length !== filteredTermCount + ) + continue; + + // ensure that none of the excluded terms is in the search result + if ( + [...excludedTerms].some( + (term) => + terms[term] === file || + titleTerms[term] === file || + (terms[term] || []).includes(file) || + (titleTerms[term] || []).includes(file) + ) + ) + break; + + // select one (max) score for the file. + const score = Math.max(...wordList.map((w) => scoreMap.get(file)[w])); + // add result to the result list + results.push([ + docNames[file], + titles[file], + "", + null, + score, + filenames[file], + ]); + } + return results; + }, + + /** + * helper function to return a node containing the + * search summary for a given text. keywords is a list + * of stemmed words. + */ + makeSearchSummary: (htmlText, keywords, anchor) => { + const text = Search.htmlToText(htmlText, anchor); + if (text === "") return null; + + const textLower = text.toLowerCase(); + const actualStartPosition = [...keywords] + .map((k) => textLower.indexOf(k.toLowerCase())) + .filter((i) => i > -1) + .slice(-1)[0]; + const startWithContext = Math.max(actualStartPosition - 120, 0); + + const top = startWithContext === 0 ? "" : "..."; + const tail = startWithContext + 240 < text.length ? "..." : ""; + + let summary = document.createElement("p"); + summary.classList.add("context"); + summary.textContent = top + text.substr(startWithContext, 240).trim() + tail; + + return summary; + }, +}; + +_ready(Search.init); diff --git a/branch/main/singlehtml/_static/sphinx_highlight.js b/branch/main/singlehtml/_static/sphinx_highlight.js new file mode 100644 index 0000000..8a96c69 --- /dev/null +++ b/branch/main/singlehtml/_static/sphinx_highlight.js @@ -0,0 +1,154 @@ +/* Highlighting utilities for Sphinx HTML documentation. */ +"use strict"; + +const SPHINX_HIGHLIGHT_ENABLED = true + +/** + * highlight a given string on a node by wrapping it in + * span elements with the given class name. + */ +const _highlight = (node, addItems, text, className) => { + if (node.nodeType === Node.TEXT_NODE) { + const val = node.nodeValue; + const parent = node.parentNode; + const pos = val.toLowerCase().indexOf(text); + if ( + pos >= 0 && + !parent.classList.contains(className) && + !parent.classList.contains("nohighlight") + ) { + let span; + + const closestNode = parent.closest("body, svg, foreignObject"); + const isInSVG = closestNode && closestNode.matches("svg"); + if (isInSVG) { + span = document.createElementNS("http://www.w3.org/2000/svg", "tspan"); + } else { + span = document.createElement("span"); + span.classList.add(className); + } + + span.appendChild(document.createTextNode(val.substr(pos, text.length))); + const rest = document.createTextNode(val.substr(pos + text.length)); + parent.insertBefore( + span, + parent.insertBefore( + rest, + node.nextSibling + ) + ); + node.nodeValue = val.substr(0, pos); + /* There may be more occurrences of search term in this node. So call this + * function recursively on the remaining fragment. + */ + _highlight(rest, addItems, text, className); + + if (isInSVG) { + const rect = document.createElementNS( + "http://www.w3.org/2000/svg", + "rect" + ); + const bbox = parent.getBBox(); + rect.x.baseVal.value = bbox.x; + rect.y.baseVal.value = bbox.y; + rect.width.baseVal.value = bbox.width; + rect.height.baseVal.value = bbox.height; + rect.setAttribute("class", className); + addItems.push({ parent: parent, target: rect }); + } + } + } else if (node.matches && !node.matches("button, select, textarea")) { + node.childNodes.forEach((el) => _highlight(el, addItems, text, className)); + } +}; +const _highlightText = (thisNode, text, className) => { + let addItems = []; + _highlight(thisNode, addItems, text, className); + addItems.forEach((obj) => + obj.parent.insertAdjacentElement("beforebegin", obj.target) + ); +}; + +/** + * Small JavaScript module for the documentation. + */ +const SphinxHighlight = { + + /** + * highlight the search words provided in localstorage in the text + */ + highlightSearchWords: () => { + if (!SPHINX_HIGHLIGHT_ENABLED) return; // bail if no highlight + + // get and clear terms from localstorage + const url = new URL(window.location); + const highlight = + localStorage.getItem("sphinx_highlight_terms") + || url.searchParams.get("highlight") + || ""; + localStorage.removeItem("sphinx_highlight_terms") + url.searchParams.delete("highlight"); + window.history.replaceState({}, "", url); + + // get individual terms from highlight string + const terms = highlight.toLowerCase().split(/\s+/).filter(x => x); + if (terms.length === 0) return; // nothing to do + + // There should never be more than one element matching "div.body" + const divBody = document.querySelectorAll("div.body"); + const body = divBody.length ? divBody[0] : document.querySelector("body"); + window.setTimeout(() => { + terms.forEach((term) => _highlightText(body, term, "highlighted")); + }, 10); + + const searchBox = document.getElementById("searchbox"); + if (searchBox === null) return; + searchBox.appendChild( + document + .createRange() + .createContextualFragment( + '

' + + '' + + _("Hide Search Matches") + + "

" + ) + ); + }, + + /** + * helper function to hide the search marks again + */ + hideSearchWords: () => { + document + .querySelectorAll("#searchbox .highlight-link") + .forEach((el) => el.remove()); + document + .querySelectorAll("span.highlighted") + .forEach((el) => el.classList.remove("highlighted")); + localStorage.removeItem("sphinx_highlight_terms") + }, + + initEscapeListener: () => { + // only install a listener if it is really needed + if (!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS) return; + + document.addEventListener("keydown", (event) => { + // bail for input elements + if (BLACKLISTED_KEY_CONTROL_ELEMENTS.has(document.activeElement.tagName)) return; + // bail with special keys + if (event.shiftKey || event.altKey || event.ctrlKey || event.metaKey) return; + if (DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS && (event.key === "Escape")) { + SphinxHighlight.hideSearchWords(); + event.preventDefault(); + } + }); + }, +}; + +_ready(() => { + /* Do not call highlightSearchWords() when we are on the search page. + * It will highlight words from the *previous* search query. + */ + if (typeof Search === "undefined") SphinxHighlight.highlightSearchWords(); + SphinxHighlight.initEscapeListener(); +}); diff --git a/branch/main/singlehtml/_static/sphinx_lesson.css b/branch/main/singlehtml/_static/sphinx_lesson.css new file mode 100644 index 0000000..14b20c6 --- /dev/null +++ b/branch/main/singlehtml/_static/sphinx_lesson.css @@ -0,0 +1,51 @@ +/* sphinx_lesson.css */ + +body.wy-body-for-nav img.with-border { + border: 2px solid; +} + +.rst-content .admonition-no-content { + padding-bottom: 0px; +} + +.rst-content .demo > .admonition-title::before { + content: "\01F440"; /* Eyes */ } +.rst-content .type-along > .admonition-title::before { + content: "\02328\0FE0F"; /* Keyboard */ } +.rst-content .exercise > .admonition-title::before { + content: "\0270D\0FE0F"; /* Hand */ } +.rst-content .solution > .admonition-title::before { + content: "\02714\0FE0E"; /* Check mark */ } +.rst-content .homework > .admonition-title::before { + content: "\01F4DD"; /* Memo */ } +.rst-content .discussion > .admonition-title::before { + content: "\01F4AC"; /* Speech balloon */ } +.rst-content .questions > .admonition-title::before { + content: "\02753\0FE0E"; /* Question mark */ } +.rst-content .prerequisites > .admonition-title::before { + content: "\02699"; /* Gear */ } +.rst-content .seealso > .admonition-title::before { + content: "\027A1\0FE0E"; /* Question mark */ } + + +/* instructor-note */ +.rst-content .instructor-note { + background: #e7e7e7; +} +.rst-content .instructor-note > .admonition-title { + background: #6a6a6a; +} +.rst-content .instructor-note > .admonition-title::before { + content: ""; +} + + +/* sphinx_toggle_button, make the font white */ +.rst-content .toggle.admonition button.toggle-button { + color: white; +} + +/* sphinx-togglebutton, remove underflow when toggled to hidden mode */ +.rst-content .admonition.toggle-hidden { + padding-bottom: 0px; +} diff --git a/branch/main/singlehtml/_static/sphinx_rtd_theme_ext_color_contrast.css b/branch/main/singlehtml/_static/sphinx_rtd_theme_ext_color_contrast.css new file mode 100644 index 0000000..e68feb8 --- /dev/null +++ b/branch/main/singlehtml/_static/sphinx_rtd_theme_ext_color_contrast.css @@ -0,0 +1,47 @@ +/* The following are for web accessibility of sphinx_rtd_theme: they + * solve some of the most frequent contrast issues. Remove when this + * solved: + * https://github.com/readthedocs/sphinx_rtd_theme/issues/971 + */ +/* background: #fcfcfc, note boxes #E7F2FA */ +a { color: #2573A7; } /* original #2980B9, #1F5C84; */ +body { color: #242424; } /* original #404040, #383838 */ +.wy-side-nav-search>a, .wy-side-nav-search .wy-dropdown>a { + color: #ffffff; +} /* original #fcfcfc */ +footer { color: #737373; } /* original gray=#808080*/ +footer span.commit code, footer span.commit .rst-content tt, .rst-content footer span.commit tt { + color: #737373; +} /* original gray=#808080*/ +.rst-content tt.literal, .rst-content tt.literal, .rst-content code.literal { + color: #AB2314; +} +/* Sidebar background */ +.wy-side-nav-search { background-color: #277CB4;} + +/* Same, but for pygments */ +.highlight .ch { color: #3E7A89; } /* #! line */ +.highlight .c1 { color: #3E7A89; } /* also comments */ +.highlight .nv { color: #AD3ECC; } /* variable */ +.highlight .gp { color: #B45608; } /* prompt character, $*/ +.highlight .si { color: #3975B1; } /* ${} variable text */ +.highlight .nc { color: #0C78A7; } + +/* Sphinx admonitions */ +/* warning */ +.wy-alert.wy-alert-warning .wy-alert-title, .rst-content .wy-alert-warning.note .wy-alert-title, .rst-content .attention .wy-alert-title, .rst-content .caution .wy-alert-title, .rst-content .wy-alert-warning.danger .wy-alert-title, .rst-content .wy-alert-warning.error .wy-alert-title, .rst-content .wy-alert-warning.hint .wy-alert-title, .rst-content .wy-alert-warning.important .wy-alert-title, .rst-content .wy-alert-warning.tip .wy-alert-title, .rst-content .warning .wy-alert-title, .rst-content .wy-alert-warning.seealso .wy-alert-title, .rst-content .admonition-todo .wy-alert-title, .rst-content .wy-alert-warning.admonition .wy-alert-title, .wy-alert.wy-alert-warning .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-warning .admonition-title, .rst-content .wy-alert-warning.note .admonition-title, .rst-content .attention .admonition-title, .rst-content .caution .admonition-title, .rst-content .wy-alert-warning.danger .admonition-title, .rst-content .wy-alert-warning.error .admonition-title, .rst-content .wy-alert-warning.hint .admonition-title, .rst-content .wy-alert-warning.important .admonition-title, .rst-content .wy-alert-warning.tip .admonition-title, .rst-content .warning .admonition-title, .rst-content .wy-alert-warning.seealso .admonition-title, .rst-content .admonition-todo .admonition-title, .rst-content .wy-alert-warning.admonition .admonition-title { + background: #B15E16; } +/* important */ +.wy-alert.wy-alert-success .wy-alert-title, .rst-content .wy-alert-success.note .wy-alert-title, .rst-content .wy-alert-success.attention .wy-alert-title, .rst-content .wy-alert-success.caution .wy-alert-title, .rst-content .wy-alert-success.danger .wy-alert-title, .rst-content .wy-alert-success.error .wy-alert-title, .rst-content .hint .wy-alert-title, .rst-content .important .wy-alert-title, .rst-content .tip .wy-alert-title, .rst-content .wy-alert-success.warning .wy-alert-title, .rst-content .wy-alert-success.seealso .wy-alert-title, .rst-content .wy-alert-success.admonition-todo .wy-alert-title, .rst-content .wy-alert-success.admonition .wy-alert-title, .wy-alert.wy-alert-success .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-success .admonition-title, .rst-content .wy-alert-success.note .admonition-title, .rst-content .wy-alert-success.attention .admonition-title, .rst-content .wy-alert-success.caution .admonition-title, .rst-content .wy-alert-success.danger .admonition-title, .rst-content .wy-alert-success.error .admonition-title, .rst-content .hint .admonition-title, .rst-content .important .admonition-title, .rst-content .tip .admonition-title, .rst-content .wy-alert-success.warning .admonition-title, .rst-content .wy-alert-success.seealso .admonition-title, .rst-content .wy-alert-success.admonition-todo .admonition-title, .rst-content .wy-alert-success.admonition .admonition-title { + background: #12826C; } +/* seealso, note, etc */ +.wy-alert.wy-alert-info .wy-alert-title, .rst-content .note .wy-alert-title, .rst-content .wy-alert-info.attention .wy-alert-title, .rst-content .wy-alert-info.caution .wy-alert-title, .rst-content .wy-alert-info.danger .wy-alert-title, .rst-content .wy-alert-info.error .wy-alert-title, .rst-content .wy-alert-info.hint .wy-alert-title, .rst-content .wy-alert-info.important .wy-alert-title, .rst-content .wy-alert-info.tip .wy-alert-title, .rst-content .wy-alert-info.warning .wy-alert-title, .rst-content .seealso .wy-alert-title, .rst-content .wy-alert-info.admonition-todo .wy-alert-title, .rst-content .wy-alert-info.admonition .wy-alert-title, .wy-alert.wy-alert-info .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-info .admonition-title, .rst-content .note .admonition-title, .rst-content .wy-alert-info.attention .admonition-title, .rst-content .wy-alert-info.caution .admonition-title, .rst-content .wy-alert-info.danger .admonition-title, .rst-content .wy-alert-info.error .admonition-title, .rst-content .wy-alert-info.hint .admonition-title, .rst-content .wy-alert-info.important .admonition-title, .rst-content .wy-alert-info.tip .admonition-title, .rst-content .wy-alert-info.warning .admonition-title, .rst-content .seealso .admonition-title, .rst-content .wy-alert-info.admonition-todo .admonition-title, .rst-content .wy-alert-info.admonition .admonition-title { + background: #277CB4; } +/* error, danger */ +.rst-content .danger .admonition-title, .rst-content .danger .wy-alert-title, .rst-content .error .admonition-title, .rst-content .error .wy-alert-title, .rst-content .wy-alert-danger.admonition-todo .admonition-title, .rst-content .wy-alert-danger.admonition-todo .wy-alert-title, .rst-content .wy-alert-danger.admonition .admonition-title, .rst-content .wy-alert-danger.admonition .wy-alert-title, .rst-content .wy-alert-danger.attention .admonition-title, .rst-content .wy-alert-danger.attention .wy-alert-title, .rst-content .wy-alert-danger.caution .admonition-title, .rst-content .wy-alert-danger.caution .wy-alert-title, .rst-content .wy-alert-danger.hint .admonition-title, .rst-content .wy-alert-danger.hint .wy-alert-title, .rst-content .wy-alert-danger.important .admonition-title, .rst-content .wy-alert-danger.important .wy-alert-title, .rst-content .wy-alert-danger.note .admonition-title, .rst-content .wy-alert-danger.note .wy-alert-title, .rst-content .wy-alert-danger.seealso .admonition-title, .rst-content .wy-alert-danger.seealso .wy-alert-title, .rst-content .wy-alert-danger.tip .admonition-title, .rst-content .wy-alert-danger.tip .wy-alert-title, .rst-content .wy-alert-danger.warning .admonition-title, .rst-content .wy-alert-danger.warning .wy-alert-title, .rst-content .wy-alert.wy-alert-danger .admonition-title, .wy-alert.wy-alert-danger .rst-content .admonition-title, .wy-alert.wy-alert-danger .wy-alert-title { + background: #e31704; +} + +/* Generic admonition titles */ +.wy-alert-title, .rst-content .admonition-title { + background: #277CB4; } diff --git a/branch/main/singlehtml/_static/tabs.css b/branch/main/singlehtml/_static/tabs.css new file mode 100644 index 0000000..957ba60 --- /dev/null +++ b/branch/main/singlehtml/_static/tabs.css @@ -0,0 +1,89 @@ +.sphinx-tabs { + margin-bottom: 1rem; +} + +[role="tablist"] { + border-bottom: 1px solid #a0b3bf; +} + +.sphinx-tabs-tab { + position: relative; + font-family: Lato,'Helvetica Neue',Arial,Helvetica,sans-serif; + color: #1D5C87; + line-height: 24px; + margin: 0; + font-size: 16px; + font-weight: 400; + background-color: rgba(255, 255, 255, 0); + border-radius: 5px 5px 0 0; + border: 0; + padding: 1rem 1.5rem; + margin-bottom: 0; +} + +.sphinx-tabs-tab[aria-selected="true"] { + font-weight: 700; + border: 1px solid #a0b3bf; + border-bottom: 1px solid white; + margin: -1px; + background-color: white; +} + +.sphinx-tabs-tab:focus { + z-index: 1; + outline-offset: 1px; +} + +.sphinx-tabs-panel { + position: relative; + padding: 1rem; + border: 1px solid #a0b3bf; + margin: 0px -1px -1px -1px; + border-radius: 0 0 5px 5px; + border-top: 0; + background: white; +} + +.sphinx-tabs-panel.code-tab { + padding: 0.4rem; +} + +.sphinx-tab img { + margin-bottom: 24 px; +} + +/* Dark theme preference styling */ + +@media (prefers-color-scheme: dark) { + body[data-theme="auto"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); + } + + body[data-theme="auto"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); + } + + body[data-theme="auto"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 1px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); + } +} + +/* Explicit dark theme styling */ + +body[data-theme="dark"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); +} + +body[data-theme="dark"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); +} + +body[data-theme="dark"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 2px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); +} diff --git a/branch/main/singlehtml/_static/tabs.js b/branch/main/singlehtml/_static/tabs.js new file mode 100644 index 0000000..48dc303 --- /dev/null +++ b/branch/main/singlehtml/_static/tabs.js @@ -0,0 +1,145 @@ +try { + var session = window.sessionStorage || {}; +} catch (e) { + var session = {}; +} + +window.addEventListener("DOMContentLoaded", () => { + const allTabs = document.querySelectorAll('.sphinx-tabs-tab'); + const tabLists = document.querySelectorAll('[role="tablist"]'); + + allTabs.forEach(tab => { + tab.addEventListener("click", changeTabs); + }); + + tabLists.forEach(tabList => { + tabList.addEventListener("keydown", keyTabs); + }); + + // Restore group tab selection from session + const lastSelected = session.getItem('sphinx-tabs-last-selected'); + if (lastSelected != null) selectNamedTabs(lastSelected); +}); + +/** + * Key focus left and right between sibling elements using arrows + * @param {Node} e the element in focus when key was pressed + */ +function keyTabs(e) { + const tab = e.target; + let nextTab = null; + if (e.keyCode === 39 || e.keyCode === 37) { + tab.setAttribute("tabindex", -1); + // Move right + if (e.keyCode === 39) { + nextTab = tab.nextElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.firstElementChild; + } + // Move left + } else if (e.keyCode === 37) { + nextTab = tab.previousElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.lastElementChild; + } + } + } + + if (nextTab !== null) { + nextTab.setAttribute("tabindex", 0); + nextTab.focus(); + } +} + +/** + * Select or deselect clicked tab. If a group tab + * is selected, also select tab in other tabLists. + * @param {Node} e the element that was clicked + */ +function changeTabs(e) { + // Use this instead of the element that was clicked, in case it's a child + const notSelected = this.getAttribute("aria-selected") === "false"; + const positionBefore = this.parentNode.getBoundingClientRect().top; + const notClosable = !this.parentNode.classList.contains("closeable"); + + deselectTabList(this); + + if (notSelected || notClosable) { + selectTab(this); + const name = this.getAttribute("name"); + selectNamedTabs(name, this.id); + + if (this.classList.contains("group-tab")) { + // Persist during session + session.setItem('sphinx-tabs-last-selected', name); + } + } + + const positionAfter = this.parentNode.getBoundingClientRect().top; + const positionDelta = positionAfter - positionBefore; + // Scroll to offset content resizing + window.scrollTo(0, window.scrollY + positionDelta); +} + +/** + * Select tab and show associated panel. + * @param {Node} tab tab to select + */ +function selectTab(tab) { + tab.setAttribute("aria-selected", true); + + // Show the associated panel + document + .getElementById(tab.getAttribute("aria-controls")) + .removeAttribute("hidden"); +} + +/** + * Hide the panels associated with all tabs within the + * tablist containing this tab. + * @param {Node} tab a tab within the tablist to deselect + */ +function deselectTabList(tab) { + const parent = tab.parentNode; + const grandparent = parent.parentNode; + + Array.from(parent.children) + .forEach(t => t.setAttribute("aria-selected", false)); + + Array.from(grandparent.children) + .slice(1) // Skip tablist + .forEach(panel => panel.setAttribute("hidden", true)); +} + +/** + * Select grouped tabs with the same name, but no the tab + * with the given id. + * @param {Node} name name of grouped tab to be selected + * @param {Node} clickedId id of clicked tab + */ +function selectNamedTabs(name, clickedId=null) { + const groupedTabs = document.querySelectorAll(`.sphinx-tabs-tab[name="${name}"]`); + const tabLists = Array.from(groupedTabs).map(tab => tab.parentNode); + + tabLists + .forEach(tabList => { + // Don't want to change the tabList containing the clicked tab + const clickedTab = tabList.querySelector(`[id="${clickedId}"]`); + if (clickedTab === null ) { + // Select first tab with matching name + const tab = tabList.querySelector(`.sphinx-tabs-tab[name="${name}"]`); + deselectTabList(tab); + selectTab(tab); + } + }) +} + +if (typeof exports === 'undefined') { + exports = {}; +} + +exports.keyTabs = keyTabs; +exports.changeTabs = changeTabs; +exports.selectTab = selectTab; +exports.deselectTabList = deselectTabList; +exports.selectNamedTabs = selectNamedTabs; diff --git a/branch/main/singlehtml/_static/term_role_formatting.css b/branch/main/singlehtml/_static/term_role_formatting.css new file mode 100644 index 0000000..0b66095 --- /dev/null +++ b/branch/main/singlehtml/_static/term_role_formatting.css @@ -0,0 +1,4 @@ +/* Make terms bold */ +a.reference span.std-term { + font-weight: bold; +} diff --git a/branch/main/singlehtml/_static/togglebutton.css b/branch/main/singlehtml/_static/togglebutton.css new file mode 100644 index 0000000..54a6787 --- /dev/null +++ b/branch/main/singlehtml/_static/togglebutton.css @@ -0,0 +1,160 @@ +/** + * Admonition-based toggles + */ + +/* Visibility of the target */ +.admonition.toggle .admonition-title ~ * { + transition: opacity .3s, height .3s; +} + +/* Toggle buttons inside admonitions so we see the title */ +.admonition.toggle { + position: relative; +} + +/* Titles should cut off earlier to avoid overlapping w/ button */ +.admonition.toggle .admonition-title { + padding-right: 25%; + cursor: pointer; +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:hover { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 1%); +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:active { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 3%); +} + +/* Remove extra whitespace below the admonition title when hidden */ +.admonition.toggle-hidden { + padding-bottom: 0; +} + +.admonition.toggle-hidden .admonition-title { + margin-bottom: 0; +} + +/* hides all the content of a page until de-toggled */ +.admonition.toggle-hidden .admonition-title ~ * { + height: 0; + margin: 0; + opacity: 0; + visibility: hidden; +} + +/* General button style and position*/ +button.toggle-button { + /** + * Background and shape. By default there's no background + * but users can style as they wish + */ + background: none; + border: none; + outline: none; + + /* Positioning just inside the admonition title */ + position: absolute; + right: 0.5em; + padding: 0px; + border: none; + outline: none; +} + +/* Display the toggle hint on wide screens */ +@media (min-width: 768px) { + button.toggle-button.toggle-button-hidden:before { + content: attr(data-toggle-hint); /* This will be filled in by JS */ + font-size: .8em; + align-self: center; + } +} + +/* Icon behavior */ +.tb-icon { + transition: transform .2s ease-out; + height: 1.5em; + width: 1.5em; + stroke: currentColor; /* So that we inherit the color of other text */ +} + +/* The icon should point right when closed, down when open. */ +/* Open */ +.admonition.toggle button .tb-icon { + transform: rotate(90deg); +} + +/* Closed */ +.admonition.toggle button.toggle-button-hidden .tb-icon { + transform: rotate(0deg); +} + +/* With details toggles, we don't rotate the icon so it points right */ +details.toggle-details .tb-icon { + height: 1.4em; + width: 1.4em; + margin-top: 0.1em; /* To center the button vertically */ +} + + +/** + * Details-based toggles. + * In this case, we wrap elements with `.toggle` in a details block. + */ + +/* Details blocks */ +details.toggle-details { + margin: 1em 0; +} + + +details.toggle-details summary { + display: flex; + align-items: center; + cursor: pointer; + list-style: none; + border-radius: .2em; + border-left: 3px solid #1976d2; + background-color: rgb(204 204 204 / 10%); + padding: 0.2em 0.7em 0.3em 0.5em; /* Less padding on left because the SVG has left margin */ + font-size: 0.9em; +} + +details.toggle-details summary:hover { + background-color: rgb(204 204 204 / 20%); +} + +details.toggle-details summary:active { + background: rgb(204 204 204 / 28%); +} + +.toggle-details__summary-text { + margin-left: 0.2em; +} + +details.toggle-details[open] summary { + margin-bottom: .5em; +} + +details.toggle-details[open] summary .tb-icon { + transform: rotate(90deg); +} + +details.toggle-details[open] summary ~ * { + animation: toggle-fade-in .3s ease-out; +} + +@keyframes toggle-fade-in { + from {opacity: 0%;} + to {opacity: 100%;} +} + +/* Print rules - we hide all toggle button elements at print */ +@media print { + /* Always hide the summary so the button doesn't show up */ + details.toggle-details summary { + display: none; + } +} \ No newline at end of file diff --git a/branch/main/singlehtml/_static/togglebutton.js b/branch/main/singlehtml/_static/togglebutton.js new file mode 100644 index 0000000..215a7ee --- /dev/null +++ b/branch/main/singlehtml/_static/togglebutton.js @@ -0,0 +1,187 @@ +/** + * Add Toggle Buttons to elements + */ + +let toggleChevron = ` + + + +`; + +var initToggleItems = () => { + var itemsToToggle = document.querySelectorAll(togglebuttonSelector); + console.log(`[togglebutton]: Adding toggle buttons to ${itemsToToggle.length} items`) + // Add the button to each admonition and hook up a callback to toggle visibility + itemsToToggle.forEach((item, index) => { + if (item.classList.contains("admonition")) { + // If it's an admonition block, then we'll add a button inside + // Generate unique IDs for this item + var toggleID = `toggle-${index}`; + var buttonID = `button-${toggleID}`; + + item.setAttribute('id', toggleID); + if (!item.classList.contains("toggle")){ + item.classList.add("toggle"); + } + // This is the button that will be added to each item to trigger the toggle + var collapseButton = ` + `; + + title = item.querySelector(".admonition-title") + title.insertAdjacentHTML("beforeend", collapseButton); + thisButton = document.getElementById(buttonID); + + // Add click handlers for the button + admonition title (if admonition) + admonitionTitle = document.querySelector(`#${toggleID} > .admonition-title`) + if (admonitionTitle) { + // If an admonition, then make the whole title block clickable + admonitionTitle.addEventListener('click', toggleClickHandler); + admonitionTitle.dataset.target = toggleID + admonitionTitle.dataset.button = buttonID + } else { + // If not an admonition then we'll listen for the button click + thisButton.addEventListener('click', toggleClickHandler); + } + + // Now hide the item for this toggle button unless explicitly noted to show + if (!item.classList.contains("toggle-shown")) { + toggleHidden(thisButton); + } + } else { + // If not an admonition, wrap the block in a
block + // Define the structure of the details block and insert it as a sibling + var detailsBlock = ` +
+ + ${toggleChevron} + ${toggleHintShow} + +
`; + item.insertAdjacentHTML("beforebegin", detailsBlock); + + // Now move the toggle-able content inside of the details block + details = item.previousElementSibling + details.appendChild(item) + item.classList.add("toggle-details__container") + + // Set up a click trigger to change the text as needed + details.addEventListener('click', (click) => { + let parent = click.target.parentElement; + if (parent.tagName.toLowerCase() == "details") { + summary = parent.querySelector("summary"); + details = parent; + } else { + summary = parent; + details = parent.parentElement; + } + // Update the inner text for the proper hint + if (details.open) { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintShow; + } else { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintHide; + } + + }); + + // If we have a toggle-shown class, open details block should be open + if (item.classList.contains("toggle-shown")) { + details.click(); + } + } + }) +}; + +// This should simply add / remove the collapsed class and change the button text +var toggleHidden = (button) => { + target = button.dataset['target'] + var itemToToggle = document.getElementById(target); + if (itemToToggle.classList.contains("toggle-hidden")) { + itemToToggle.classList.remove("toggle-hidden"); + button.classList.remove("toggle-button-hidden"); + } else { + itemToToggle.classList.add("toggle-hidden"); + button.classList.add("toggle-button-hidden"); + } +} + +var toggleClickHandler = (click) => { + // Be cause the admonition title is clickable and extends to the whole admonition + // We only look for a click event on this title to trigger the toggle. + + if (click.target.classList.contains("admonition-title")) { + button = click.target.querySelector(".toggle-button"); + } else if (click.target.classList.contains("tb-icon")) { + // We've clicked the icon and need to search up one parent for the button + button = click.target.parentElement; + } else if (click.target.tagName == "polyline") { + // We've clicked the SVG elements inside the button, need to up 2 layers + button = click.target.parentElement.parentElement; + } else if (click.target.classList.contains("toggle-button")) { + // We've clicked the button itself and so don't need to do anything + button = click.target; + } else { + console.log(`[togglebutton]: Couldn't find button for ${click.target}`) + } + target = document.getElementById(button.dataset['button']); + toggleHidden(target); +} + +// If we want to blanket-add toggle classes to certain cells +var addToggleToSelector = () => { + const selector = ""; + if (selector.length > 0) { + document.querySelectorAll(selector).forEach((item) => { + item.classList.add("toggle"); + }) + } +} + +// Helper function to run when the DOM is finished +const sphinxToggleRunWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} +sphinxToggleRunWhenDOMLoaded(addToggleToSelector) +sphinxToggleRunWhenDOMLoaded(initToggleItems) + +/** Toggle details blocks to be open when printing */ +if (toggleOpenOnPrint == "true") { + window.addEventListener("beforeprint", () => { + // Open the details + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.dataset["togglestatus"] = el.open; + el.open = true; + }); + + // Open the admonitions + document.querySelectorAll(".admonition.toggle.toggle-hidden").forEach((el) => { + console.log(el); + el.querySelector("button.toggle-button").click(); + el.dataset["toggle_after_print"] = "true"; + }); + }); + window.addEventListener("afterprint", () => { + // Re-close the details that were closed + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.open = el.dataset["togglestatus"] == "true"; + delete el.dataset["togglestatus"]; + }); + + // Re-close the admonition toggle buttons + document.querySelectorAll(".admonition.toggle").forEach((el) => { + if (el.dataset["toggle_after_print"] == "true") { + el.querySelector("button.toggle-button").click(); + delete el.dataset["toggle_after_print"]; + } + }); + }); +} diff --git a/branch/main/singlehtml/index.html b/branch/main/singlehtml/index.html new file mode 100644 index 0000000..fcab47d --- /dev/null +++ b/branch/main/singlehtml/index.html @@ -0,0 +1,1778 @@ + + + + + + + How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+
    +
    • +
  • How to document your research software documentation
    • +
  • + Edit on GitHub +
    • +
+
+
+
+
+ +
+

How to document your research software

+

In this lesson we will discuss different solutions for implementing and +deploying code documentation.

+

We will start with a discussion about what makes a good README. For many +projects, a README is more than enough.

+

We will then learn how to build documentation with the +documentation generator Sphinx (and compare it +with others) and how to +deploy it to Read the Docs, a service which hosts +open documentation for free.

+

This demonstration will be independent of programming languages.

+

We will also learn how +to deploy a project website or personal homepage to GitHub Pages. +The approach that we will learn will be transferable to +GitLab Pages and +Bitbucket Pages.

+
+

Prerequisites

+
    +

  1. Basic understanding of Git.

    2. +

  2. For the Sphinx part, You need to have +sphinx and sphinx_rtd_theme installed +(they are part of the coderefinery environment).

    3. +

  3. For the GitHub Pages part you need a GitHub account.

    4. +
+
+ + + + + + + + + + + + + + + + + + + + + + + + + + + +

10 min

Motivation and wishlist

10 min

Popular tools and solutions

20 min

In-code documentation

30 min

Writing good README files

30 min

Sphinx and Markdown

20 min

Deploying Sphinx documentation to GitHub Pages

20 min

Hosting websites/homepages on GitHub Pages

5 min

Summary

+
+
+

Motivation and wishlist

+
+

Motivation

+
+

Motivation-1: Why documenting code?

+

Use the collaborative document:

+
    +

  • Is project documentation important? Why?

    • +

  • How would you describe a useful documentation?

    • +

  • How can you motivate your colleagues to contribute to the documentation?

    • +
+
+ +
+
+

What do we expect from a suitably good documentation?

+
+

Note

+

Documentation comes in different forms - what is documentation?

+
    +

  • Tutorials: learning-oriented, allows the newcomer to get started

    • +

  • How-to guides: goal-oriented, shows how to solve a specific problem

    • +

  • Explanation: understanding-oriented, explains a concept

    • +

  • Reference: information-oriented, describes the machinery

    • +
+

Read more:

+ +
+

There is no one size fits all: often for small projects a README.md or +README.rst can be enough (more about these formats later).

+
+
+

Creating a checklist

+
+

Motivation-2: Create a wishlist

+

Use the collaborative document:

+
    +

  • Let us create a wishlist for how we would like documentation to be.

    • +

  • Below are some of our ideas but please do not look at them yet.

    • +

  • We are sure you will come up with ideas we did not think about.

    • +
+
+ +
+

Documentation checklist

+

Which items to include depends on the number of users apart from yourself.

+
    +

  • Purpose

    • +

  • Authors

    • +

  • License

    • +

  • Recommended citation

    • +

  • Copy-paste-able example to get started

    • +

  • Dependencies and their versions or version ranges

    • +

  • Installation instructions

    • +

  • Tutorials covering key functionality

    • +

  • Reference documentation (e.g. API) covering all functionality

    • +

  • How do you want to be asked questions (mailing list or forum or chat or issue tracker)

    • +

  • Possibly a FAQ section

    • +

  • Contribution guide

    • +
+
+
+

Keypoints

+
    +

  • Documentation is part of the code and should be versionable.

    • +

  • Documentation (sources) should be tracked with the corresponding code in the same repository.

    • +

  • Use standard markup languages such as reStructuredText or Markdown.

    • +
+
+
+
+ +
+

In-code documentation

+
+

Questions

+
    +

  • What can I do to make my code more easily understandable?

    • +

  • What information should go into comments?

    • +

  • What are docstrings and what information should go into docstrings?

    • +
+
+

In this episode we will learn how to write good documentation inside your code.

+
+

Exercise - Writing good comments

+
+

In-code-1: Comments

+

Let’s take a look at two example comments (comments in Python start with #):

+

Comment A

+
# now we check if temperature is below -50
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Comment B

+
# we regard temperatures below -50 degrees as measurement errors
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Which of these comments is more useful? Can you explain why?

+ +
+
+
+

Sometimes version control is better than a comment

+
+

Examples for code comments where Git is a better solution

+

Keeping zombie code “just in case” (rather use version control):

+
# do not run this code!
+# if temperature > 0:
+#     print("It is warm")
+
+
+

Instead: Remove the code, you can always find it back in a previous version of your code in Git.

+

Emulating version control:

+
# John Doe: threshold changed from 0 to 15 on August 5, 2013
+if temperature > 15:
+    print("It is warm")
+
+
+

Instead: You can get this information from git log or git show or git   annotate or similar.

+
+
+
+

What are “docstrings” and how can they be useful?

+

Here is function fahrenheit_to_celsius which converts temperature in +Fahrenheit to Celsius, implemented in a couple of different languages. +Your language is missing? Please contribute an example.

+

The first set of examples uses regular comments:

+
+
# This function converts a temperature in Fahrenheit to Celsius.
+def fahrenheit_to_celsius(temp_f: float) -> float:
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+
+

The second set uses docstrings or similar concepts. Please compare the two +(above and below):

+
+
def fahrenheit_to_celsius(temp_f: float) -> float:
+    """
+    Converts a temperature in Fahrenheit to Celsius.
+
+    Parameters
+    ----------
+    temp_f : float
+        The temperature in Fahrenheit.
+
+    Returns
+    -------
+    float
+        The temperature in Celsius.
+    """
+
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+

Read more: https://peps.python.org/pep-0257/

+
+

Docstrings can do a bit more than just comments:

+
    +

  • Tools can generate help text automatically from the docstrings.

    • +

  • Tools can generate documentation pages automatically from code.

    • +
+

It is common to write docstrings for functions, classes, and modules.

+

Good docstrings describe:

+
    +

  • What the function does

    • +

  • What goes in (including the type of the input variables)

    • +

  • What goes out (including the return type)

    • +
+

Naming is documentation: +Giving explicit, descriptive names to your code segments (functions, classes, +variables) already provides very useful and important documentation. In +practice you will find that for simple functions it is unnecessary to add a +docstring when the function name and variable names already give enough +information.

+
+
+

Keypoints

+
    +

  • Comments should describe the why for your code not the what.

    • +

  • Writing docstrings can be a good way to write documentation while you type +code since it also makes it possible +to query that information from outside the code or to auto-generate +documentation pages.

    • +
+
+
+
+
+

Writing good README files

+

The README file (often README.md or README.rst) is usually the first thing +users/collaborators see when visiting your GitHub repository.

+

Use it to communicate important information about your project! For many +smaller or mid-size projects, this is enough documentation. It’s not that hard +to make a basic one, and it’s easy to expand as needed.

+
+

Exercise: Have fun testing some README features

+
+

Exercise README-1: Have fun testing some README features you may not have heard about

+
    +

  • Test the effect of adding the following to your GitHub README (read +more):

    +
    > [!NOTE]
+> Highlights information that users should take into account, even when skimming.
+
+> [!IMPORTANT]
+> Crucial information necessary for users to succeed.
+
+> [!WARNING]
+> Critical content demanding immediate user attention due to potential risks.
+
    +
    +
    • +

  • For more detailed descriptions which you don’t want to show by default you +might find this useful (please try it out):

    +
    <details>
+<summary>
+Short summary
+</summary>
+
+Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod
+tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam,
+quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo
+consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse
+cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non
+proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+</details>
+
    +
    +
    • +

  • Would you like to add a badge like this one: please replace with alt text?

    +

    Badge that links to a website (see also https://shields.io/):

    +
    [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)
+
    +
    +

    Badge without link:

    +
    ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)
+
    +
    +
    • +

  • Know about other tips and tricks? Please share them (send a pull request to this lesson).

    • +
+
+
+
+

Exercise: Improve the README for your own project

+
+

Exercise README-2: Draft or improve a README for one of your recent projects

+

Try to draft a brief README or review a README which you have written for one +of your projects.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • Use the checklist which we have discussed earlier.

    • +

  • Think about the user (which can be a future you) of your project, what does this user need to know to use or +contribute to the project? And how do you make your project attractive to use or contribute to?

    • +

  • (Optional): Try the https://hemingwayapp.com/ to analyse your README file and make your writing bold and clear.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Exercise: Discuss the README of a project that you use

+
+

Exercise README-3: Review and discuss a README of a project that you have used

+

In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • When discussing other people’s projects please remember to be respectful and +constructive. The goal of this exercise is not to criticize other projects but +to learn from other projects and to collect the aspects that you enjoyed +finding in a README and to also collect aspects which you have searched for but +which are sometimes missing.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Table of contents in README files

+
    +

  • GitHub automatically generates a table of contents for README.md files.

    • +

  • On GitLab you can generate a TOC in Markdown with:

    +
    [[_TOC_]]
+
    +
    +
    • +

  • With RST you can generate a table of contents (TOC) automatically by adding:

    +
    .. contents:: Table of Contents
+
    +
    +
    • +
+
+
+
+

Sphinx and Markdown

+
+

Objectives

+
    +

  • Understand how static site generators build websites out of plain +text files.

    • +

  • Create example Sphinx documentation and learn some Markdown along the way.

    • +
+
+

We will take the first steps in creating documentation using Sphinx, and learn some +MyST flavored Markdown syntax along the way.

+
+

This lesson is built with Sphinx

+

Try to compare the source +code +and the result side by side.

+
+

Our goal in this episode is to build HTML pages locally on our computers.

+
+

Before we start, let us verify whether we have the software we need

+

You may need to activate your CodeRefinery conda environment we set up +in the installation instructions. This was covered as part of the +installation instructions, but the most usual command to do this is:

+
$ conda activate coderefinery
+
+
+

Check whether Python is available +(you should see a version; precise version is not so important):

+
$ python --version
+
+Python 3.11.5
+
+
+

Check whether Sphinx is available +(you should see a version; precise version is not so important):

+
$ sphinx-build --version
+
+sphinx-build 5.3.0
+
+
+

Check whether the quickstart tool is available +(you should see a version; precise version is not so important):

+
$ sphinx-quickstart --version
+
+sphinx-quickstart 5.3.0
+
+
+

Check whether MyST parser is available +(you should see no output):

+
$ python -c "import myst_parser"
+
+
+

If the above commands produce an error +(command not found or module not found or ModuleNotFoundError), +please follow our +installation instructions. +But please don’t give up if you don’t have these - the episodes after this one will work even without these +tools.

+
+
+

Exercise: Sphinx quickstart

+
+

Sphinx-1: Generate the basic documentation template

+

Create a directory for the example documentation, step into it, and inside +generate the basic documentation template:

+
$ mkdir doc-example
+$ cd doc-example
+$ sphinx-quickstart
+
+
+

The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release:

+
> Separate source and build directories (y/n) [n]: <hit enter>
+> Project name: <your project name>
+> Author name(s): <your name>
+> Project release []: 0.1
+> Project language [en]: <hit enter>
+
+
+

A couple of files and directories are created:

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

File/directory

Contents

conf.py

Documentation configuration file

index.rst

Main file in Sphinx

_build/

Directory where docs are built (you can decide the name)

_templates/

Your own HTML templates

_static/

Static files (images, styles, etc.) copied to output directory on build

Makefile

Makefile to build documentation using make

make.bat

Makefile to build documentation using make (Windows)

+

Makefile and make.bat (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly.

+

Let’s have a look at the index.rst file, which is the main file of your documentation:

+
.. myproject documentation master file, created by
+   sphinx-quickstart on Sat Sep 23 17:35:26 2023.
+   You can adapt this file completely to your liking, but it should at least
+   contain the root `toctree` directive.
+
+Welcome to myproject's documentation!
+=====================================
+
+.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+
+
+
    +

  • We will not use the Indices and tables section now, so remove it and everything below.

    • +

  • The top four lines, starting with .., are a comment.

    • +

  • The next lines are the table of contents. We can add content below:

    • +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+
+
+

Note that some-feature.md needs to be indented to align with :caption:.

+

We now need to tell Sphinx to use markdown files. To do this, we open +conf.py and replace the line:

+
extensions = []
+
+
+

with this line so that Sphinx can parse Markdown files:

+
extensions = ['myst_parser']
+
+
+

Let’s create the file some-feature.md (in Markdown format) which we have just listed in +index.rst (which uses reStructured Text format).

+
# Some feature
+
+## Subsection
+
+Exciting documentation in here.
+Let's make a list (empty surrounding lines required):
+
+- item 1
+
+  - nested item 1
+  - nested item 2
+
+- item 2
+- item 3
+
+
+

We now build the site:

+
$ ls -1
+
+_static
+_templates
+conf.py
+index.rst
+make.bat
+Makefile
+some-feature.md
+
+$ sphinx-build . _build
+
+... lots of output ...
+build succeeded.
+
+The HTML pages are in _build.
+
+$ ls -1 _build
+
+_sources
+_static
+genindex.html
+index.html
+objects.inv
+search.html
+searchindex.js
+some-feature.html
+
+
+

Now open the file _build/index.html in your browser.

+
    +

  • Linux users, type:

    +
    $ xdg-open _build/index.html
+
    +
    +
    • +

  • macOS users, type:

    +
    $ open _build/index.html
+
    +
    +
    • +

  • Windows users, type:

    +
    $ start _build/index.html
+
    +
    +
    • +

  • If the above does not work: +Enter file:///home/user/doc-example/_build/index.html in your browser (adapting the path to your case).

    • +
+

Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere.

+

Note that you can change the styling by editing conf.py and changing the value html_theme +(for instance you can set it to sphinx_rtd_theme (if you have that Python package installed) +to have the Read the Docs look).

+
+
+
+

Exercise: Adding more Sphinx content

+
+

Sphinx-2: Add more content to your example documentation

+
    +

  1. Add a entry below some-feature.md labeled another-feature.md (or a better name) to the index.rst file.

    2. +

  2. Create a file another-feature.md in the same directory as the index.rst file.

    3. +

  3. Add some content to another-feature.md, rebuild with sphinx-build . _build, and refresh the browser to look at the results.

    4. +

  4. Use the MyST Typography page as help.

    5. +
+

Experiment with the following Markdown syntax:

+
    +

  • *Emphasized text* and **bold text**

    • +

  • Headings:

    • +
+
# Level 1
+
+## Level 2
+
+### Level 3
+
+#### Level 4
+
+
+
    +

  • An image: ![alt text](image.png)

    • +

  • [A link](https://www.example.org)

    • +

  • Numbered lists (numbers adjusted automatically):

    • +
+
1. item 1
+2. item 2
+3. item 3
+1. item 4
+1. item 5
+
+
+
    +

  • Simple tables:

    • +
+
| No.  |  Prime |
+| ---- | ------ |
+| 1    |  No    |
+| 2    |  Yes   |
+| 3    |  Yes   |
+| 4    |  No    |
+
+
+
    +

  • Code blocks:

    • +
+
The following is a Python code block:
+```python
+  def hello():
+      print("Hello world")
+```
+
+And this is a C code block:
+```c
+#include <stdio.h>
+int main()
+{
+    printf("Hello, World!");
+    return 0;
+}
+```
+
+
+
    +

  • You could include an external file (here we assume a file called “example.py” +exists; at the same time we highlight lines 2 and 3):

    • +
+
```{literalinclude} example.py
+:language: python
+:emphasize-lines: 2-3
+```
+
+
+
    +

  • We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the +myst-nb extension to be installed.

    • +
+
+
+
+

Exercise: Sphinx and LaTeX

+
+

Sphinx-3: Rendering (LaTeX) math equations

+

Math equations should work out of the box. In some older versions, you might need +to edit conf.py and add sphinx.ext.mathjax:

+
extensions = ['myst_parser', 'sphinx.ext.mathjax']
+
+
+

Try this (result below):

+
This creates an equation:
+```{math}
+a^2 + b^2 = c^2
+```
+
+This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text.
+
+
+

This creates an equation:

+
+\[a^2 + b^2 = c^2\]
+

This is an in-line equation, \(a^2 + b^2 = c^2\), embedded in text.

+
+
+
+

Exercise: Sphinx autodoc

+
+

(optional) Sphinx-4: Auto-generating documentation from Python docstrings

+
    +

  1. Write some docstrings in functions and/or class definitions of an example python module:

    2. +
+
def multiply(a: float, b: float) -> float:
+    """
+    Multiply two numbers.
+
+    :param a: First number.
+    :param b: Second number.
+    :return: The product of a and b.
+    """
+    return a * b
+
+
+
    +

  1. In the file conf.py modify “extensions” and add 3 lines:

    2. +
+
extensions = ['myst_parser', "sphinx.ext.autodoc"]
+
+autodoc2_packages = [
+    "multiply.py"
+]
+
+
+
    +

  1. List apidocs/index in the toctree in index.rst.

    2. +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+   apidocs/index
+
+
+
    +

  1. Re-build the documentation and check the “API reference” section.

    2. +
+
+
+
+

Confused about reStructuredText vs. Markdown vs. MyST?

+
    +

  • At the beginning there was reStructuredText and Sphinx was built for reStructuredText.

    • +

  • Independently, Markdown was invented and evolved into a couple of flavors.

    • +

  • Markdown became more and more popular but was limited compared to reStructuredText.

    • +

  • Later, MyST +was invented to be able to write +something that looks like Markdown but in addition can do everything that +reStructuredText can do with extra directives.

    • +
+
+
+

Good to know

+
    +

  • The _build directory is a generated directory +and should not be part of the Git repository. We recommend to add _build +to .gitignore to prevent you from accidentally adding files below +_build to the Git repository.

    • +

  • sphinx-autobuild +provides a local web server that will automatically refresh your view +every time you save a file - which makes writing and testing much easier.

    • +

  • This is useful if you want to check the integrity of all internal and external links:

    +
    $ sphinx-build . -W -b linkcheck _build
+
    +
    +
    • +
+
+
+

References

+ +
+

Keypoints

+
    +

  • Sphinx and Markdown is a powerful duo for writing documentation.

    • +

  • Another option is to use reStructuredText, see the Sphinx documentation +and the quick-reference

    • +

  • In the next episode we will learn how to deploy the documentation to a cloud service and update it +upon every git push.

    • +
+
+
+
+
+

Deploying Sphinx documentation to GitHub Pages

+
+

Objectives

+
    +

  • Create a basic workflow which you can take home and adapt for your project.

    • +
+
+
+

GitHub Pages

+
    +

  • Serve websites from a GitHub repository.

    • +

  • It is no problem to serve using your own URL https://myproject.org instead of https://myuser.github.io/myproject.

    • +
+
+
+

GitHub Actions

+
    +

  • Automatically runs code when your repository changes.

    • +

  • We will let it run sphinx-build and make the result available to GitHub Pages.

    • +
+
+
+

Our goal: putting it all together

+
    +

  • Host source code with documentation sources on a public Git repository.

    • +

  • Each time we git push to the repository, a GitHub action triggers to +rebuild the documentation.

    • +

  • The documentation is pushed to a separate branch called ‘gh-pages’.

    • +
+
+
+
+

Exercise - Deploy Sphinx documentation to GitHub Pages

+
+

GH-Pages-1: Deploy Sphinx documentation to GitHub Pages

+

In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages.

+

Step 1: Go to the documentation-example project template +on GitHub and create a copy to your namespace.

+
    +

  • Give it a name, for instance “documentation-example”.

    • +

  • You don’t need to “Include all branches”

    • +

  • Click on “Create a repository”.

    • +
+

Step 2: Browse the new repository.

+
    +

  • It will look very familar to the previous episode.

    • +

  • However, we have moved the documentation part under doc/ (many projects do it this +way). But it is still a Sphinx documentation project.

    • +

  • The source code for your project could then go under src/.

    • +
+

Step 3: Add the GitHub Action to your new Git repository.

+
    +

  • Add a new file at .github/workflows/documentation.yml (either through terminal or web interface), containing:

    • +
+
name: documentation
+
+on: [push, pull_request, workflow_dispatch]
+
+permissions:
+  contents: write
+
+jobs:
+  docs:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+      - name: Install dependencies
+        run: |
+          pip install sphinx sphinx_rtd_theme myst_parser
+      - name: Sphinx build
+        run: |
+          sphinx-build doc _build
+      - name: Deploy to GitHub Pages
+        uses: peaceiris/actions-gh-pages@v3
+        if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }}
+        with:
+          publish_branch: gh-pages
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: _build/
+          force_orphan: true
+
+
+
    +

  • You don’t need to understand all of the above, but you +might spot familiar commands in the run: sections.

    • +

  • After the file has been committed (and pushed), +check the action at https://github.com/USER/documentation-example/actions +(replace USER with your GitHub username).

    • +
+

Step 4: Enable GitHub Pages

+
    +

  • On GitHub go to “Settings” -> “Pages”.

    • +

  • In the “Source” section, choose “Deploy from a branch” in the dropdown menu.

    • +

  • In the “Branch” section choose “gh-pages” and “/root” in the dropdown menus and click +save.

    • +

  • You should now be able to verify the pages deployment in the Actions list).

    • +
+

Step 5: Verify the result

+
    +

  • Your site should now be live on https://USER.github.io/documentation-example/ (replace USER).

    • +
+

Step 6: Verify refreshing the documentation

+
    +

  • Commit some changes to your documentation

    • +

  • Verify that the documentation website refreshes after your changes (can take few seconds or a minute)

    • +
+
+
+
+

Alternatives to GitHub Pages

+
    +

  • GitLab Pages +and GitLab CI can create a very similar workflow.

    • +

  • Read the Docs is the most common alternative to +hosting in GitHub Pages.

    • +

  • Sphinx builds HTML files (this is what static site generators do), and you +can host them anywhere, for example your university’s web space or own web server.

    • +
+
+
+

Migrating your own documentation to Sphinx

+
    +

  • First convert your documentation to Markdown using Pandoc.

    • +

  • Create a file index.rst which lists all other Markdown files and provides the +table of contents.

    • +

  • Add a conf.py file. You can generate a starting point for conf.py and +index.rst with sphinx-quickstart, or you can take the examples in this +lesson as inspiration.

    • +

  • Test building the documentation locally with sphinx-build.

    • +

  • Once this works, follow the above steps to build and deploy to GitHub Pages or some other web space.

    • +
+
+
+

Keypoints

+
    +

  • Sphinx makes simple HTML (and more) files, so it is easy to find a place to host them.

    • +

  • Github Pages + Github Actions provides a convenient way to make +sites and host them on the web.

    • +
+
+
+
+
+

Hosting websites/homepages on GitHub Pages

+
+

Often we don’t need more than a static website

+

You can host your personal homepage or group webpage or project website on +GitHub using GitHub Pages. +GitLab and +Bitbucket +also offer a very similar solution.

+

Unless you need user authentication or a sophisticated database behind your +website, GitHub Pages can be a very nice +alternative to running your own web servers. This is how all +https://coderefinery.org material is hosted.

+
+
+

How to find the website URL

+

Here below, NAMESPACE can either be a username or an organizational account.

+

Personal homepage or organizational homepage

+
    +

  • Generated URL: https://NAMESPACE.github.io

    • +

  • Generated from: https://github.com/NAMESPACE/NAMESPACE.github.io (main branch)

    • +
+

Project website

+
    +

  • Generated URL: https://NAMESPACE.github.io/REPOSITORY

    • +

  • Generated from: https://github.com/NAMESPACE/REPOSITORY (gh-pages branch)

    • +
+
+
+

Exercise - Your own website on GitHub Pages

+
+

GH-Pages-2: Host your own github page

+
    +

  • Deploy own website reusing a template:

    +
      +

    • Follow the steps from GitHub Pages https://pages.github.com/. +The documentation there is very good so there is no need for us to duplicate the screenshots.

      • +

    • Select “Project site”.

      • +

    • Select “Choose a theme”.

      • +

    • Follow the instructions on https://pages.github.com/.

      • +

    • Browse your page on https://USERNAME.github.io/REPOSITORY (adjust “USERNAME” and “REPOSITORY”).

      • +
    +
    • +

  • Make a change to the repository after the webpage has been deployed for the first time.

    • +

  • Please wait few minutes and then verify that the change shows up on the website.

    • +
+
+
+

Real-life examples

+ +
+
+

Note

+
    +

  • You can use HTML directly or another static site generator if you prefer +to not use the default Jekyll.

    • +

  • It is no problem to use a custom domain instead of *.github.io.

    • +
+
+
+
+
+

Summary

+
+

Questions

+
    +

  • What recommendations can we take home?

    • +
+
+
+
+

There is not the one right way: it is always a balance

+

Jupyter notebooks can be good documentation for scripts

+
    +

  • For simple scripts and post-processing, Jupyter notebooks can form a nice +self-documenting pipeline.

    • +

  • They can be a nice way to accompany a paper that analyzed some data.

    • +
+

READMEs or Sphinx?

+
    +

  • For smaller projects READMEs can be absolutely enough.

    • +

  • If the code is closed-source (and hence nobody can see the README), you +probably prefer Sphinx (or similar).

    • +

  • If you need math equations, Sphinx might be a good fit.

    • +
+

How to make sure that code changes come together with documentation changes?

+
    +

  • Make documentation part of your code review.

    • +
+

Read the Docs or GitHub pages or both?

+
    +

  • GitHub pages typically serves one version (one branch). However, it is possible to build +several or all branches as part of a workflow.

    • +

  • Read the Docs can serve several versions (several branches/tags) at the same time.

    • +

  • Some projects use both.

    • +
+

Consider making your development tutorial-driven

+
    +

  • Writing documentation is as important as writing software.

    • +

  • Focus on how you use the software.

    • +

  • If there is no tutorial on it, the feature “doesn’t exist”.

    • +

  • Don’t keep tutorial in sync with code, keep code in sync with tutorial - change the tutorial first.

    • +

  • Read more in this fantastic slide-deck about tutorial-driven development.

    • +
+
+
+
+
+
+

List of exercises

+
+

Full list

+

This is a list of all exercises and solutions in this lesson, mainly +as a reference for helpers and instructors. This list is +automatically generated from all of the other pages in the lesson. +Any single teaching event will probably cover only a subset of these, +depending on their interests.

+
+
+
+

Instructor guide

+
+

Why we teach this lesson

+

Everyone should document their code, even if they’re working alone.

+

These are the main points:

+
    +

  • Code documentation has to be versionnable and branchable

    • +

  • Code documentation should be tracked together with the source code

    • +

  • README is often enough

    • +
+

Please do not skim over the two above points. Please take few minutes to +explain why documentation (sources) should be tracked together with the source +code. Please discuss this aspect with workshop participants and connect it to +reproducibility. This is for me (Radovan) the most important take-home +message.

+

Specific motivations:

+
    +

  • Code documentation becomes quickly unmanageable if not part of the source code.

    • +

  • It helps people to quickly use your code thus reducing the time spent to explain over and again to new users.

    • +

  • It helps people to collaborate.

    • +

  • It improves the design of your code.

    • +
+
+
+

Intended learning outcomes

+

By the end of this lesson, learners should:

+
    +

  • Understand the importance of writing code documentation together with the source code

    • +

  • Know what makes a good documentation

    • +

  • Learn what tools can be used for writing documentation

    • +

  • Be able to motivate a balanced decision: sometimes READMEs are absolutely enough

    • +
+
+
+

Timing

+

As an instructor you should prepare all bullet points but do not go through +each bullet point in detail. Only highlight the main points and rather give +time for a discussion. Leave details for a later lecture for those who want to +find out more. If you go through each bullet point in detail, the motivation +can easily take up 30 minutes and you will run out of time.

+

The lesson does not fit into 1.5 hours if you go through everything. Optimize +for discussions and prepare well to be able to jump over bullet points which +can be left for a later lecture. Some sections can be skipped if needed (see +below). However, we recommend to have a discussion with your learners to make +them aware of what the training material contains.

+
    +

  • Do not insist on practicing Markdown or RST syntax.

    • +

  • The section Rendering (LaTeX) math equations may be optional if your +attendees do not have to deal with equations.

    • +

  • In the GitHub Pages episode, the +goal is not anymore to write code documentation but to show how to build +project website with GitHub. If time is tight, the GitHub pages episode can be +skipped or can be done as demonstration instead of exercise.

    • +
+
+
+

Detailed schedule

+
    +

  • 09:00 - 09:10 Motivation and tools

    +
      +

    • create a wishlist in collaborative notes

      • +
    +
    • +

  • 09:10 - 09:20 Writing good README files

    +
      +

    • brief discussion

      • +
    +
    • +

  • 09:20 - 09:40 Exercises: README-1, README-2, README-3 (choose one or multiple)

    • +

  • 09:40 - 10:00 Sphinx and Markdown: Sphinx-1 as type along

    • +

  • 10:00 - 10:10 Break

    • +

  • 10:10 - 10:40 Exercises, Sphinx-2, Sphinx-3, GH-Pages-1

    • +

  • 10:40 - 11:00 Discussion, GH Pages, Summary

    • +
+
+
+

Place this lesson towards the end of the workshop

+

Reason is that with collaborative Git we can create more interesting +documentation exercises. Currently there are some elements of forking and +pushing and this is only really introduced on day two. We have tried this +lesson on day one and it felt too early and disconnected/abrupt. It works best +after the reproducibility lesson since we then reuse the example and it feels +familiar.

+
+
+

Troubleshooting

+
+

Character encoding issues

+

Can arise when using non-utf8 characters in conf.py. Diagnose this with file -i conf.py +and locale.

+
+
+
+

Live better than reading the website material

+

It is better to demonstrate the commands live and type-along. Ideally connecting +to examples discussed earlier.

+

In online workshops most of the type-along becomes group exercise work where groups +can share screen and discuss.

+
+
+

Field reports

+
+

2022 September

+

We were pressed for time (we started 5-10 minutes late, relative to +the schedule below), so we made most of the first lessons fast. In +the schedule below, note that we had the first 10 minutes for +“Motivation” and “Popular tools”, which we didn’t fully realize so +that put us even further behind. Doing these introduction +parts quickly was hard but was probably worth it since we had plenty +of time in the end. For the “tools”, one person summarized the point +of each section on the page quickly. The README episode was done +quickly, we basically skipped the exercises to get to Sphinx, and this +put us back on schedule.

+

For Sphinx, we did it a lot like you see in the schedule: first +exercise (the basic setup) was type-along, but it was a bit too much +to do in the 10 minutes we had allotted (we typed too fast). But, +people then had a nice long time to make it up and do everything. It +seemed to work well. The GitHub pages deployment could then be done +as a nice, slow demo, and we had plenty of time to ask questions.

+

Overall, I think this was the right track, but we could have practiced +doing the first parts even faster, and warned people that we focus on +the Sphinx exercises.

+
+
+
+
+

Credit and license

+

This material is provided by CodeRefinery under the licenses stated below.

+
+

Website template

+

The website template is maintained by CodeRefinery +and rendered with sphinx-lesson: structured lessons with Sphinx.

+
+
+

Instructional material

+

All CodeRefinery instructional material is made available under the +Creative Commons Attribution license (CC-BY-4.0). +The following is a human-readable summary of (and not a substitute for) +the full legal text of the CC-BY-4.0 license.

+

You are free:

+
    +

  • to Share - copy and redistribute the material in any medium or format

    • +

  • to Adapt - remix, transform, and build upon the material

    • +
+

for any purpose, even commercially. The licensor cannot revoke these freedoms as long as you follow these license terms:

+
    +

  • Attribution - You must give appropriate credit +(mentioning that your work is derived from work that is Copyright +(c) CodeRefinery and, where practical, linking to +https://coderefinery.org, provide +a link to the license, +and indicate if changes were made. You may do so in any +reasonable manner, but not in any way that suggests the licensor +endorses you or your use.

    • +
+

No additional restrictions - You may not apply legal terms or technological +measures that legally restrict others from doing anything the license permits. +With the understanding that:

+
    +

  • You do not have to comply with the license for elements of the material in +the public domain or where your use is permitted by an applicable exception +or limitation.

    • +

  • No warranties are given. The license may not give you all of the +permissions necessary for your intended use. For example, other +rights such as publicity, privacy, or moral rights may limit how +you use the material.

    • +
+
+
+
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/singlehtml/objects.inv b/branch/main/singlehtml/objects.inv new file mode 100644 index 0000000..902c71f Binary files /dev/null and b/branch/main/singlehtml/objects.inv differ diff --git a/branch/main/sphinx/index.html b/branch/main/sphinx/index.html new file mode 100644 index 0000000..b88a618 --- /dev/null +++ b/branch/main/sphinx/index.html @@ -0,0 +1,588 @@ + + + + + + + Sphinx and Markdown — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Sphinx and Markdown

+
+

Objectives

+
    +

  • Understand how static site generators build websites out of plain +text files.

    • +

  • Create example Sphinx documentation and learn some Markdown along the way.

    • +
+
+

We will take the first steps in creating documentation using Sphinx, and learn some +MyST flavored Markdown syntax along the way.

+
+

This lesson is built with Sphinx

+

Try to compare the source +code +and the result side by side.

+
+

Our goal in this episode is to build HTML pages locally on our computers.

+
+

Before we start, let us verify whether we have the software we need

+

You may need to activate your CodeRefinery conda environment we set up +in the installation instructions. This was covered as part of the +installation instructions, but the most usual command to do this is:

+
$ conda activate coderefinery
+
+
+

Check whether Python is available +(you should see a version; precise version is not so important):

+
$ python --version
+
+Python 3.11.5
+
+
+

Check whether Sphinx is available +(you should see a version; precise version is not so important):

+
$ sphinx-build --version
+
+sphinx-build 5.3.0
+
+
+

Check whether the quickstart tool is available +(you should see a version; precise version is not so important):

+
$ sphinx-quickstart --version
+
+sphinx-quickstart 5.3.0
+
+
+

Check whether MyST parser is available +(you should see no output):

+
$ python -c "import myst_parser"
+
+
+

If the above commands produce an error +(command not found or module not found or ModuleNotFoundError), +please follow our +installation instructions. +But please don’t give up if you don’t have these - the episodes after this one will work even without these +tools.

+
+
+

Exercise: Sphinx quickstart

+
+

Sphinx-1: Generate the basic documentation template

+

Create a directory for the example documentation, step into it, and inside +generate the basic documentation template:

+
$ mkdir doc-example
+$ cd doc-example
+$ sphinx-quickstart
+
+
+

The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release:

+
> Separate source and build directories (y/n) [n]: <hit enter>
+> Project name: <your project name>
+> Author name(s): <your name>
+> Project release []: 0.1
+> Project language [en]: <hit enter>
+
+
+

A couple of files and directories are created:

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

File/directory

Contents

conf.py

Documentation configuration file

index.rst

Main file in Sphinx

_build/

Directory where docs are built (you can decide the name)

_templates/

Your own HTML templates

_static/

Static files (images, styles, etc.) copied to output directory on build

Makefile

Makefile to build documentation using make

make.bat

Makefile to build documentation using make (Windows)

+

Makefile and make.bat (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly.

+

Let’s have a look at the index.rst file, which is the main file of your documentation:

+
.. myproject documentation master file, created by
+   sphinx-quickstart on Sat Sep 23 17:35:26 2023.
+   You can adapt this file completely to your liking, but it should at least
+   contain the root `toctree` directive.
+
+Welcome to myproject's documentation!
+=====================================
+
+.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+
+
+
    +

  • We will not use the Indices and tables section now, so remove it and everything below.

    • +

  • The top four lines, starting with .., are a comment.

    • +

  • The next lines are the table of contents. We can add content below:

    • +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+
+
+

Note that some-feature.md needs to be indented to align with :caption:.

+

We now need to tell Sphinx to use markdown files. To do this, we open +conf.py and replace the line:

+
extensions = []
+
+
+

with this line so that Sphinx can parse Markdown files:

+
extensions = ['myst_parser']
+
+
+

Let’s create the file some-feature.md (in Markdown format) which we have just listed in +index.rst (which uses reStructured Text format).

+
# Some feature
+
+## Subsection
+
+Exciting documentation in here.
+Let's make a list (empty surrounding lines required):
+
+- item 1
+
+  - nested item 1
+  - nested item 2
+
+- item 2
+- item 3
+
+
+

We now build the site:

+
$ ls -1
+
+_static
+_templates
+conf.py
+index.rst
+make.bat
+Makefile
+some-feature.md
+
+$ sphinx-build . _build
+
+... lots of output ...
+build succeeded.
+
+The HTML pages are in _build.
+
+$ ls -1 _build
+
+_sources
+_static
+genindex.html
+index.html
+objects.inv
+search.html
+searchindex.js
+some-feature.html
+
+
+

Now open the file _build/index.html in your browser.

+
    +

  • Linux users, type:

    +
    $ xdg-open _build/index.html
+
    +
    +
    • +

  • macOS users, type:

    +
    $ open _build/index.html
+
    +
    +
    • +

  • Windows users, type:

    +
    $ start _build/index.html
+
    +
    +
    • +

  • If the above does not work: +Enter file:///home/user/doc-example/_build/index.html in your browser (adapting the path to your case).

    • +
+

Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere.

+

Note that you can change the styling by editing conf.py and changing the value html_theme +(for instance you can set it to sphinx_rtd_theme (if you have that Python package installed) +to have the Read the Docs look).

+
+
+
+

Exercise: Adding more Sphinx content

+
+

Sphinx-2: Add more content to your example documentation

+
    +

  1. Add a entry below some-feature.md labeled another-feature.md (or a better name) to the index.rst file.

    2. +

  2. Create a file another-feature.md in the same directory as the index.rst file.

    3. +

  3. Add some content to another-feature.md, rebuild with sphinx-build . _build, and refresh the browser to look at the results.

    4. +

  4. Use the MyST Typography page as help.

    5. +
+

Experiment with the following Markdown syntax:

+
    +

  • *Emphasized text* and **bold text**

    • +

  • Headings:

    • +
+
# Level 1
+
+## Level 2
+
+### Level 3
+
+#### Level 4
+
+
+
    +

  • An image: ![alt text](image.png)

    • +

  • [A link](https://www.example.org)

    • +

  • Numbered lists (numbers adjusted automatically):

    • +
+
1. item 1
+2. item 2
+3. item 3
+1. item 4
+1. item 5
+
+
+
    +

  • Simple tables:

    • +
+
| No.  |  Prime |
+| ---- | ------ |
+| 1    |  No    |
+| 2    |  Yes   |
+| 3    |  Yes   |
+| 4    |  No    |
+
+
+
    +

  • Code blocks:

    • +
+
The following is a Python code block:
+```python
+  def hello():
+      print("Hello world")
+```
+
+And this is a C code block:
+```c
+#include <stdio.h>
+int main()
+{
+    printf("Hello, World!");
+    return 0;
+}
+```
+
+
+
    +

  • You could include an external file (here we assume a file called “example.py” +exists; at the same time we highlight lines 2 and 3):

    • +
+
```{literalinclude} example.py
+:language: python
+:emphasize-lines: 2-3
+```
+
+
+
    +

  • We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the +myst-nb extension to be installed.

    • +
+
+
+
+

Exercise: Sphinx and LaTeX

+
+

Sphinx-3: Rendering (LaTeX) math equations

+

Math equations should work out of the box. In some older versions, you might need +to edit conf.py and add sphinx.ext.mathjax:

+
extensions = ['myst_parser', 'sphinx.ext.mathjax']
+
+
+

Try this (result below):

+
This creates an equation:
+```{math}
+a^2 + b^2 = c^2
+```
+
+This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text.
+
+
+

This creates an equation:

+
+\[a^2 + b^2 = c^2\]
+

This is an in-line equation, \(a^2 + b^2 = c^2\), embedded in text.

+
+
+
+

Exercise: Sphinx autodoc

+
+

(optional) Sphinx-4: Auto-generating documentation from Python docstrings

+
    +

  1. Write some docstrings in functions and/or class definitions of an example python module:

    2. +
+
def multiply(a: float, b: float) -> float:
+    """
+    Multiply two numbers.
+
+    :param a: First number.
+    :param b: Second number.
+    :return: The product of a and b.
+    """
+    return a * b
+
+
+
    +

  1. In the file conf.py modify “extensions” and add 3 lines:

    2. +
+
extensions = ['myst_parser', "sphinx.ext.autodoc"]
+
+autodoc2_packages = [
+    "multiply.py"
+]
+
+
+
    +

  1. List apidocs/index in the toctree in index.rst.

    2. +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+   apidocs/index
+
+
+
    +

  1. Re-build the documentation and check the “API reference” section.

    2. +
+
+
+
+

Confused about reStructuredText vs. Markdown vs. MyST?

+
    +

  • At the beginning there was reStructuredText and Sphinx was built for reStructuredText.

    • +

  • Independently, Markdown was invented and evolved into a couple of flavors.

    • +

  • Markdown became more and more popular but was limited compared to reStructuredText.

    • +

  • Later, MyST +was invented to be able to write +something that looks like Markdown but in addition can do everything that +reStructuredText can do with extra directives.

    • +
+
+
+

Good to know

+
    +

  • The _build directory is a generated directory +and should not be part of the Git repository. We recommend to add _build +to .gitignore to prevent you from accidentally adding files below +_build to the Git repository.

    • +

  • sphinx-autobuild +provides a local web server that will automatically refresh your view +every time you save a file - which makes writing and testing much easier.

    • +

  • This is useful if you want to check the integrity of all internal and external links:

    +
    $ sphinx-build . -W -b linkcheck _build
+
    +
    +
    • +
+
+
+

References

+ +
+

Keypoints

+
    +

  • Sphinx and Markdown is a powerful duo for writing documentation.

    • +

  • Another option is to use reStructuredText, see the Sphinx documentation +and the quick-reference

    • +

  • In the next episode we will learn how to deploy the documentation to a cloud service and update it +upon every git push.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/summary/index.html b/branch/main/summary/index.html new file mode 100644 index 0000000..c4adac1 --- /dev/null +++ b/branch/main/summary/index.html @@ -0,0 +1,193 @@ + + + + + + + Summary — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Summary

+
+

Questions

+
    +

  • What recommendations can we take home?

    • +
+
+
+
+

There is not the one right way: it is always a balance

+

Jupyter notebooks can be good documentation for scripts

+
    +

  • For simple scripts and post-processing, Jupyter notebooks can form a nice +self-documenting pipeline.

    • +

  • They can be a nice way to accompany a paper that analyzed some data.

    • +
+

READMEs or Sphinx?

+
    +

  • For smaller projects READMEs can be absolutely enough.

    • +

  • If the code is closed-source (and hence nobody can see the README), you +probably prefer Sphinx (or similar).

    • +

  • If you need math equations, Sphinx might be a good fit.

    • +
+

How to make sure that code changes come together with documentation changes?

+
    +

  • Make documentation part of your code review.

    • +
+

Read the Docs or GitHub pages or both?

+
    +

  • GitHub pages typically serves one version (one branch). However, it is possible to build +several or all branches as part of a workflow.

    • +

  • Read the Docs can serve several versions (several branches/tags) at the same time.

    • +

  • Some projects use both.

    • +
+

Consider making your development tutorial-driven

+
    +

  • Writing documentation is as important as writing software.

    • +

  • Focus on how you use the software.

    • +

  • If there is no tutorial on it, the feature “doesn’t exist”.

    • +

  • Don’t keep tutorial in sync with code, keep code in sync with tutorial - change the tutorial first.

    • +

  • Read more in this fantastic slide-deck about tutorial-driven development.

    • +
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/tools/index.html b/branch/main/tools/index.html new file mode 100644 index 0000000..8317c08 --- /dev/null +++ b/branch/main/tools/index.html @@ -0,0 +1,370 @@ + + + + + + + Popular tools and solutions — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ + + + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/wishlist/index.html b/branch/main/wishlist/index.html new file mode 100644 index 0000000..0318550 --- /dev/null +++ b/branch/main/wishlist/index.html @@ -0,0 +1,292 @@ + + + + + + + Motivation and wishlist — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Motivation and wishlist

+
+

Motivation

+
+

Motivation-1: Why documenting code?

+

Use the collaborative document:

+
    +

  • Is project documentation important? Why?

    • +

  • How would you describe a useful documentation?

    • +

  • How can you motivate your colleagues to contribute to the documentation?

    • +
+
+ +
+
+

What do we expect from a suitably good documentation?

+
+

Note

+

Documentation comes in different forms - what is documentation?

+
    +

  • Tutorials: learning-oriented, allows the newcomer to get started

    • +

  • How-to guides: goal-oriented, shows how to solve a specific problem

    • +

  • Explanation: understanding-oriented, explains a concept

    • +

  • Reference: information-oriented, describes the machinery

    • +
+

Read more:

+ +
+

There is no one size fits all: often for small projects a README.md or +README.rst can be enough (more about these formats later).

+
+
+

Creating a checklist

+
+

Motivation-2: Create a wishlist

+

Use the collaborative document:

+
    +

  • Let us create a wishlist for how we would like documentation to be.

    • +

  • Below are some of our ideas but please do not look at them yet.

    • +

  • We are sure you will come up with ideas we did not think about.

    • +
+
+ +
+

Documentation checklist

+

Which items to include depends on the number of users apart from yourself.

+
    +

  • Purpose

    • +

  • Authors

    • +

  • License

    • +

  • Recommended citation

    • +

  • Copy-paste-able example to get started

    • +

  • Dependencies and their versions or version ranges

    • +

  • Installation instructions

    • +

  • Tutorials covering key functionality

    • +

  • Reference documentation (e.g. API) covering all functionality

    • +

  • How do you want to be asked questions (mailing list or forum or chat or issue tracker)

    • +

  • Possibly a FAQ section

    • +

  • Contribution guide

    • +
+
+
+

Keypoints

+
    +

  • Documentation is part of the code and should be versionable.

    • +

  • Documentation (sources) should be tracked with the corresponding code in the same repository.

    • +

  • Use standard markup languages such as reStructuredText or Markdown.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/main/writing-readme-files/index.html b/branch/main/writing-readme-files/index.html new file mode 100644 index 0000000..e7ded2c --- /dev/null +++ b/branch/main/writing-readme-files/index.html @@ -0,0 +1,260 @@ + + + + + + + Writing good README files — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Writing good README files

+

The README file (often README.md or README.rst) is usually the first thing +users/collaborators see when visiting your GitHub repository.

+

Use it to communicate important information about your project! For many +smaller or mid-size projects, this is enough documentation. It’s not that hard +to make a basic one, and it’s easy to expand as needed.

+
+

Exercise: Have fun testing some README features

+
+

Exercise README-1: Have fun testing some README features you may not have heard about

+
    +

  • Test the effect of adding the following to your GitHub README (read +more):

    +
    > [!NOTE]
+> Highlights information that users should take into account, even when skimming.
+
+> [!IMPORTANT]
+> Crucial information necessary for users to succeed.
+
+> [!WARNING]
+> Critical content demanding immediate user attention due to potential risks.
+
    +
    +
    • +

  • For more detailed descriptions which you don’t want to show by default you +might find this useful (please try it out):

    +
    <details>
+<summary>
+Short summary
+</summary>
+
+Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod
+tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam,
+quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo
+consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse
+cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non
+proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+</details>
+
    +
    +
    • +

  • Would you like to add a badge like this one: please replace with alt text?

    +

    Badge that links to a website (see also https://shields.io/):

    +
    [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)
+
    +
    +

    Badge without link:

    +
    ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)
+
    +
    +
    • +

  • Know about other tips and tricks? Please share them (send a pull request to this lesson).

    • +
+
+
+
+

Exercise: Improve the README for your own project

+
+

Exercise README-2: Draft or improve a README for one of your recent projects

+

Try to draft a brief README or review a README which you have written for one +of your projects.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • Use the checklist which we have discussed earlier.

    • +

  • Think about the user (which can be a future you) of your project, what does this user need to know to use or +contribute to the project? And how do you make your project attractive to use or contribute to?

    • +

  • (Optional): Try the https://hemingwayapp.com/ to analyse your README file and make your writing bold and clear.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Exercise: Discuss the README of a project that you use

+
+

Exercise README-3: Review and discuss a README of a project that you have used

+

In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • When discussing other people’s projects please remember to be respectful and +constructive. The goal of this exercise is not to criticize other projects but +to learn from other projects and to collect the aspects that you enjoyed +finding in a README and to also collect aspects which you have searched for but +which are sometimes missing.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Table of contents in README files

+
    +

  • GitHub automatically generates a table of contents for README.md files.

    • +

  • On GitLab you can generate a TOC in Markdown with:

    +
    [[_TOC_]]
+
    +
    +
    • +

  • With RST you can generate a table of contents (TOC) automatically by adding:

    +
    .. contents:: Table of Contents
+
    +
    +
    • +
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/_sources/exercises.md.txt b/branch/rantahar-autodoc-to-md/_sources/exercises.md.txt new file mode 100644 index 0000000..61028b9 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/exercises.md.txt @@ -0,0 +1,12 @@ +# List of exercises + +## Full list + +This is a list of all exercises and solutions in this lesson, mainly +as a reference for helpers and instructors. This list is +automatically generated from all of the other pages in the lesson. +Any single teaching event will probably cover only a subset of these, +depending on their interests. + +```{exerciselist} +``` diff --git a/branch/rantahar-autodoc-to-md/_sources/gh-pages.md.txt b/branch/rantahar-autodoc-to-md/_sources/gh-pages.md.txt new file mode 100644 index 0000000..ee4e51c --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/gh-pages.md.txt @@ -0,0 +1,62 @@ +(gh-pages)= + +# Hosting websites/homepages on GitHub Pages + + +## Often we don't need more than a static website + +You can host your personal homepage or group webpage or project website on +GitHub using [GitHub Pages](https://pages.github.com/). +[GitLab](https://about.gitlab.com/features/pages/) and +[Bitbucket](https://confluence.atlassian.com/bitbucket/publishing-a-website-on-bitbucket-cloud-221449776.html) +also offer a very similar solution. + +Unless you need user authentication or a sophisticated database behind your +website, [GitHub Pages](https://pages.github.com/) can be a very nice +alternative to running your own web servers. This is how all +[https://coderefinery.org](https://coderefinery.org) material is hosted. + + +## How to find the website URL + +Here below, NAMESPACE can either be a username or an organizational account. + +**Personal homepage or organizational homepage** +- Generated URL: https://**NAMESPACE**.github.io +- Generated from: https://github.com/**NAMESPACE**/**NAMESPACE**.github.io (main branch) + +**Project website** +- Generated URL: https://**NAMESPACE**.github.io/**REPOSITORY** +- Generated from: https://github.com/**NAMESPACE**/**REPOSITORY** (gh-pages branch) + + +## Exercise - Your own website on GitHub Pages + +```{exercise} GH-Pages-2: Host your own github page +- Deploy own website reusing a template: + - Follow the steps from GitHub Pages . + The documentation there is very good so there is no need for us to duplicate the screenshots. + - Select "Project site". + - Select "Choose a theme". + - Follow the instructions on . + - Browse your page on https://**USERNAME**.github.io/**REPOSITORY** (adjust "USERNAME" and "REPOSITORY"). +- Make a change to the repository after the webpage has been deployed for the first time. +- Please wait few minutes and then verify that the change shows up on the website. +``` + +```{callout} Real-life examples +- CodeRefinery website (built using [Zola](https://www.getzola.org/)) + - [Source](https://raw.githubusercontent.com/coderefinery/coderefinery.org/main/content/lessons/core.md) + - Result: +- This lesson (built using [Sphinx](https://www.sphinx-doc.org/) + and [MyST](https://myst-parser.readthedocs.io/) + and [sphinx-lesson](https://coderefinery.github.io/sphinx-lesson/)) + - [Source](https://raw.githubusercontent.com/coderefinery/documentation/main/content/gh-pages.md) + - Result: this page +``` + +```{note} +- You can use HTML directly or another static site generator if you prefer + to not use the default [Jekyll](https://jekyllrb.com/). +- It is no problem to use a custom domain instead of `*.github.io`. +``` diff --git a/branch/rantahar-autodoc-to-md/_sources/gh_workflow.md.txt b/branch/rantahar-autodoc-to-md/_sources/gh_workflow.md.txt new file mode 100644 index 0000000..90bc2c4 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/gh_workflow.md.txt @@ -0,0 +1,129 @@ +# Deploying Sphinx documentation to GitHub Pages + +```{objectives} +- Create a basic workflow which you can take home and adapt for your project. +``` + +## [GitHub Pages](https://pages.github.com/) + +- Serve websites from a GitHub repository. +- It is no problem to serve using your own URL `https://myproject.org` instead of `https://myuser.github.io/myproject`. + + +## [GitHub Actions](https://github.com/features/actions/) + +- Automatically runs code when your repository changes. +- We will let it run `sphinx-build` and make the result available to GitHub Pages. + + +## Our goal: putting it all together + +- Host source code with documentation sources on a public Git repository. +- Each time we `git push` to the repository, a GitHub action triggers to + rebuild the documentation. +- The documentation is pushed to a separate branch called 'gh-pages'. + +--- + +## Exercise - Deploy Sphinx documentation to GitHub Pages + +````{exercise} GH-Pages-1: Deploy Sphinx documentation to GitHub Pages +In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages. + +**Step 1**: Go to the [documentation-example](https://github.com/coderefinery/documentation-example/generate) project template +on GitHub and create a copy to your namespace. +- Give it a name, for instance "documentation-example". +- You don't need to "Include all branches" +- Click on "Create a repository". + +**Step 2**: Browse the new repository. +- It will look very familar to the previous episode. +- However, we have moved the documentation part under `doc/` (many projects do it this + way). But it is still a Sphinx documentation project. +- The source code for your project could then go under `src/`. + + +**Step 3**: Add the GitHub Action to your new Git repository. +- Add a new file at `.github/workflows/documentation.yml` (either through terminal or web interface), containing: +```yaml +name: documentation + +on: [push, pull_request, workflow_dispatch] + +permissions: + contents: write + +jobs: + docs: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v4 + - uses: actions/setup-python@v5 + - name: Install dependencies + run: | + pip install sphinx sphinx_rtd_theme myst_parser + - name: Sphinx build + run: | + sphinx-build doc _build + - name: Deploy to GitHub Pages + uses: peaceiris/actions-gh-pages@v3 + if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }} + with: + publish_branch: gh-pages + github_token: ${{ secrets.GITHUB_TOKEN }} + publish_dir: _build/ + force_orphan: true +``` +- You don't need to understand all of the above, but you + might spot familiar commands in the `run:` sections. +- After the file has been committed (and pushed), + check the action at `https://github.com/USER/documentation-example/actions` + (replace `USER` with your GitHub username). + +**Step 4**: Enable GitHub Pages +- On GitHub go to "Settings" -> "Pages". +- In the "Source" section, choose "Deploy from a branch" in the dropdown menu. +- In the "Branch" section choose "gh-pages" and "/root" in the dropdown menus and click + save. +- You should now be able to verify the pages deployment in the Actions list). + +**Step 5**: Verify the result +- Your site should now be live on `https://USER.github.io/documentation-example/` (replace USER). + +**Step 6**: Verify refreshing the documentation +- Commit some changes to your documentation +- Verify that the documentation website refreshes after your changes (can take few seconds or a minute) +```` + + +## Alternatives to GitHub Pages + +- [GitLab Pages](https://docs.gitlab.com/ee/user/project/pages/) + and [GitLab CI](https://docs.gitlab.com/ee/ci/) can create a very similar workflow. + +- [Read the Docs](https://readthedocs.org) is the most common alternative to + hosting in GitHub Pages. + +- Sphinx builds HTML files (this is what static site generators do), and you + can host them anywhere, for example your university's web space or own web server. + + +## Migrating your own documentation to Sphinx + +- First convert your documentation to Markdown using [Pandoc](https://pandoc.org). +- Create a file `index.rst` which lists all other Markdown files and provides the + table of contents. +- Add a `conf.py` file. You can generate a starting point for `conf.py` and + `index.rst` with `sphinx-quickstart`, or you can take the examples in this + lesson as inspiration. +- Test building the documentation locally with `sphinx-build`. +- Once this works, follow the above steps to build and deploy to GitHub Pages or some other web space. + +--- + +```{keypoints} +- Sphinx makes simple HTML (and more) files, so it is easy to find a place to host them. +- Github Pages + Github Actions provides a convenient way to make + sites and host them on the web. +``` diff --git a/branch/rantahar-autodoc-to-md/_sources/guide.md.txt b/branch/rantahar-autodoc-to-md/_sources/guide.md.txt new file mode 100644 index 0000000..2334e18 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/guide.md.txt @@ -0,0 +1,125 @@ +# Instructor guide + + +## Why we teach this lesson + +Everyone should document their code, even if they're working alone. + +These are the main points: +- Code documentation has to be versionnable and branchable +- Code documentation should be tracked together with the source code +- README is often enough + +**Please do not skim over the two above points**. Please take few minutes to +explain why documentation (sources) should be tracked together with the source +code. Please discuss this aspect with workshop participants and connect it to +**reproducibility**. This is for me (Radovan) the most important take-home +message. + +Specific motivations: + +- Code documentation becomes quickly unmanageable if not part of the source code. +- It helps people to quickly use your code thus reducing the time spent to explain over and again to new users. +- It helps people to collaborate. +- It improves the design of your code. + + +## Intended learning outcomes + +By the end of this lesson, learners should: +- Understand the importance of writing code documentation together with the source code +- Know what makes a good documentation +- Learn what tools can be used for writing documentation +- Be able to motivate a balanced decision: sometimes READMEs are absolutely enough + + +## Timing + +As an instructor you should prepare all bullet points but do not go through +each bullet point in detail. Only highlight the main points and rather give +time for a discussion. Leave details for a later lecture for those who want to +find out more. If you go through each bullet point in detail, the motivation +can easily take up 30 minutes and you will run out of time. + +The lesson does not fit into 1.5 hours if you go through everything. Optimize +for discussions and prepare well to be able to jump over bullet points which +can be left for a later lecture. Some sections can be skipped if needed (see +below). However, we recommend to have a discussion with your learners to make +them aware of what the training material contains. + +- Do not insist on practicing Markdown or RST syntax. +- The section *Rendering (LaTeX) math equations* may be optional if your + attendees do not have to deal with equations. +- In the GitHub Pages episode, the + goal is not anymore to write code documentation but to show how to build + project website with GitHub. If time is tight, the GitHub pages episode can be + skipped or can be done as demonstration instead of exercise. + + +## Detailed schedule + +- 09:00 - 09:10 Motivation and tools + - create a wishlist in collaborative notes +- 09:10 - 09:20 Writing good README files + - brief discussion +- 09:20 - 09:40 **Exercises**: README-1, README-2, README-3 (choose one or multiple) +- 09:40 - 10:00 Sphinx and Markdown: Sphinx-1 as type along + +- 10:00 - 10:10 Break + +- 10:10 - 10:40 **Exercises**, Sphinx-2, Sphinx-3, GH-Pages-1 +- 10:40 - 11:00 Discussion, GH Pages, Summary + + +## Place this lesson towards the end of the workshop + +Reason is that with collaborative Git we can create more interesting +documentation exercises. Currently there are some elements of forking and +pushing and this is only really introduced on day two. We have tried this +lesson on day one and it felt too early and disconnected/abrupt. It works best +after the reproducibility lesson since we then reuse the example and it feels +familiar. + + +## Troubleshooting + +### Character encoding issues + +Can arise when using non-utf8 characters in `conf.py`. Diagnose this with `file -i conf.py` +and `locale`. + + +## Live better than reading the website material + +It is better to demonstrate the commands live and type-along. Ideally connecting +to examples discussed earlier. + +In online workshops most of the type-along becomes group exercise work where groups +can share screen and discuss. + + +## Field reports + +### 2022 September + +We were pressed for time (we started 5-10 minutes late, relative to +the schedule below), so we made most of the first lessons fast. In +the schedule below, note that we had the first 10 minutes for +"Motivation" *and* "Popular tools", which we didn't fully realize so +that put us even further behind. Doing these introduction +parts quickly was hard but was probably worth it since we had plenty +of time in the end. For the "tools", one person summarized the point +of each section on the page quickly. The README episode was done +quickly, we basically skipped the exercises to get to Sphinx, and this +put us back on schedule. + +For Sphinx, we did it a lot like you see in the schedule: first +exercise (the basic setup) was type-along, but it was a bit too much +to do in the 10 minutes we had allotted (we typed too fast). But, +people then had a nice long time to make it up and do everything. It +seemed to work well. The GitHub pages deployment could then be done +as a nice, slow demo, and we had plenty of time to ask questions. + +Overall, I think this was the right track, but we could have practiced +doing the first parts even faster, and warned people that we focus on +the Sphinx exercises. diff --git a/branch/rantahar-autodoc-to-md/_sources/in-code-documentation.md.txt b/branch/rantahar-autodoc-to-md/_sources/in-code-documentation.md.txt new file mode 100644 index 0000000..44274ad --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/in-code-documentation.md.txt @@ -0,0 +1,184 @@ +(in-code-documentation)= + +# In-code documentation + +```{questions} +- What can I do to make my code more easily understandable? +- What information should go into comments? +- What are docstrings and what information should go into docstrings? +``` + +In this episode we will learn how to write good documentation inside your code. + + +## Exercise - Writing good comments + +````{exercise} In-code-1: Comments + Let's take a look at two example comments (comments in Python start with `#`): + + **Comment A** + ```python + # now we check if temperature is below -50 + if temperature < -50: + print("ERROR: temperature is too low") + ``` + + **Comment B** + ```python + # we regard temperatures below -50 degrees as measurement errors + if temperature < -50: + print("ERROR: temperature is too low") + ``` + Which of these comments is more useful? Can you explain why? + + ```{solution} Solution + - Comment A describes **what** happens in this piece of code. This can be + useful for somebody who has never seen Python or a program, but for somebody + who has, it can feel like a redundant commentary. + + - Comment B is probably more useful as it describes **why** this piece of code + is there, i.e. its **purpose**. + ``` +```` + + +## Sometimes version control is better than a comment + +````{admonition} Examples for code comments where Git is a better solution + **Keeping zombie code** "just in case" (rather use version control): + ```python + # do not run this code! + # if temperature > 0: + # print("It is warm") + ``` + Instead: Remove the code, you can always find it back in a previous version of your code in Git. + + **Emulating version control**: + ```python + # John Doe: threshold changed from 0 to 15 on August 5, 2013 + if temperature > 15: + print("It is warm") + ``` + Instead: You can get this information from `git log` or `git show` or `git + annotate` or similar. +```` + + +## What are "docstrings" and how can they be useful? + +Here is function `fahrenheit_to_celsius` which converts temperature in +Fahrenheit to Celsius, implemented in a couple of different languages. +Your language is missing? Please contribute an example. + +The first set of examples uses **regular comments**: +````{tabs} + ```{group-tab} Python + ```{literalinclude} code/fahrenheit_to_celsius.py + :language: python + ``` + ``` + + ```{group-tab} R + ```{literalinclude} code/fahrenheit_to_celsius.R + :language: R + ``` + ``` + + ```{group-tab} Julia + ```{literalinclude} code/fahrenheit_to_celsius.jl + :language: Julia + ``` + ``` + + ```{group-tab} Fortran + ```{literalinclude} code/fahrenheit_to_celsius.f90 + :language: fortran + ``` + ``` + + ```{group-tab} C++ + ```{literalinclude} code/fahrenheit_to_celsius.cpp + :language: C++ + ``` + ``` + + ```{group-tab} Rust + ```{literalinclude} code/fahrenheit_to_celsius.rs + :language: rust + ``` + ``` +```` + +The second set uses **docstrings or similar concepts**. Please compare the two +(above and below): +````{tabs} + ```{group-tab} Python + ```{literalinclude} code/fahrenheit_to_celsius_docstring.py + :language: python + ``` + Read more: + ``` + + ```{group-tab} R + ```{literalinclude} code/fahrenheit_to_celsius_docstring.R + :language: R + ``` + Read more: + ``` + + ```{group-tab} Julia + ```{literalinclude} code/fahrenheit_to_celsius_docstring.jl + :language: Julia + ``` + Read more: + ``` + + ```{group-tab} Fortran + ```{literalinclude} code/fahrenheit_to_celsius_docstring.f90 + :language: fortran + ``` + Read more: + ``` + + ```{group-tab} C++ + ```{literalinclude} code/fahrenheit_to_celsius_docstring.cpp + :language: C++ + ``` + Read more: + ``` + + ```{group-tab} Rust + ```{literalinclude} code/fahrenheit_to_celsius_docstring.rs + :language: rust + ``` + Read more: + ``` +```` + +Docstrings can do a bit more than just comments: +- Tools can generate help text automatically from the docstrings. +- Tools can generate documentation pages automatically from code. + +It is common to write docstrings for functions, classes, and modules. + +Good docstrings describe: +- What the function does +- What goes in (including the type of the input variables) +- What goes out (including the return type) + +**Naming is documentation**: +Giving explicit, descriptive names to your code segments (functions, classes, +variables) already provides very useful and important documentation. In +practice you will find that for simple functions it is unnecessary to add a +docstring when the function name and variable names already give enough +information. + +--- + +```{keypoints} +- Comments should describe the why for your code not the what. +- Writing docstrings can be a good way to write documentation while you type + code since it also makes it possible + to query that information from outside the code or to auto-generate + documentation pages. +``` diff --git a/branch/rantahar-autodoc-to-md/_sources/index.md.txt b/branch/rantahar-autodoc-to-md/_sources/index.md.txt new file mode 100644 index 0000000..916977a --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/index.md.txt @@ -0,0 +1,77 @@ +# How to document your research software + +In this lesson we will discuss different solutions for implementing and +deploying code documentation. + +We will start with a discussion about **what makes a good README**. For many +projects, a README is more than enough. + +We will then learn how to build documentation with the +**documentation generator** [Sphinx](https://www.sphinx-doc.org) (and compare it +with others) and how to +deploy it to [Read the Docs](https://readthedocs.org), a service which hosts +open documentation for free. + +This demonstration will be **independent of programming languages**. + +We will also learn how +to deploy a **project website or personal homepage** to [GitHub Pages](https://pages.github.com). +The approach that we will learn will be transferable to +[GitLab Pages](https://about.gitlab.com/features/pages/) and +[Bitbucket Pages](https://pages.bitbucket.io). + +```{prereq} +1. Basic understanding of Git. + +2. For the Sphinx part, You need to have + [sphinx](https://www.sphinx-doc.org) and [sphinx_rtd_theme](https://sphinx-rtd-theme.readthedocs.io/) installed + (they are part of the [coderefinery environment](https://coderefinery.github.io/installation/conda-environment/)). + +3. For the [GitHub Pages](https://pages.github.com) part you need a [GitHub](https://github.com) account. +``` + +```{csv-table} +:widths: auto +:delim: ; + +10 min ; {doc}`wishlist` +10 min ; {doc}`tools` +20 min ; {doc}`in-code-documentation` +30 min ; {doc}`writing-readme-files` +30 min ; {doc}`sphinx` +20 min ; {doc}`gh_workflow` +20 min ; {doc}`gh-pages` +5 min ; {doc}`summary` +``` + +```{toctree} +:maxdepth: 1 +:caption: The lesson + +wishlist.md +tools.md +in-code-documentation.md +writing-readme-files.md +sphinx.md +gh_workflow.md +gh-pages.md +summary.md +``` + +```{toctree} +:maxdepth: 1 +:caption: Reference + +exercises.md +guide.md +license.md +``` + +```{toctree} +:maxdepth: 1 +:caption: About + +All lessons +CodeRefinery +Reusing +``` diff --git a/branch/rantahar-autodoc-to-md/_sources/license.md.txt b/branch/rantahar-autodoc-to-md/_sources/license.md.txt new file mode 100644 index 0000000..d261f28 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/license.md.txt @@ -0,0 +1,45 @@ +# Credit and license + +This material is provided by CodeRefinery under the licenses stated below. + + +## Website template + +The website template is maintained by [CodeRefinery](https://coderefinery.org/) +and rendered with [sphinx-lesson: structured lessons with Sphinx](https://coderefinery.github.io/sphinx-lesson/). + + +## Instructional material + +All CodeRefinery instructional material is made available under the +[Creative Commons Attribution license (CC-BY-4.0)](https://creativecommons.org/licenses/by/4.0/). +The following is a human-readable summary of (and not a substitute for) +the [full legal text of the CC-BY-4.0 license](https://creativecommons.org/licenses/by/4.0/legalcode). + +You are free: + +- to **Share** - copy and redistribute the material in any medium or format +- to **Adapt** - remix, transform, and build upon the material + +for any purpose, even commercially. The licensor cannot revoke these freedoms as long as you follow these license terms: + +- **Attribution** - You must give appropriate credit + (mentioning that your work is derived from work that is Copyright + (c) CodeRefinery and, where practical, linking to + , provide + a [link to the license](https://creativecommons.org/licenses/by/4.0/), + and indicate if changes were made. You may do so in any + reasonable manner, but not in any way that suggests the licensor + endorses you or your use. + +**No additional restrictions** - You may not apply legal terms or technological +measures that legally restrict others from doing anything the license permits. +With the understanding that: + +- You do not have to comply with the license for elements of the material in + the public domain or where your use is permitted by an applicable exception + or limitation. +- No warranties are given. The license may not give you all of the + permissions necessary for your intended use. For example, other + rights such as publicity, privacy, or moral rights may limit how + you use the material. diff --git a/branch/rantahar-autodoc-to-md/_sources/sphinx.md.txt b/branch/rantahar-autodoc-to-md/_sources/sphinx.md.txt new file mode 100644 index 0000000..f426242 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/sphinx.md.txt @@ -0,0 +1,427 @@ +(sphinx)= + +# Sphinx and Markdown + +```{objectives} +- Understand how static site generators build websites out of plain + text files. +- Create example Sphinx documentation and learn some Markdown along the way. +``` + +We will take the first steps in creating documentation using Sphinx, and learn some +MyST flavored Markdown syntax along the way. + +```{discussion} This lesson is built with Sphinx +Try to compare the [source +code](https://raw.githubusercontent.com/coderefinery/documentation/main/content/sphinx.md) +and the result side by side. +``` + +Our goal in this episode is to build HTML pages locally on our computers. + +````{prereq} Before we start, let us verify whether we have the software we need + + You may need to activate your CodeRefinery conda environment we set up + in the installation instructions. This was covered as part of the + installation instructions, but the most usual command to do this is: + ```console + $ conda activate coderefinery + ``` + + Check whether Python is available + (you should see a version; precise version is not so important): + ```console + $ python --version + + Python 3.11.5 + ``` + + Check whether Sphinx is available + (you should see a version; precise version is not so important): + ```console + $ sphinx-build --version + + sphinx-build 5.3.0 + ``` + + Check whether the quickstart tool is available + (you should see a version; precise version is not so important): + ```console + $ sphinx-quickstart --version + + sphinx-quickstart 5.3.0 + ``` + + Check whether MyST parser is available + (you should see no output): + ```console + $ python -c "import myst_parser" + ``` + +If the above commands produce an error +(**command not found** or **module not found** or **ModuleNotFoundError**), +please follow our +[installation instructions](https://coderefinery.github.io/installation/conda-environment/). +But please don't give up if you don't have these - the episodes after this one will work even without these +tools. +```` + + +## Exercise: Sphinx quickstart + +````{exercise} Sphinx-1: Generate the basic documentation template + +Create a directory for the example documentation, step into it, and inside +generate the basic documentation template: + +```console +$ mkdir doc-example +$ cd doc-example +$ sphinx-quickstart +``` + +The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release: + +``` +> Separate source and build directories (y/n) [n]: +> Project name: +> Author name(s): +> Project release []: 0.1 +> Project language [en]: +``` + +A couple of files and directories are created: + +| File/directory | Contents | +| -------------- | -------- | +| conf.py | Documentation configuration file | +| index.rst | Main file in Sphinx | +| _build/ | Directory where docs are built (you can decide the name) | +| _templates/ | Your own HTML templates | +| _static/ | Static files (images, styles, etc.) copied to output directory on build | +| Makefile | Makefile to build documentation using make | +| make.bat | Makefile to build documentation using make (Windows) | + +`Makefile` and `make.bat` (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly. + +Let's have a look at the `index.rst` file, which is the main file of your documentation: + +```rst +.. myproject documentation master file, created by + sphinx-quickstart on Sat Sep 23 17:35:26 2023. + You can adapt this file completely to your liking, but it should at least + contain the root `toctree` directive. + +Welcome to myproject's documentation! +===================================== + +.. toctree:: + :maxdepth: 2 + :caption: Contents: + + +Indices and tables +================== + +* :ref:`genindex` +* :ref:`modindex` +* :ref:`search` +``` + +- We will not use the `Indices and tables` section now, so remove it and everything below. +- The top four lines, starting with `..`, are a comment. +- The next lines are the table of contents. We can add content below: + +```rst +.. toctree:: + :maxdepth: 2 + :caption: Contents: + + some-feature.md +``` +Note that `some-feature.md` needs to be indented to align with `:caption:`. + +We now need to tell Sphinx to use markdown files. To do this, we open +`conf.py` and replace the line: +```python +extensions = [] +``` + +with this line so that Sphinx can parse Markdown files: +```python +extensions = ['myst_parser'] +``` + +Let's create the file `some-feature.md` (in Markdown format) which we have just listed in +`index.rst` (which uses reStructured Text format). + +```md +# Some feature + +## Subsection + +Exciting documentation in here. +Let's make a list (empty surrounding lines required): + +- item 1 + + - nested item 1 + - nested item 2 + +- item 2 +- item 3 +``` + +We now build the site: + +```console +$ ls -1 + +_static +_templates +conf.py +index.rst +make.bat +Makefile +some-feature.md + +$ sphinx-build . _build + +... lots of output ... +build succeeded. + +The HTML pages are in _build. + +$ ls -1 _build + +_sources +_static +genindex.html +index.html +objects.inv +search.html +searchindex.js +some-feature.html +``` + +Now open the file `_build/index.html` in your browser. +- Linux users, type: + ```console + $ xdg-open _build/index.html + ``` +- macOS users, type: + ```console + $ open _build/index.html + ``` +- Windows users, type: + ```console + $ start _build/index.html + ``` +- If the above does not work: + Enter `file:///home/user/doc-example/_build/index.html` in your browser (adapting the path to your case). + +Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere. + +Note that you can change the styling by editing `conf.py` and changing the value `html_theme` +(for instance you can set it to `sphinx_rtd_theme` (if you have that Python package installed) +to have the Read the Docs look). +```` + + +## Exercise: Adding more Sphinx content + +`````{exercise} Sphinx-2: Add more content to your example documentation + +1. Add a entry below `some-feature.md` labeled `another-feature.md` (or a better name) to the `index.rst` file. +2. Create a file `another-feature.md` in the same directory as the `index.rst` file. +3. Add some content to `another-feature.md`, rebuild with `sphinx-build . _build`, and refresh the browser to look at the results. +4. Use the [MyST Typography](https://myst-parser.readthedocs.io/en/latest/syntax/typography.html) page as help. + +Experiment with the following Markdown syntax: + +- \*Emphasized text\* and \*\*bold text\*\* + +- Headings: +```md +# Level 1 + +## Level 2 + +### Level 3 + +#### Level 4 +``` + +- An image: `![alt text](image.png)` + +- `[A link](https://www.example.org)` + +- Numbered lists (numbers adjusted automatically): +```md +1. item 1 +2. item 2 +3. item 3 +1. item 4 +1. item 5 +``` + +- Simple tables: +```md +| No. | Prime | +| ---- | ------ | +| 1 | No | +| 2 | Yes | +| 3 | Yes | +| 4 | No | +``` + +- Code blocks: +````markdown +The following is a Python code block: +```python + def hello(): + print("Hello world") +``` + +And this is a C code block: +```c +#include +int main() +{ + printf("Hello, World!"); + return 0; +} +``` +```` + +- You could include an external file (here we assume a file called "example.py" + exists; at the same time we highlight lines 2 and 3): +````markdown +```{literalinclude} example.py +:language: python +:emphasize-lines: 2-3 +``` +```` + +- We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the + [myst-nb](https://myst-nb.readthedocs.io/) extension to be installed. +````` + + +## Exercise: Sphinx and LaTeX + +`````{exercise} Sphinx-3: Rendering (LaTeX) math equations + +Math equations should work out of the box. In some older versions, you might need +to edit `conf.py` and add `sphinx.ext.mathjax`: +```python +extensions = ['myst_parser', 'sphinx.ext.mathjax'] +``` + +Try this (result below): +````markdown +This creates an equation: +```{math} +a^2 + b^2 = c^2 +``` + +This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text. +```` + +This creates an equation: +```{math} +a^2 + b^2 = c^2 +``` + +This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text. +````` + + +## Exercise: Sphinx autodoc + +`````{exercise} (optional) Sphinx-4: Auto-generating documentation from Python docstrings + +1. Write some docstrings in functions and/or class definitions of an `example` python module: +```python +def multiply(a: float, b: float) -> float: + """ + Multiply two numbers. + + :param a: First number. + :param b: Second number. + :return: The product of a and b. + """ + return a * b +``` + +2. Add a file `api.md` in the same folder as `index.rst`, with the following content: +````md +# API reference + +## example + +:::{automodule} example +:members: +::: +```` + +3. In the file `conf.py` add 3 lines and modify "extensions": +```python +# this is a trick to make sphinx find the modules in the parent directory +import os +import sys +sys.path.insert(0, os.path.abspath(".")) + +extensions = ['myst_parser', "sphinx.ext.autodoc"] +``` + +4. List the `api.md` file in `index.rst`. + +5. Re-build the documentation and check the "API reference" section. +````` + + +## Confused about reStructuredText vs. Markdown vs. MyST? + +- At the beginning there was reStructuredText and Sphinx was built for reStructuredText. +- Independently, Markdown was invented and evolved into a couple of flavors. +- Markdown became more and more popular but was limited compared to reStructuredText. +- Later, [MyST](https://myst-parser.readthedocs.io/en/latest/syntax/typography.html) + was invented to be able to write + something that looks like Markdown but in addition can do everything that + reStructuredText can do with extra directives. + + +## Good to know + +- The `_build` directory is a generated directory + and should not be part of the Git repository. We recommend to add `_build` + to `.gitignore` to prevent you from accidentally adding files below + `_build` to the Git repository. +- [sphinx-autobuild](https://pypi.org/project/sphinx-autobuild/) + provides a local web server that will automatically refresh your view + every time you save a file - which makes writing and testing much easier. +- This is useful if you want to check the integrity of all internal and external links: + ```console + $ sphinx-build . -W -b linkcheck _build + ``` + + +## References + +- [Sphinx documentation](https://www.sphinx-doc.org/) +- [Sphinx + ReadTheDocs guide](https://sphinx-rtd-tutorial.readthedocs.io/en/latest/index.html) +- For more Markdown functionality, see the [Markdown guide](https://www.markdownguide.org/basic-syntax/). +- For Sphinx additions, see [Sphinx Markup Constructs](https://www.sphinx-doc.org/en/master/markup/index.html). +- [https://docs.python-guide.org/writing/documentation/](https://docs.python-guide.org/writing/documentation/) + +```{keypoints} +- Sphinx and Markdown is a powerful duo for writing documentation. +- Another option is to use reStructuredText, see the [Sphinx documentation](https://www.sphinx-doc.org/en/stable/rest.html) + and the [quick-reference](https://docutils.sourceforge.net/docs/user/rst/quickref.html) +- In the next episode we will learn how to deploy the documentation to a cloud service and update it + upon every `git push`. +``` diff --git a/branch/rantahar-autodoc-to-md/_sources/summary.md.txt b/branch/rantahar-autodoc-to-md/_sources/summary.md.txt new file mode 100644 index 0000000..4428247 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/summary.md.txt @@ -0,0 +1,46 @@ +# Summary + +```{questions} +- What recommendations can we take home? +``` + +--- + +## There is not the one right way: it is always a balance + + +**Jupyter notebooks can be good documentation for scripts** + +- For simple scripts and post-processing, Jupyter notebooks can form a nice + self-documenting pipeline. +- They can be a nice way to accompany a paper that analyzed some data. + + +**READMEs or Sphinx?** + +- For smaller projects READMEs can be absolutely enough. +- If the code is closed-source (and hence nobody can see the README), you + probably prefer Sphinx (or similar). +- If you need math equations, Sphinx might be a good fit. + + +**How to make sure that code changes come together with documentation changes?** + +- Make documentation part of your code review. + + +**Read the Docs or GitHub pages or both?** + +- GitHub pages typically serves one version (one branch). However, it is possible to build + several or all branches as part of a workflow. +- Read the Docs can serve several versions (several branches/tags) at the same time. +- Some projects use both. + + +**Consider making your development tutorial-driven** + +- Writing documentation is as important as writing software. +- Focus on how you use the software. +- If there is no tutorial on it, the feature "doesn't exist". +- Don't keep tutorial in sync with code, keep code in sync with tutorial - change the tutorial first. +- Read more in this [fantastic slide-deck](https://virtual.oxfordabstracts.com/#/event/public/3101/submission/11) about tutorial-driven development. diff --git a/branch/rantahar-autodoc-to-md/_sources/tools.md.txt b/branch/rantahar-autodoc-to-md/_sources/tools.md.txt new file mode 100644 index 0000000..cff8afd --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/tools.md.txt @@ -0,0 +1,169 @@ +# Popular tools and solutions + +```{questions} +- What tools are out there? +- What are their pros and cons? +``` + +```{objectives} +- Choose the right tool for the right reason. +``` + +--- + +## In-code documentation + +- Comments, function docstrings, ... +- Advantages + - Good for programmers + - Version controlled alongside code + - Can be used to auto-generate documentation for functions/classes +- Disadvantage + - Probably not enough for users of the code + +We will have a closer look at this in the {ref}`in-code-documentation` episode. + +--- + +## README files + +- Advantages + - Versioned (goes with the code development) + - It is often good enough to have a `README.md` or `README.rst` along with your code/script +- If you use README files, use either + [RST](https://docutils.sourceforge.net/rst.html) or + [Markdown](https://commonmark.org/help/) +- A great guide to README files: [MakeaREADME](https://www.makeareadme.com/) + +We will have a closer look at this in the {ref}`writing-readme-files` episode. + +--- + +## reStructuredText and Markdown + +```markdown +# This is a section in Markdown This is a section in RST + ======================== + +## This is a subsection This is a subsection + -------------------- + +Nothing special needed for Nothing special needed for +a normal paragraph. a normal paragraph. + + :: + + This is a code block This is a code block + + +**Bold** and *emphasized*. **Bold** and *emphasized*. + +A list: A list: +- this is an item - this is an item +- another item - another item + +There is more: images, There is more: images, +tables, links, ... tables, links, ... +``` + +- Two of the most popular lightweight markup languages. +- reStructuredText (RST) has more features than Markdown but the choice is a matter of taste. +- There are (unfortunately) [many flavors of Markdown](https://github.com/jgm/CommonMark/wiki/Markdown-Flavors). +- Motivation to stick to a standard text-based format: **They make it easier to move the documentation to other tools + which also expect a standard format, as the project/organization grows**. +- We will use [MyST](https://myst-parser.readthedocs.io/en/latest/) + flavored Markdown in the {ref}`sphinx` episode and the + {ref}`gh-pages` example. +- Nice resource to learn Markdown: [Learn Markdown in 60 seconds](https://commonmark.org/help/) +- [Pandoc](https://pandoc.org/) can convert between MD and RST (and many other formats). + +--- + +## HTML static site generators + +There are many tools that can turn RST or Markdown into beautiful HTML pages: + +- [Sphinx](https://www.sphinx-doc.org) **← we will exercise this, this is how this lesson material is built** + - Generate HTML/PDF/LaTeX from RST and Markdown. + - Basically all Python projects use Sphinx but **Sphinx is not limited to Python**. + - [Read the docs](https://readthedocs.org) + hosts public Sphinx documentation for free! + - Also hostable anywhere else, like Github pages. + - API documentation possible. + +- [Jekyll](https://jekyllrb.com) + - Generates HTML from Markdown. + - GitHub supports this without adding extra build steps. + +- [pkgdown](https://pkgdown.r-lib.org/) + - Popular in the R community + +- [MkDocs](https://www.mkdocs.org/) +- [GitBook](https://www.gitbook.com/) +- [Hugo](https://gohugo.io) +- [Hexo](https://hexo.io) +- [Zola](https://www.getzola.org/) **<- this is what we use for our project website and workshop websites** +- There are many more ... + +GitHub, GitLab, and Bitbucket make it possible to serve HTML pages: +- [GitHub Pages](https://pages.github.com) +- [Bitbucket Pages](https://pages.bitbucket.io/) +- [GitLab Pages](https://pages.gitlab.io) + +--- + +## Wikis + +- Popular solutions (but many others exist): + - [MediaWiki](https://www.mediawiki.org) + - [Dokuwiki](https://www.dokuwiki.org) +- Advantage + - Barrier to write and edit is low +- Disadvantages + - Typically disconnected from source code repository (**reproducibility**) + - Difficult to serve multiple versions + - Difficult to check out a specific old version + - Typically needs to be hosted and maintained + +--- + +## LaTeX/PDF + +- Advantage + - Popular and familiar in the physics and mathematics community +- Disadvantages + - PDF format is not ideal for copy-pasting of examples + - Possible, but not trivial to automate rebuilding documentation after every Git push + +--- + +## Doxygen + +- Auto-generates API documentation +- Documented directly in the source code +- Popular in the C++ community +- Has support for C, Fortran, Python, Java, etc., + see [Doxygen Github Repo](https://github.com/doxygen/doxygen) +- Many keywords are understood by Doxygen: + [Doxygen special commands](https://www.doxygen.nl/manual/commands.html) +- Can be used to also generate higher-level ("human") documentation +- Can be deployed to GiHub/GitLab/Bitbucket Pages + +--- + +## Other tools + +- Fortran + - [Fortran Documenter (FORD)](https://github.com/Fortran-FOSS-Programmers/ford) + +- Julia + - [Franklin](https://franklinjl.org/): static site generator + - [Documenter.jl](https://juliadocs.github.io/Documenter.jl/stable/) + +- [Quarto](https://quarto.org/) converts markdown to websites, pdfs, ebooks and many other things + +--- + +```{keypoints} +- Some popular solutions make reproducibility and maintenance of multiple code versions difficult. +``` diff --git a/branch/rantahar-autodoc-to-md/_sources/wishlist.md.txt b/branch/rantahar-autodoc-to-md/_sources/wishlist.md.txt new file mode 100644 index 0000000..100748f --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/wishlist.md.txt @@ -0,0 +1,142 @@ +# Motivation and wishlist + +## Motivation + +```{discussion} Motivation-1: Why documenting code? + +**Use the collaborative document**: +- Is project documentation important? Why? +- How would you describe a useful documentation? +- How can you motivate your colleagues to contribute to the documentation? +``` + +```{solution} Our motivation (but let us brainstorm first) + +- You will probably use your code in the future and may forget details. +- You may want others to use your code (almost impossible without documentation). +- You may want others to contribute to the code. +- Shield your limited time and let the documentation answer FAQs. +``` + + +## What do we expect from a suitably good documentation? + +```{note} Documentation comes in different forms - what *is* documentation? + + - **Tutorials**: learning-oriented, allows the newcomer to get started + - **How-to guides**: goal-oriented, shows how to solve a specific problem + - **Explanation**: understanding-oriented, explains a concept + - **Reference**: information-oriented, describes the machinery + + Read more: + - + - + - +``` + +**There is no one size fits all**: often for small projects a `README.md` or +`README.rst` can be enough (more about these formats later). + + +(checklist)= + +## Creating a checklist + +```{discussion} Motivation-2: Create a wishlist + +**Use the collaborative document**: + - Let us create a wishlist for how we would like documentation to be. + - Below are some of our ideas but please do not look at them yet. + - We are sure you will come up with ideas we did not think about. +``` + +````{solution} Our wishlist (but let us brainstorm first) + + **Versions** + + - Your code project should be versioned (version control). + - Enable reproducibility and avoid confusion: **documentation should be versioned** as well. + - Have you ever seen: *"We will soon release a new version and are updating the documentation. + Some features may not be available in the version you have downloaded."*? + + + **Documentation should be placed and tracked close to the source code** + + - Documenting **close to the source code** (e.g. subdirectory ``doc/``) minimizes barrier to contribute. + - I should not need to log in to another machine or service and jump through hoops to contribute. + - It is often good enough to have a `README.md` or `README.rst` along with your code/script. + + + **Use a standard markup language** + + ```{instructor-note} Markup + Markup is a set of human readable instructions that is used to tell the computer how a document shall be styled and structured. By using a markup language we can for example write a `*` or `-` where we want a bullet point to appear in the rendered document. + ``` + - offers formatting flexibility, enforces a basic document structure and the rendered documents can be exported to other formats (e.g. for printing). Also, the source can be read by humans without knowledge of the language in case the rendered document is unavailable. + - We suggest to use either + [reStructuredText (RST)](https://docutils.sourceforge.net/rst.html) or + [Markdown](https://daringfireball.net/projects/markdown/) markup. + - GitHub and GitLab automatically render `README.md` or `README.rst` files. + + + **Copy-paste-able** + + - PDF alone is not enough since **copy-pasting out of a PDF document can be difficult**. + - It is OK to provide a generated PDF in addition to a copy-paste-able format. + + + **Written by humans** + + - Automatically generated documentation (e.g. API documentation) is useful as + complementary documentation but it does not replace tutorials written by + humans. + + + **Installation instructions** + + - Give **step by step instructions for the basic case**. + Additional information and caveats can be linked from there. + - List requirements and dependencies (libraries, compilers, environment). + - Include instructions for how to test for correctness after installation. + + + **Make the license explicit** + + - **Include a LICENSE file** with your source code. + - Without a license, your work is under exclusive copyright by default: + others are not allowed to re-use or modify anything. + - GitHub and GitLab allows to choose a license from common license templates. + + + **Information for contributors** + + - Make it easy for others to contribute: **document how you prefer others to contribute**. + - Users of your code may be shy to contribute code. + Your **documentation provides a platform for your first contributions**. +```` + + +```{admonition} Documentation checklist + + Which items to include depends on the number of users apart from yourself. + + - Purpose + - Authors + - License + - Recommended citation + - Copy-paste-able example to get started + - Dependencies and their versions or version ranges + - Installation instructions + - Tutorials covering key functionality + - Reference documentation (e.g. API) covering all functionality + - How do you want to be asked questions (mailing list or forum or chat or issue tracker) + - Possibly a FAQ section + - Contribution guide +``` + + +```{keypoints} +- Documentation is part of the code and should be versionable. +- Documentation (sources) should be tracked with the corresponding code in the same repository. +- Use standard markup languages such as reStructuredText or Markdown. +``` diff --git a/branch/rantahar-autodoc-to-md/_sources/writing-readme-files.md.txt b/branch/rantahar-autodoc-to-md/_sources/writing-readme-files.md.txt new file mode 100644 index 0000000..8d587f8 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_sources/writing-readme-files.md.txt @@ -0,0 +1,112 @@ +(writing-readme-files)= + +# Writing good README files + +The README file (often `README.md` or `README.rst`) is usually the first thing +users/collaborators see when visiting your GitHub repository. + +Use it to communicate important information about your project! For many +smaller or mid-size projects, this is enough documentation. It's not that hard +to make a basic one, and it's easy to expand as needed. + + +## Exercise: Have fun testing some README features + +````{exercise} Exercise README-1: Have fun testing some README features you may not have heard about + +- Test the effect of adding the following to your GitHub README ([read + more](https://docs.github.com/en/get-started/writing-on-github/getting-started-with-writing-and-formatting-on-github/basic-writing-and-formatting-syntax#alerts)): + ```markdown + > [!NOTE] + > Highlights information that users should take into account, even when skimming. + + > [!IMPORTANT] + > Crucial information necessary for users to succeed. + + > [!WARNING] + > Critical content demanding immediate user attention due to potential risks. + ``` + +- For more detailed descriptions which you don't want to show by default you + might find this useful (please try it out): + ```markdown +
+ + Short summary + + + Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod + tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, + quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo + consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse + cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non + proident, sunt in culpa qui officia deserunt mollit anim id est laborum. +
+ ``` + +- Would you like to add a badge like this one: [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)? + + Badge that links to a website (see also ): + ```markdown + [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org) + ``` + Badge without link: + ```markdown + ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue) + ``` + +- Know about other tips and tricks? Please share them (send a pull request to this lesson). +```` + + +## Exercise: Improve the README for your own project + +```{exercise} Exercise README-2: Draft or improve a README for one of your recent projects +Try to draft a brief README or review a README which you have written for one +of your projects. + +- You can do that either by screensharing and discussing or working individually. + +- Use the {ref}`checklist ` which we have discussed earlier. + +- Think about the user (**which can be a future you**) of your project, what does this user need to know to use or + contribute to the project? And how do you make your project attractive to use or contribute to? + +- (Optional): Try the [https://hemingwayapp.com/](https://hemingwayapp.com/) to analyse your README file and make your writing bold and clear. + +- Please note observations and recommendations in the collaborative notes. +``` + +--- + +## Exercise: Discuss the README of a project that you use + +```{exercise} Exercise README-3: Review and discuss a README of a project that you have used +In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README. + +- You can do that either by screensharing and discussing or working individually. + +- When discussing other people's projects please remember to be respectful and + constructive. The goal of this exercise is not to criticize other projects but + to learn from other projects and to collect the aspects that you enjoyed + finding in a README and to also collect aspects which you have searched for but + which are sometimes missing. + +- Please note observations and recommendations in the collaborative notes. +``` + +--- + +## Table of contents in README files + +- GitHub automatically generates a [table of contents for README.md files](https://docs.github.com/en/github/creating-cloning-and-archiving-repositories/about-readmes#auto-generated-table-of-contents-for-readme-files). +- On GitLab you can generate a TOC in Markdown with: + ```markdown + [[_TOC_]] + ``` +- With RST you can generate a table of contents (TOC) automatically by adding: + ```rst + .. contents:: Table of Contents + ``` diff --git a/branch/rantahar-autodoc-to-md/_static/_sphinx_javascript_frameworks_compat.js b/branch/rantahar-autodoc-to-md/_static/_sphinx_javascript_frameworks_compat.js new file mode 100644 index 0000000..8141580 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/_sphinx_javascript_frameworks_compat.js @@ -0,0 +1,123 @@ +/* Compatability shim for jQuery and underscores.js. + * + * Copyright Sphinx contributors + * Released under the two clause BSD licence + */ + +/** + * small helper function to urldecode strings + * + * See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/decodeURIComponent#Decoding_query_parameters_from_a_URL + */ +jQuery.urldecode = function(x) { + if (!x) { + return x + } + return decodeURIComponent(x.replace(/\+/g, ' ')); +}; + +/** + * small helper function to urlencode strings + */ +jQuery.urlencode = encodeURIComponent; + +/** + * This function returns the parsed url parameters of the + * current request. Multiple values per key are supported, + * it will always return arrays of strings for the value parts. + */ +jQuery.getQueryParameters = function(s) { + if (typeof s === 'undefined') + s = document.location.search; + var parts = s.substr(s.indexOf('?') + 1).split('&'); + var result = {}; + for (var i = 0; i < parts.length; i++) { + var tmp = parts[i].split('=', 2); + var key = jQuery.urldecode(tmp[0]); + var value = jQuery.urldecode(tmp[1]); + if (key in result) + result[key].push(value); + else + result[key] = [value]; + } + return result; +}; + +/** + * highlight a given string on a jquery object by wrapping it in + * span elements with the given class name. + */ +jQuery.fn.highlightText = function(text, className) { + function highlight(node, addItems) { + if (node.nodeType === 3) { + var val = node.nodeValue; + var pos = val.toLowerCase().indexOf(text); + if (pos >= 0 && + !jQuery(node.parentNode).hasClass(className) && + !jQuery(node.parentNode).hasClass("nohighlight")) { + var span; + var isInSVG = jQuery(node).closest("body, svg, foreignObject").is("svg"); + if (isInSVG) { + span = document.createElementNS("http://www.w3.org/2000/svg", "tspan"); + } else { + span = document.createElement("span"); + span.className = className; + } + span.appendChild(document.createTextNode(val.substr(pos, text.length))); + node.parentNode.insertBefore(span, node.parentNode.insertBefore( + document.createTextNode(val.substr(pos + text.length)), + node.nextSibling)); + node.nodeValue = val.substr(0, pos); + if (isInSVG) { + var rect = document.createElementNS("http://www.w3.org/2000/svg", "rect"); + var bbox = node.parentElement.getBBox(); + rect.x.baseVal.value = bbox.x; + rect.y.baseVal.value = bbox.y; + rect.width.baseVal.value = bbox.width; + rect.height.baseVal.value = bbox.height; + rect.setAttribute('class', className); + addItems.push({ + "parent": node.parentNode, + "target": rect}); + } + } + } + else if (!jQuery(node).is("button, select, textarea")) { + jQuery.each(node.childNodes, function() { + highlight(this, addItems); + }); + } + } + var addItems = []; + var result = this.each(function() { + highlight(this, addItems); + }); + for (var i = 0; i < addItems.length; ++i) { + jQuery(addItems[i].parent).before(addItems[i].target); + } + return result; +}; + +/* + * backward compatibility for jQuery.browser + * This will be supported until firefox bug is fixed. + */ +if (!jQuery.browser) { + jQuery.uaMatch = function(ua) { + ua = ua.toLowerCase(); + + var match = /(chrome)[ \/]([\w.]+)/.exec(ua) || + /(webkit)[ \/]([\w.]+)/.exec(ua) || + /(opera)(?:.*version|)[ \/]([\w.]+)/.exec(ua) || + /(msie) ([\w.]+)/.exec(ua) || + ua.indexOf("compatible") < 0 && /(mozilla)(?:.*? rv:([\w.]+)|)/.exec(ua) || + []; + + return { + browser: match[ 1 ] || "", + version: match[ 2 ] || "0" + }; + }; + jQuery.browser = {}; + jQuery.browser[jQuery.uaMatch(navigator.userAgent).browser] = true; +} diff --git a/branch/rantahar-autodoc-to-md/_static/basic.css b/branch/rantahar-autodoc-to-md/_static/basic.css new file mode 100644 index 0000000..f316efc --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/basic.css @@ -0,0 +1,925 @@ +/* + * basic.css + * ~~~~~~~~~ + * + * Sphinx stylesheet -- basic theme. + * + * :copyright: Copyright 2007-2024 by the Sphinx team, see AUTHORS. + * :license: BSD, see LICENSE for details. + * + */ + +/* -- main layout ----------------------------------------------------------- */ + +div.clearer { + clear: both; +} + +div.section::after { + display: block; + content: ''; + clear: left; +} + +/* -- relbar ---------------------------------------------------------------- */ + +div.related { + width: 100%; + font-size: 90%; +} + +div.related h3 { + display: none; +} + +div.related ul { + margin: 0; + padding: 0 0 0 10px; + list-style: none; +} + +div.related li { + display: inline; +} + +div.related li.right { + float: right; + margin-right: 5px; +} + +/* -- sidebar --------------------------------------------------------------- */ + +div.sphinxsidebarwrapper { + padding: 10px 5px 0 10px; +} + +div.sphinxsidebar { + float: left; + width: 230px; + margin-left: -100%; + font-size: 90%; + word-wrap: break-word; + overflow-wrap : break-word; +} + +div.sphinxsidebar ul { + list-style: none; +} + +div.sphinxsidebar ul ul, +div.sphinxsidebar ul.want-points { + margin-left: 20px; + list-style: square; +} + +div.sphinxsidebar ul ul { + margin-top: 0; + margin-bottom: 0; +} + +div.sphinxsidebar form { + margin-top: 10px; +} + +div.sphinxsidebar input { + border: 1px solid #98dbcc; + font-family: sans-serif; + font-size: 1em; +} + +div.sphinxsidebar #searchbox form.search { + overflow: hidden; +} + +div.sphinxsidebar #searchbox input[type="text"] { + float: left; + width: 80%; + padding: 0.25em; + box-sizing: border-box; +} + +div.sphinxsidebar #searchbox input[type="submit"] { + float: left; + width: 20%; + border-left: none; + padding: 0.25em; + box-sizing: border-box; +} + + +img { + border: 0; + max-width: 100%; +} + +/* -- search page ----------------------------------------------------------- */ + +ul.search { + margin: 10px 0 0 20px; + padding: 0; +} + +ul.search li { + padding: 5px 0 5px 20px; + background-image: url(file.png); + background-repeat: no-repeat; + background-position: 0 7px; +} + +ul.search li a { + font-weight: bold; +} + +ul.search li p.context { + color: #888; + margin: 2px 0 0 30px; + text-align: left; +} + +ul.keywordmatches li.goodmatch a { + font-weight: bold; +} + +/* -- index page ------------------------------------------------------------ */ + +table.contentstable { + width: 90%; + margin-left: auto; + margin-right: auto; +} + +table.contentstable p.biglink { + line-height: 150%; +} + +a.biglink { + font-size: 1.3em; +} + +span.linkdescr { + font-style: italic; + padding-top: 5px; + font-size: 90%; +} + +/* -- general index --------------------------------------------------------- */ + +table.indextable { + width: 100%; +} + +table.indextable td { + text-align: left; + vertical-align: top; +} + +table.indextable ul { + margin-top: 0; + margin-bottom: 0; + list-style-type: none; +} + +table.indextable > tbody > tr > td > ul { + padding-left: 0em; +} + +table.indextable tr.pcap { + height: 10px; +} + +table.indextable tr.cap { + margin-top: 10px; + background-color: #f2f2f2; +} + +img.toggler { + margin-right: 3px; + margin-top: 3px; + cursor: pointer; +} + +div.modindex-jumpbox { + border-top: 1px solid #ddd; + border-bottom: 1px solid #ddd; + margin: 1em 0 1em 0; + padding: 0.4em; +} + +div.genindex-jumpbox { + border-top: 1px solid #ddd; + border-bottom: 1px solid #ddd; + margin: 1em 0 1em 0; + padding: 0.4em; +} + +/* -- domain module index --------------------------------------------------- */ + +table.modindextable td { + padding: 2px; + border-collapse: collapse; +} + +/* -- general body styles --------------------------------------------------- */ + +div.body { + min-width: 360px; + max-width: 800px; +} + +div.body p, div.body dd, div.body li, div.body blockquote { + -moz-hyphens: auto; + -ms-hyphens: auto; + -webkit-hyphens: auto; + hyphens: auto; +} + +a.headerlink { + visibility: hidden; +} + +a:visited { + color: #551A8B; +} + +h1:hover > a.headerlink, +h2:hover > a.headerlink, +h3:hover > a.headerlink, +h4:hover > a.headerlink, +h5:hover > a.headerlink, +h6:hover > a.headerlink, +dt:hover > a.headerlink, +caption:hover > a.headerlink, +p.caption:hover > a.headerlink, +div.code-block-caption:hover > a.headerlink { + visibility: visible; +} + +div.body p.caption { + text-align: inherit; +} + +div.body td { + text-align: left; +} + +.first { + margin-top: 0 !important; +} + +p.rubric { + margin-top: 30px; + font-weight: bold; +} + +img.align-left, figure.align-left, .figure.align-left, object.align-left { + clear: left; + float: left; + margin-right: 1em; +} + +img.align-right, figure.align-right, .figure.align-right, object.align-right { + clear: right; + float: right; + margin-left: 1em; +} + +img.align-center, figure.align-center, .figure.align-center, object.align-center { + display: block; + margin-left: auto; + margin-right: auto; +} + +img.align-default, figure.align-default, .figure.align-default { + display: block; + margin-left: auto; + margin-right: auto; +} + +.align-left { + text-align: left; +} + +.align-center { + text-align: center; +} + +.align-default { + text-align: center; +} + +.align-right { + text-align: right; +} + +/* -- sidebars -------------------------------------------------------------- */ + +div.sidebar, +aside.sidebar { + margin: 0 0 0.5em 1em; + border: 1px solid #ddb; + padding: 7px; + background-color: #ffe; + width: 40%; + float: right; + clear: right; + overflow-x: auto; +} + +p.sidebar-title { + font-weight: bold; +} + +nav.contents, +aside.topic, +div.admonition, div.topic, blockquote { + clear: left; +} + +/* -- topics ---------------------------------------------------------------- */ + +nav.contents, +aside.topic, +div.topic { + border: 1px solid #ccc; + padding: 7px; + margin: 10px 0 10px 0; +} + +p.topic-title { + font-size: 1.1em; + font-weight: bold; + margin-top: 10px; +} + +/* -- admonitions ----------------------------------------------------------- */ + +div.admonition { + margin-top: 10px; + margin-bottom: 10px; + padding: 7px; +} + +div.admonition dt { + font-weight: bold; +} + +p.admonition-title { + margin: 0px 10px 5px 0px; + font-weight: bold; +} + +div.body p.centered { + text-align: center; + margin-top: 25px; +} + +/* -- content of sidebars/topics/admonitions -------------------------------- */ + +div.sidebar > :last-child, +aside.sidebar > :last-child, +nav.contents > :last-child, +aside.topic > :last-child, +div.topic > :last-child, +div.admonition > :last-child { + margin-bottom: 0; +} + +div.sidebar::after, +aside.sidebar::after, +nav.contents::after, +aside.topic::after, +div.topic::after, +div.admonition::after, +blockquote::after { + display: block; + content: ''; + clear: both; +} + +/* -- tables ---------------------------------------------------------------- */ + +table.docutils { + margin-top: 10px; + margin-bottom: 10px; + border: 0; + border-collapse: collapse; +} + +table.align-center { + margin-left: auto; + margin-right: auto; +} + +table.align-default { + margin-left: auto; + margin-right: auto; +} + +table caption span.caption-number { + font-style: italic; +} + +table caption span.caption-text { +} + +table.docutils td, table.docutils th { + padding: 1px 8px 1px 5px; + border-top: 0; + border-left: 0; + border-right: 0; + border-bottom: 1px solid #aaa; +} + +th { + text-align: left; + padding-right: 5px; +} + +table.citation { + border-left: solid 1px gray; + margin-left: 1px; +} + +table.citation td { + border-bottom: none; +} + +th > :first-child, +td > :first-child { + margin-top: 0px; +} + +th > :last-child, +td > :last-child { + margin-bottom: 0px; +} + +/* -- figures --------------------------------------------------------------- */ + +div.figure, figure { + margin: 0.5em; + padding: 0.5em; +} + +div.figure p.caption, figcaption { + padding: 0.3em; +} + +div.figure p.caption span.caption-number, +figcaption span.caption-number { + font-style: italic; +} + +div.figure p.caption span.caption-text, +figcaption span.caption-text { +} + +/* -- field list styles ----------------------------------------------------- */ + +table.field-list td, table.field-list th { + border: 0 !important; +} + +.field-list ul { + margin: 0; + padding-left: 1em; +} + +.field-list p { + margin: 0; +} + +.field-name { + -moz-hyphens: manual; + -ms-hyphens: manual; + -webkit-hyphens: manual; + hyphens: manual; +} + +/* -- hlist styles ---------------------------------------------------------- */ + +table.hlist { + margin: 1em 0; +} + +table.hlist td { + vertical-align: top; +} + +/* -- object description styles --------------------------------------------- */ + +.sig { + font-family: 'Consolas', 'Menlo', 'DejaVu Sans Mono', 'Bitstream Vera Sans Mono', monospace; +} + +.sig-name, code.descname { + background-color: transparent; + font-weight: bold; +} + +.sig-name { + font-size: 1.1em; +} + +code.descname { + font-size: 1.2em; +} + +.sig-prename, code.descclassname { + background-color: transparent; +} + +.optional { + font-size: 1.3em; +} + +.sig-paren { + font-size: larger; +} + +.sig-param.n { + font-style: italic; +} + +/* C++ specific styling */ + +.sig-inline.c-texpr, +.sig-inline.cpp-texpr { + font-family: unset; +} + +.sig.c .k, .sig.c .kt, +.sig.cpp .k, .sig.cpp .kt { + color: #0033B3; +} + +.sig.c .m, +.sig.cpp .m { + color: #1750EB; +} + +.sig.c .s, .sig.c .sc, +.sig.cpp .s, .sig.cpp .sc { + color: #067D17; +} + + +/* -- other body styles ----------------------------------------------------- */ + +ol.arabic { + list-style: decimal; +} + +ol.loweralpha { + list-style: lower-alpha; +} + +ol.upperalpha { + list-style: upper-alpha; +} + +ol.lowerroman { + list-style: lower-roman; +} + +ol.upperroman { + list-style: upper-roman; +} + +:not(li) > ol > li:first-child > :first-child, +:not(li) > ul > li:first-child > :first-child { + margin-top: 0px; +} + +:not(li) > ol > li:last-child > :last-child, +:not(li) > ul > li:last-child > :last-child { + margin-bottom: 0px; +} + +ol.simple ol p, +ol.simple ul p, +ul.simple ol p, +ul.simple ul p { + margin-top: 0; +} + +ol.simple > li:not(:first-child) > p, +ul.simple > li:not(:first-child) > p { + margin-top: 0; +} + +ol.simple p, +ul.simple p { + margin-bottom: 0; +} + +aside.footnote > span, +div.citation > span { + float: left; +} +aside.footnote > span:last-of-type, +div.citation > span:last-of-type { + padding-right: 0.5em; +} +aside.footnote > p { + margin-left: 2em; +} +div.citation > p { + margin-left: 4em; +} +aside.footnote > p:last-of-type, +div.citation > p:last-of-type { + margin-bottom: 0em; +} +aside.footnote > p:last-of-type:after, +div.citation > p:last-of-type:after { + content: ""; + clear: both; +} + +dl.field-list { + display: grid; + grid-template-columns: fit-content(30%) auto; +} + +dl.field-list > dt { + font-weight: bold; + word-break: break-word; + padding-left: 0.5em; + padding-right: 5px; +} + +dl.field-list > dd { + padding-left: 0.5em; + margin-top: 0em; + margin-left: 0em; + margin-bottom: 0em; +} + +dl { + margin-bottom: 15px; +} + +dd > :first-child { + margin-top: 0px; +} + +dd ul, dd table { + margin-bottom: 10px; +} + +dd { + margin-top: 3px; + margin-bottom: 10px; + margin-left: 30px; +} + +.sig dd { + margin-top: 0px; + margin-bottom: 0px; +} + +.sig dl { + margin-top: 0px; + margin-bottom: 0px; +} + +dl > dd:last-child, +dl > dd:last-child > :last-child { + margin-bottom: 0; +} + +dt:target, span.highlighted { + background-color: #fbe54e; +} + +rect.highlighted { + fill: #fbe54e; +} + +dl.glossary dt { + font-weight: bold; + font-size: 1.1em; +} + +.versionmodified { + font-style: italic; +} + +.system-message { + background-color: #fda; + padding: 5px; + border: 3px solid red; +} + +.footnote:target { + background-color: #ffa; +} + +.line-block { + display: block; + margin-top: 1em; + margin-bottom: 1em; +} + +.line-block .line-block { + margin-top: 0; + margin-bottom: 0; + margin-left: 1.5em; +} + +.guilabel, .menuselection { + font-family: sans-serif; +} + +.accelerator { + text-decoration: underline; +} + +.classifier { + font-style: oblique; +} + +.classifier:before { + font-style: normal; + margin: 0 0.5em; + content: ":"; + display: inline-block; +} + +abbr, acronym { + border-bottom: dotted 1px; + cursor: help; +} + +.translated { + background-color: rgba(207, 255, 207, 0.2) +} + +.untranslated { + background-color: rgba(255, 207, 207, 0.2) +} + +/* -- code displays --------------------------------------------------------- */ + +pre { + overflow: auto; + overflow-y: hidden; /* fixes display issues on Chrome browsers */ +} + +pre, div[class*="highlight-"] { + clear: both; +} + +span.pre { + -moz-hyphens: none; + -ms-hyphens: none; + -webkit-hyphens: none; + hyphens: none; + white-space: nowrap; +} + +div[class*="highlight-"] { + margin: 1em 0; +} + +td.linenos pre { + border: 0; + background-color: transparent; + color: #aaa; +} + +table.highlighttable { + display: block; +} + +table.highlighttable tbody { + display: block; +} + +table.highlighttable tr { + display: flex; +} + +table.highlighttable td { + margin: 0; + padding: 0; +} + +table.highlighttable td.linenos { + padding-right: 0.5em; +} + +table.highlighttable td.code { + flex: 1; + overflow: hidden; +} + +.highlight .hll { + display: block; +} + +div.highlight pre, +table.highlighttable pre { + margin: 0; +} + +div.code-block-caption + div { + margin-top: 0; +} + +div.code-block-caption { + margin-top: 1em; + padding: 2px 5px; + font-size: small; +} + +div.code-block-caption code { + background-color: transparent; +} + +table.highlighttable td.linenos, +span.linenos, +div.highlight span.gp { /* gp: Generic.Prompt */ + user-select: none; + -webkit-user-select: text; /* Safari fallback only */ + -webkit-user-select: none; /* Chrome/Safari */ + -moz-user-select: none; /* Firefox */ + -ms-user-select: none; /* IE10+ */ +} + +div.code-block-caption span.caption-number { + padding: 0.1em 0.3em; + font-style: italic; +} + +div.code-block-caption span.caption-text { +} + +div.literal-block-wrapper { + margin: 1em 0; +} + +code.xref, a code { + background-color: transparent; + font-weight: bold; +} + +h1 code, h2 code, h3 code, h4 code, h5 code, h6 code { + background-color: transparent; +} + +.viewcode-link { + float: right; +} + +.viewcode-back { + float: right; + font-family: sans-serif; +} + +div.viewcode-block:target { + margin: -1px -10px; + padding: 0 10px; +} + +/* -- math display ---------------------------------------------------------- */ + +img.math { + vertical-align: middle; +} + +div.body div.math p { + text-align: center; +} + +span.eqno { + float: right; +} + +span.eqno a.headerlink { + position: absolute; + z-index: 1; +} + +div.math:hover a.headerlink { + visibility: visible; +} + +/* -- printout stylesheet --------------------------------------------------- */ + +@media print { + div.document, + div.documentwrapper, + div.bodywrapper { + margin: 0 !important; + width: 100%; + } + + div.sphinxsidebar, + div.related, + div.footer, + #top-link { + display: none; + } +} \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/_static/check-solid.svg b/branch/rantahar-autodoc-to-md/_static/check-solid.svg new file mode 100644 index 0000000..92fad4b --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/check-solid.svg @@ -0,0 +1,4 @@ + + + + diff --git a/branch/rantahar-autodoc-to-md/_static/clipboard.min.js b/branch/rantahar-autodoc-to-md/_static/clipboard.min.js new file mode 100644 index 0000000..54b3c46 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/clipboard.min.js @@ -0,0 +1,7 @@ +/*! + * clipboard.js v2.0.8 + * https://clipboardjs.com/ + * + * Licensed MIT © Zeno Rocha + */ +!function(t,e){"object"==typeof exports&&"object"==typeof module?module.exports=e():"function"==typeof define&&define.amd?define([],e):"object"==typeof exports?exports.ClipboardJS=e():t.ClipboardJS=e()}(this,function(){return n={686:function(t,e,n){"use strict";n.d(e,{default:function(){return o}});var e=n(279),i=n.n(e),e=n(370),u=n.n(e),e=n(817),c=n.n(e);function a(t){try{return document.execCommand(t)}catch(t){return}}var f=function(t){t=c()(t);return a("cut"),t};var l=function(t){var e,n,o,r=1 + + + + diff --git a/branch/rantahar-autodoc-to-md/_static/copybutton.css b/branch/rantahar-autodoc-to-md/_static/copybutton.css new file mode 100644 index 0000000..40eafe5 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/copybutton.css @@ -0,0 +1,93 @@ +/* Copy buttons */ +button.copybtn { + position: absolute; + display: flex; + top: .3em; + right: .3em; + width: 1.7em; + height: 1.7em; + opacity: 0; + transition: opacity 0.3s, border .3s, background-color .3s; + user-select: none; + padding: 0; + border: none; + outline: none; + border-radius: 0.4em; + /* The colors that GitHub uses */ + border: #1b1f2426 1px solid; + background-color: #f6f8fa; + color: #57606a; +} + +button.copybtn.success { + border-color: #22863a; + color: #22863a; +} + +button.copybtn svg { + stroke: currentColor; + width: 1.5em; + height: 1.5em; + padding: 0.1em; +} + +div.highlight { + position: relative; +} + +.highlight:hover button.copybtn { + opacity: 1; +} + +.highlight button.copybtn:hover { + background-color: rgb(235, 235, 235); +} + +.highlight button.copybtn:active { + background-color: rgb(187, 187, 187); +} + +/** + * A minimal CSS-only tooltip copied from: + * https://codepen.io/mildrenben/pen/rVBrpK + * + * To use, write HTML like the following: + * + *

Short

+ */ + .o-tooltip--left { + position: relative; + } + + .o-tooltip--left:after { + opacity: 0; + visibility: hidden; + position: absolute; + content: attr(data-tooltip); + padding: .2em; + font-size: .8em; + left: -.2em; + background: grey; + color: white; + white-space: nowrap; + z-index: 2; + border-radius: 2px; + transform: translateX(-102%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); +} + +.o-tooltip--left:hover:after { + display: block; + opacity: 1; + visibility: visible; + transform: translateX(-100%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); + transition-delay: .5s; +} + +/* By default the copy button shouldn't show up when printing a page */ +@media print { + button.copybtn { + display: none; + } +} diff --git a/branch/rantahar-autodoc-to-md/_static/copybutton.js b/branch/rantahar-autodoc-to-md/_static/copybutton.js new file mode 100644 index 0000000..f3ecd03 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/copybutton.js @@ -0,0 +1,241 @@ +// Localization support +const messages = { + 'en': { + 'copy': 'Copy', + 'copy_to_clipboard': 'Copy to clipboard', + 'copy_success': 'Copied!', + 'copy_failure': 'Failed to copy', + }, + 'es' : { + 'copy': 'Copiar', + 'copy_to_clipboard': 'Copiar al portapapeles', + 'copy_success': '¡Copiado!', + 'copy_failure': 'Error al copiar', + }, + 'de' : { + 'copy': 'Kopieren', + 'copy_to_clipboard': 'In die Zwischenablage kopieren', + 'copy_success': 'Kopiert!', + 'copy_failure': 'Fehler beim Kopieren', + }, + 'fr' : { + 'copy': 'Copier', + 'copy_to_clipboard': 'Copié dans le presse-papier', + 'copy_success': 'Copié !', + 'copy_failure': 'Échec de la copie', + }, + 'ru': { + 'copy': 'Скопировать', + 'copy_to_clipboard': 'Скопировать в буфер', + 'copy_success': 'Скопировано!', + 'copy_failure': 'Не удалось скопировать', + }, + 'zh-CN': { + 'copy': '复制', + 'copy_to_clipboard': '复制到剪贴板', + 'copy_success': '复制成功!', + 'copy_failure': '复制失败', + }, + 'it' : { + 'copy': 'Copiare', + 'copy_to_clipboard': 'Copiato negli appunti', + 'copy_success': 'Copiato!', + 'copy_failure': 'Errore durante la copia', + } +} + +let locale = 'en' +if( document.documentElement.lang !== undefined + && messages[document.documentElement.lang] !== undefined ) { + locale = document.documentElement.lang +} + +let doc_url_root = DOCUMENTATION_OPTIONS.URL_ROOT; +if (doc_url_root == '#') { + doc_url_root = ''; +} + +/** + * SVG files for our copy buttons + */ +let iconCheck = ` + ${messages[locale]['copy_success']} + + +` + +// If the user specified their own SVG use that, otherwise use the default +let iconCopy = ``; +if (!iconCopy) { + iconCopy = ` + ${messages[locale]['copy_to_clipboard']} + + + +` +} + +/** + * Set up copy/paste for code blocks + */ + +const runWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} + +const codeCellId = index => `codecell${index}` + +// Clears selected text since ClipboardJS will select the text when copying +const clearSelection = () => { + if (window.getSelection) { + window.getSelection().removeAllRanges() + } else if (document.selection) { + document.selection.empty() + } +} + +// Changes tooltip text for two seconds, then changes it back +const temporarilyChangeTooltip = (el, oldText, newText) => { + el.setAttribute('data-tooltip', newText) + el.classList.add('success') + setTimeout(() => el.setAttribute('data-tooltip', oldText), 2000) + setTimeout(() => el.classList.remove('success'), 2000) +} + +// Changes the copy button icon for two seconds, then changes it back +const temporarilyChangeIcon = (el) => { + el.innerHTML = iconCheck; + setTimeout(() => {el.innerHTML = iconCopy}, 2000) +} + +const addCopyButtonToCodeCells = () => { + // If ClipboardJS hasn't loaded, wait a bit and try again. This + // happens because we load ClipboardJS asynchronously. + if (window.ClipboardJS === undefined) { + setTimeout(addCopyButtonToCodeCells, 250) + return + } + + // Add copybuttons to all of our code cells + const COPYBUTTON_SELECTOR = 'div.highlight pre'; + const codeCells = document.querySelectorAll(COPYBUTTON_SELECTOR) + codeCells.forEach((codeCell, index) => { + const id = codeCellId(index) + codeCell.setAttribute('id', id) + + const clipboardButton = id => + `` + codeCell.insertAdjacentHTML('afterend', clipboardButton(id)) + }) + +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + promptFound = regexp.test(line) + lineGotPrompt.push(promptFound) + if (removePrompts && promptFound) { + outputLines.push(match[2]) + } else { + outputLines.push(line) + } + gotLineCont = line.endsWith(lineContinuationChar) & useLineCont + if (line.includes(hereDocDelim) & useHereDoc) + gotHereDoc = !gotHereDoc + } else if (!onlyCopyPromptLines) { + outputLines.push(line) + } else if (copyEmptyLines && line.trim() === '') { + outputLines.push(line) + } + } + + // If no lines with the prompt were found then just use original lines + if (lineGotPrompt.some(v => v === true)) { + textContent = outputLines.join('\n'); + } + + // Remove a trailing newline to avoid auto-running when pasting + if (textContent.endsWith("\n")) { + textContent = textContent.slice(0, -1) + } + return textContent +} + + +var copyTargetText = (trigger) => { + var target = document.querySelector(trigger.attributes['data-clipboard-target'].value); + + // get filtered text + let exclude = '.linenos, .gp'; + + let text = filterText(target, exclude); + return formatCopyText(text, '', false, true, true, true, '', '') +} + + // Initialize with a callback so we can modify the text before copy + const clipboard = new ClipboardJS('.copybtn', {text: copyTargetText}) + + // Update UI with error/success messages + clipboard.on('success', event => { + clearSelection() + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_success']) + temporarilyChangeIcon(event.trigger) + }) + + clipboard.on('error', event => { + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_failure']) + }) +} + +runWhenDOMLoaded(addCopyButtonToCodeCells) \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/_static/copybutton_funcs.js b/branch/rantahar-autodoc-to-md/_static/copybutton_funcs.js new file mode 100644 index 0000000..dbe1aaa --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/copybutton_funcs.js @@ -0,0 +1,73 @@ +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +export function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +export function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + promptFound = regexp.test(line) + lineGotPrompt.push(promptFound) + if (removePrompts && promptFound) { + outputLines.push(match[2]) + } else { + outputLines.push(line) + } + gotLineCont = line.endsWith(lineContinuationChar) & useLineCont + if (line.includes(hereDocDelim) & useHereDoc) + gotHereDoc = !gotHereDoc + } else if (!onlyCopyPromptLines) { + outputLines.push(line) + } else if (copyEmptyLines && line.trim() === '') { + outputLines.push(line) + } + } + + // If no lines with the prompt were found then just use original lines + if (lineGotPrompt.some(v => v === true)) { + textContent = outputLines.join('\n'); + } + + // Remove a trailing newline to avoid auto-running when pasting + if (textContent.endsWith("\n")) { + textContent = textContent.slice(0, -1) + } + return textContent +} diff --git a/branch/rantahar-autodoc-to-md/_static/css/badge_only.css b/branch/rantahar-autodoc-to-md/_static/css/badge_only.css new file mode 100644 index 0000000..c718cee --- /dev/null +++ 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+ return this; // for chaining... + } +})(jQuery); + +// NO good way to do this!. 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background-color: #E75C58 +} + +div.highlight .-Color[class*=-BGGreen] { + background-color: #00A250 +} + +div.highlight .-Color[class*=-BGYellow] { + background-color: #DDB62B +} + +div.highlight .-Color[class*=-BGBlue] { + background-color: #208FFB +} + +div.highlight .-Color[class*=-BGMagenta] { + background-color: #D160C4 +} + +div.highlight .-Color[class*=-BGCyan] { + background-color: #60C6C8 +} + +div.highlight .-Color[class*=-BGWhite] { + background-color: #C5C1B4 +} + +/* Font colors for 8-bit ANSI */ + +div.highlight .-Color[class*=-C0] { + color: #000000 +} + +div.highlight .-Color[class*=-BGC0] { + background-color: #000000 +} + +div.highlight .-Color[class*=-C1] { + color: #800000 +} + +div.highlight .-Color[class*=-BGC1] { + background-color: #800000 +} + +div.highlight .-Color[class*=-C2] { + color: #008000 +} + +div.highlight .-Color[class*=-BGC2] { + background-color: #008000 +} + +div.highlight .-Color[class*=-C3] { + color: #808000 +} + +div.highlight .-Color[class*=-BGC3] { + background-color: #808000 +} + +div.highlight .-Color[class*=-C4] { + color: #000080 +} + +div.highlight .-Color[class*=-BGC4] { + background-color: #000080 +} + +div.highlight .-Color[class*=-C5] { + color: #800080 +} + +div.highlight .-Color[class*=-BGC5] { + background-color: #800080 +} + +div.highlight .-Color[class*=-C6] { + color: #008080 +} + +div.highlight .-Color[class*=-BGC6] { + background-color: #008080 +} + +div.highlight .-Color[class*=-C7] { + color: #C0C0C0 +} + +div.highlight .-Color[class*=-BGC7] { + background-color: #C0C0C0 +} + +div.highlight .-Color[class*=-C8] { + color: #808080 +} + +div.highlight .-Color[class*=-BGC8] { + background-color: #808080 +} + +div.highlight .-Color[class*=-C9] { + color: #FF0000 +} + +div.highlight .-Color[class*=-BGC9] { + background-color: #FF0000 +} + +div.highlight .-Color[class*=-C10] { + color: #00FF00 +} + +div.highlight .-Color[class*=-BGC10] { + background-color: #00FF00 +} + +div.highlight .-Color[class*=-C11] { + color: #FFFF00 +} + +div.highlight .-Color[class*=-BGC11] { + background-color: #FFFF00 +} + +div.highlight .-Color[class*=-C12] { + color: #0000FF +} + +div.highlight .-Color[class*=-BGC12] { + background-color: #0000FF +} + +div.highlight .-Color[class*=-C13] { + color: #FF00FF +} + +div.highlight .-Color[class*=-BGC13] { + background-color: #FF00FF +} + +div.highlight .-Color[class*=-C14] { + color: #00FFFF +} + +div.highlight .-Color[class*=-BGC14] { + background-color: #00FFFF +} + +div.highlight .-Color[class*=-C15] { + color: #FFFFFF +} + +div.highlight .-Color[class*=-BGC15] { + background-color: #FFFFFF +} + +div.highlight .-Color[class*=-C16] { + color: #000000 +} + +div.highlight .-Color[class*=-BGC16] { + background-color: #000000 +} + +div.highlight .-Color[class*=-C17] { + color: #00005F +} + +div.highlight .-Color[class*=-BGC17] { + background-color: #00005F +} + +div.highlight .-Color[class*=-C18] { + color: #000087 +} + +div.highlight .-Color[class*=-BGC18] { + background-color: #000087 +} + +div.highlight .-Color[class*=-C19] { + color: #0000AF +} + +div.highlight .-Color[class*=-BGC19] { + background-color: #0000AF +} + +div.highlight .-Color[class*=-C20] { + color: #0000D7 +} + +div.highlight .-Color[class*=-BGC20] { + background-color: #0000D7 +} + +div.highlight .-Color[class*=-C21] { + color: #0000FF +} + +div.highlight .-Color[class*=-BGC21] { + background-color: #0000FF +} + +div.highlight .-Color[class*=-C22] { + color: #005F00 +} + +div.highlight .-Color[class*=-BGC22] { + background-color: #005F00 +} + +div.highlight .-Color[class*=-C23] { + color: #005F5F +} + +div.highlight .-Color[class*=-BGC23] { + background-color: #005F5F +} + +div.highlight .-Color[class*=-C24] { + color: #005F87 +} + +div.highlight .-Color[class*=-BGC24] { + background-color: #005F87 +} + +div.highlight .-Color[class*=-C25] { + color: #005FAF +} + +div.highlight .-Color[class*=-BGC25] { + background-color: #005FAF +} + +div.highlight .-Color[class*=-C26] { + color: #005FD7 +} + +div.highlight .-Color[class*=-BGC26] { + background-color: #005FD7 +} + +div.highlight .-Color[class*=-C27] { + color: #005FFF +} + +div.highlight .-Color[class*=-BGC27] { + background-color: #005FFF +} + +div.highlight .-Color[class*=-C28] { + color: #008700 +} + +div.highlight .-Color[class*=-BGC28] { + background-color: #008700 +} + +div.highlight .-Color[class*=-C29] { + color: #00875F +} + +div.highlight .-Color[class*=-BGC29] { + background-color: #00875F +} + +div.highlight .-Color[class*=-C30] { + color: #008787 +} + +div.highlight .-Color[class*=-BGC30] { + background-color: #008787 +} + +div.highlight .-Color[class*=-C31] { + color: #0087AF +} + +div.highlight .-Color[class*=-BGC31] { + background-color: #0087AF +} + +div.highlight .-Color[class*=-C32] { + color: #0087D7 +} + +div.highlight .-Color[class*=-BGC32] { + background-color: #0087D7 +} + +div.highlight .-Color[class*=-C33] { + color: #0087FF +} + +div.highlight .-Color[class*=-BGC33] { + background-color: #0087FF +} + +div.highlight .-Color[class*=-C34] { + color: #00AF00 +} + +div.highlight .-Color[class*=-BGC34] { + background-color: #00AF00 +} + +div.highlight .-Color[class*=-C35] { + color: #00AF5F +} + +div.highlight .-Color[class*=-BGC35] { + background-color: #00AF5F +} + +div.highlight .-Color[class*=-C36] { + color: #00AF87 +} + +div.highlight .-Color[class*=-BGC36] { + background-color: #00AF87 +} + +div.highlight .-Color[class*=-C37] { + color: #00AFAF +} + +div.highlight .-Color[class*=-BGC37] { + background-color: #00AFAF +} + +div.highlight .-Color[class*=-C38] { + color: #00AFD7 +} + +div.highlight .-Color[class*=-BGC38] { + background-color: #00AFD7 +} + +div.highlight .-Color[class*=-C39] { + color: #00AFFF +} + +div.highlight .-Color[class*=-BGC39] { + background-color: #00AFFF +} + +div.highlight .-Color[class*=-C40] { + color: #00D700 +} + +div.highlight .-Color[class*=-BGC40] { + background-color: #00D700 +} + +div.highlight .-Color[class*=-C41] { + color: #00D75F +} + +div.highlight .-Color[class*=-BGC41] { + background-color: #00D75F +} + +div.highlight .-Color[class*=-C42] { + color: #00D787 +} + +div.highlight .-Color[class*=-BGC42] { + background-color: #00D787 +} + +div.highlight .-Color[class*=-C43] { + color: #00D7AF +} + +div.highlight .-Color[class*=-BGC43] { + background-color: #00D7AF +} + +div.highlight .-Color[class*=-C44] { + color: #00D7D7 +} + +div.highlight .-Color[class*=-BGC44] { + background-color: #00D7D7 +} + +div.highlight .-Color[class*=-C45] { + color: #00D7FF +} + +div.highlight .-Color[class*=-BGC45] { + background-color: #00D7FF +} + +div.highlight .-Color[class*=-C46] { + color: #00FF00 +} + +div.highlight .-Color[class*=-BGC46] { + background-color: #00FF00 +} + +div.highlight .-Color[class*=-C47] { + color: #00FF5F +} + +div.highlight .-Color[class*=-BGC47] { + background-color: #00FF5F +} + +div.highlight .-Color[class*=-C48] { + color: #00FF87 +} + +div.highlight .-Color[class*=-BGC48] { + background-color: #00FF87 +} + +div.highlight .-Color[class*=-C49] { + color: #00FFAF +} + +div.highlight .-Color[class*=-BGC49] { + background-color: #00FFAF +} + +div.highlight .-Color[class*=-C50] { + color: #00FFD7 +} + +div.highlight .-Color[class*=-BGC50] { + background-color: #00FFD7 +} + +div.highlight .-Color[class*=-C51] { + color: #00FFFF +} + +div.highlight .-Color[class*=-BGC51] { + background-color: #00FFFF +} + +div.highlight .-Color[class*=-C52] { + color: #5F0000 +} + +div.highlight .-Color[class*=-BGC52] { + background-color: #5F0000 +} + +div.highlight .-Color[class*=-C53] { + color: #5F005F +} + +div.highlight .-Color[class*=-BGC53] { + background-color: #5F005F +} + +div.highlight .-Color[class*=-C54] { + color: #5F0087 +} + +div.highlight .-Color[class*=-BGC54] { + background-color: #5F0087 +} + +div.highlight .-Color[class*=-C55] { + color: #5F00AF +} + +div.highlight .-Color[class*=-BGC55] { + background-color: #5F00AF +} + +div.highlight .-Color[class*=-C56] { + color: #5F00D7 +} + +div.highlight .-Color[class*=-BGC56] { + background-color: #5F00D7 +} + +div.highlight .-Color[class*=-C57] { + color: #5F00FF +} + +div.highlight .-Color[class*=-BGC57] { + background-color: #5F00FF +} + +div.highlight .-Color[class*=-C58] { + color: #5F5F00 +} + +div.highlight .-Color[class*=-BGC58] { + background-color: #5F5F00 +} + +div.highlight .-Color[class*=-C59] { + color: #5F5F5F +} + +div.highlight .-Color[class*=-BGC59] { + background-color: #5F5F5F +} + +div.highlight .-Color[class*=-C60] { + color: #5F5F87 +} + +div.highlight .-Color[class*=-BGC60] { + background-color: #5F5F87 +} + +div.highlight .-Color[class*=-C61] { + color: #5F5FAF +} + +div.highlight .-Color[class*=-BGC61] { + background-color: #5F5FAF +} + +div.highlight .-Color[class*=-C62] { + color: #5F5FD7 +} + +div.highlight .-Color[class*=-BGC62] { + background-color: #5F5FD7 +} + +div.highlight .-Color[class*=-C63] { + color: #5F5FFF +} + +div.highlight .-Color[class*=-BGC63] { + background-color: #5F5FFF +} + +div.highlight .-Color[class*=-C64] { + color: #5F8700 +} + +div.highlight .-Color[class*=-BGC64] { + background-color: #5F8700 +} + +div.highlight .-Color[class*=-C65] { + color: #5F875F +} + +div.highlight .-Color[class*=-BGC65] { + background-color: #5F875F +} + +div.highlight .-Color[class*=-C66] { + color: #5F8787 +} + +div.highlight .-Color[class*=-BGC66] { + background-color: #5F8787 +} + +div.highlight .-Color[class*=-C67] { + color: #5F87AF +} + +div.highlight .-Color[class*=-BGC67] { + background-color: #5F87AF +} + +div.highlight .-Color[class*=-C68] { + color: #5F87D7 +} + +div.highlight .-Color[class*=-BGC68] { + background-color: #5F87D7 +} + +div.highlight .-Color[class*=-C69] { + color: #5F87FF +} + +div.highlight .-Color[class*=-BGC69] { + background-color: #5F87FF +} + +div.highlight .-Color[class*=-C70] { + color: #5FAF00 +} + +div.highlight .-Color[class*=-BGC70] { + background-color: #5FAF00 +} + +div.highlight .-Color[class*=-C71] { + color: #5FAF5F +} + +div.highlight .-Color[class*=-BGC71] { + background-color: #5FAF5F +} + +div.highlight .-Color[class*=-C72] { + color: #5FAF87 +} + +div.highlight .-Color[class*=-BGC72] { + background-color: #5FAF87 +} + +div.highlight .-Color[class*=-C73] { + color: #5FAFAF +} + +div.highlight .-Color[class*=-BGC73] { + background-color: #5FAFAF +} + +div.highlight .-Color[class*=-C74] { + color: #5FAFD7 +} + +div.highlight .-Color[class*=-BGC74] { + background-color: #5FAFD7 +} + +div.highlight .-Color[class*=-C75] { + color: #5FAFFF +} + +div.highlight .-Color[class*=-BGC75] { + background-color: #5FAFFF +} + +div.highlight .-Color[class*=-C76] { + color: #5FD700 +} + +div.highlight .-Color[class*=-BGC76] { + background-color: #5FD700 +} + +div.highlight .-Color[class*=-C77] { + color: #5FD75F +} + +div.highlight .-Color[class*=-BGC77] { + background-color: #5FD75F +} + +div.highlight .-Color[class*=-C78] { + color: #5FD787 +} + +div.highlight .-Color[class*=-BGC78] { + background-color: #5FD787 +} + +div.highlight .-Color[class*=-C79] { + color: #5FD7AF +} + +div.highlight .-Color[class*=-BGC79] { + background-color: #5FD7AF +} + +div.highlight .-Color[class*=-C80] { + color: #5FD7D7 +} + +div.highlight .-Color[class*=-BGC80] { + background-color: #5FD7D7 +} + +div.highlight .-Color[class*=-C81] { + color: #5FD7FF +} + +div.highlight .-Color[class*=-BGC81] { + background-color: #5FD7FF +} + +div.highlight .-Color[class*=-C82] { + color: #5FFF00 +} + +div.highlight .-Color[class*=-BGC82] { + background-color: #5FFF00 +} + +div.highlight .-Color[class*=-C83] { + color: #5FFF5F +} + +div.highlight .-Color[class*=-BGC83] { + background-color: #5FFF5F +} + +div.highlight .-Color[class*=-C84] { + color: #5FFF87 +} + +div.highlight .-Color[class*=-BGC84] { + background-color: #5FFF87 +} + +div.highlight .-Color[class*=-C85] { + color: #5FFFAF +} + +div.highlight .-Color[class*=-BGC85] { + background-color: #5FFFAF +} + +div.highlight .-Color[class*=-C86] { + color: #5FFFD7 +} + +div.highlight .-Color[class*=-BGC86] { + background-color: #5FFFD7 +} + +div.highlight .-Color[class*=-C87] { + color: #5FFFFF +} + +div.highlight .-Color[class*=-BGC87] { + background-color: #5FFFFF +} + +div.highlight .-Color[class*=-C88] { + color: #870000 +} + +div.highlight .-Color[class*=-BGC88] { + background-color: #870000 +} + +div.highlight .-Color[class*=-C89] { + color: #87005F +} + +div.highlight .-Color[class*=-BGC89] { + background-color: #87005F +} + +div.highlight .-Color[class*=-C90] { + color: #870087 +} + +div.highlight .-Color[class*=-BGC90] { + background-color: #870087 +} + +div.highlight .-Color[class*=-C91] { + color: #8700AF +} + +div.highlight .-Color[class*=-BGC91] { + background-color: #8700AF +} + +div.highlight .-Color[class*=-C92] { + color: #8700D7 +} + +div.highlight .-Color[class*=-BGC92] { + background-color: #8700D7 +} + +div.highlight .-Color[class*=-C93] { + color: #8700FF +} + +div.highlight .-Color[class*=-BGC93] { + background-color: #8700FF +} + +div.highlight .-Color[class*=-C94] { + color: #875F00 +} + +div.highlight .-Color[class*=-BGC94] { + background-color: #875F00 +} + +div.highlight .-Color[class*=-C95] { + color: #875F5F +} + +div.highlight .-Color[class*=-BGC95] { + background-color: #875F5F +} + +div.highlight .-Color[class*=-C96] { + color: #875F87 +} + +div.highlight .-Color[class*=-BGC96] { + background-color: #875F87 +} + +div.highlight .-Color[class*=-C97] { + color: #875FAF +} + +div.highlight .-Color[class*=-BGC97] { + background-color: #875FAF +} + +div.highlight .-Color[class*=-C98] { + color: #875FD7 +} + +div.highlight .-Color[class*=-BGC98] { + background-color: #875FD7 +} + +div.highlight .-Color[class*=-C99] { + color: #875FFF +} + +div.highlight .-Color[class*=-BGC99] { + background-color: #875FFF +} + +div.highlight .-Color[class*=-C100] { + color: #878700 +} + +div.highlight .-Color[class*=-BGC100] { + background-color: #878700 +} + +div.highlight .-Color[class*=-C101] { + color: #87875F +} + +div.highlight .-Color[class*=-BGC101] { + background-color: #87875F +} + +div.highlight .-Color[class*=-C102] { + color: #878787 +} + +div.highlight .-Color[class*=-BGC102] { + background-color: #878787 +} + +div.highlight .-Color[class*=-C103] { + color: #8787AF +} + +div.highlight .-Color[class*=-BGC103] { + background-color: #8787AF +} + +div.highlight .-Color[class*=-C104] { + color: #8787D7 +} + +div.highlight .-Color[class*=-BGC104] { + background-color: #8787D7 +} + +div.highlight .-Color[class*=-C105] { + color: #8787FF +} + +div.highlight .-Color[class*=-BGC105] { + background-color: #8787FF +} + +div.highlight .-Color[class*=-C106] { + color: #87AF00 +} + +div.highlight .-Color[class*=-BGC106] { + background-color: #87AF00 +} + +div.highlight .-Color[class*=-C107] { + color: #87AF5F +} + +div.highlight .-Color[class*=-BGC107] { + background-color: #87AF5F +} + +div.highlight .-Color[class*=-C108] { + color: #87AF87 +} + +div.highlight .-Color[class*=-BGC108] { + background-color: #87AF87 +} + +div.highlight .-Color[class*=-C109] { + color: #87AFAF +} + +div.highlight .-Color[class*=-BGC109] { + background-color: #87AFAF +} + +div.highlight .-Color[class*=-C110] { + color: #87AFD7 +} + +div.highlight .-Color[class*=-BGC110] { + background-color: #87AFD7 +} + +div.highlight .-Color[class*=-C111] { + color: #87AFFF +} + +div.highlight .-Color[class*=-BGC111] { + background-color: #87AFFF +} + +div.highlight .-Color[class*=-C112] { + color: #87D700 +} + +div.highlight .-Color[class*=-BGC112] { + background-color: #87D700 +} + +div.highlight .-Color[class*=-C113] { + color: #87D75F +} + +div.highlight .-Color[class*=-BGC113] { + background-color: #87D75F +} + +div.highlight .-Color[class*=-C114] { + color: #87D787 +} + +div.highlight .-Color[class*=-BGC114] { + background-color: #87D787 +} + +div.highlight .-Color[class*=-C115] { + color: #87D7AF +} + +div.highlight .-Color[class*=-BGC115] { + background-color: #87D7AF +} + +div.highlight .-Color[class*=-C116] { + color: #87D7D7 +} + +div.highlight .-Color[class*=-BGC116] { + background-color: #87D7D7 +} + +div.highlight .-Color[class*=-C117] { + color: #87D7FF +} + +div.highlight .-Color[class*=-BGC117] { + background-color: #87D7FF +} + +div.highlight .-Color[class*=-C118] { + color: #87FF00 +} + +div.highlight .-Color[class*=-BGC118] { + background-color: #87FF00 +} + +div.highlight .-Color[class*=-C119] { + color: #87FF5F +} + +div.highlight .-Color[class*=-BGC119] { + background-color: #87FF5F +} + +div.highlight .-Color[class*=-C120] { + color: #87FF87 +} + +div.highlight .-Color[class*=-BGC120] { + background-color: #87FF87 +} + +div.highlight .-Color[class*=-C121] { + color: #87FFAF +} + +div.highlight .-Color[class*=-BGC121] { + background-color: #87FFAF +} + +div.highlight .-Color[class*=-C122] { + color: #87FFD7 +} + +div.highlight .-Color[class*=-BGC122] { + background-color: #87FFD7 +} + +div.highlight .-Color[class*=-C123] { + color: #87FFFF +} + +div.highlight .-Color[class*=-BGC123] { + background-color: #87FFFF +} + +div.highlight .-Color[class*=-C124] { + color: #AF0000 +} + +div.highlight .-Color[class*=-BGC124] { + background-color: #AF0000 +} + +div.highlight .-Color[class*=-C125] { + color: #AF005F +} + +div.highlight .-Color[class*=-BGC125] { + background-color: #AF005F +} + +div.highlight .-Color[class*=-C126] { + color: #AF0087 +} + +div.highlight .-Color[class*=-BGC126] { + background-color: #AF0087 +} + +div.highlight .-Color[class*=-C127] { + color: #AF00AF +} + +div.highlight .-Color[class*=-BGC127] { + background-color: #AF00AF +} + +div.highlight .-Color[class*=-C128] { + color: #AF00D7 +} + +div.highlight .-Color[class*=-BGC128] { + background-color: #AF00D7 +} + +div.highlight .-Color[class*=-C129] { + color: #AF00FF +} + +div.highlight .-Color[class*=-BGC129] { + background-color: #AF00FF +} + +div.highlight .-Color[class*=-C130] { + color: #AF5F00 +} + 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background-color: #AF875F +} + +div.highlight .-Color[class*=-C138] { + color: #AF8787 +} + +div.highlight .-Color[class*=-BGC138] { + background-color: #AF8787 +} + +div.highlight .-Color[class*=-C139] { + color: #AF87AF +} + +div.highlight .-Color[class*=-BGC139] { + background-color: #AF87AF +} + +div.highlight .-Color[class*=-C140] { + color: #AF87D7 +} + +div.highlight .-Color[class*=-BGC140] { + background-color: #AF87D7 +} + +div.highlight .-Color[class*=-C141] { + color: #AF87FF +} + +div.highlight .-Color[class*=-BGC141] { + background-color: #AF87FF +} + +div.highlight .-Color[class*=-C142] { + color: #AFAF00 +} + +div.highlight .-Color[class*=-BGC142] { + background-color: #AFAF00 +} + +div.highlight .-Color[class*=-C143] { + color: #AFAF5F +} + +div.highlight .-Color[class*=-BGC143] { + background-color: #AFAF5F +} + +div.highlight .-Color[class*=-C144] { + color: #AFAF87 +} + +div.highlight .-Color[class*=-BGC144] { + background-color: #AFAF87 +} + +div.highlight 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#A45A77 } /* Literal.String.Regex */ +.highlight .s1 { color: #BA2121 } /* Literal.String.Single */ +.highlight .ss { color: #19177C } /* Literal.String.Symbol */ +.highlight .bp { color: #008000 } /* Name.Builtin.Pseudo */ +.highlight .fm { color: #0000FF } /* Name.Function.Magic */ +.highlight .vc { color: #19177C } /* Name.Variable.Class */ +.highlight .vg { color: #19177C } /* Name.Variable.Global */ +.highlight .vi { color: #19177C } /* Name.Variable.Instance */ +.highlight .vm { color: #19177C } /* Name.Variable.Magic */ +.highlight .il { color: #666666 } /* Literal.Number.Integer.Long */ \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/_static/searchtools.js b/branch/rantahar-autodoc-to-md/_static/searchtools.js new file mode 100644 index 0000000..b08d58c --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/searchtools.js @@ -0,0 +1,620 @@ +/* + * searchtools.js + * ~~~~~~~~~~~~~~~~ + * + * Sphinx JavaScript utilities for the full-text search. + * + * :copyright: Copyright 2007-2024 by the Sphinx team, see AUTHORS. + * :license: BSD, see LICENSE for details. + * + */ +"use strict"; + +/** + * Simple result scoring code. + */ +if (typeof Scorer === "undefined") { + var Scorer = { + // Implement the following function to further tweak the score for each result + // The function takes a result array [docname, title, anchor, descr, score, filename] + // and returns the new score. + /* + score: result => { + const [docname, title, anchor, descr, score, filename] = result + return score + }, + */ + + // query matches the full name of an object + objNameMatch: 11, + // or matches in the last dotted part of the object name + objPartialMatch: 6, + // Additive scores depending on the priority of the object + objPrio: { + 0: 15, // used to be importantResults + 1: 5, // used to be objectResults + 2: -5, // used to be unimportantResults + }, + // Used when the priority is not in the mapping. + objPrioDefault: 0, + + // query found in title + title: 15, + partialTitle: 7, + // query found in terms + term: 5, + partialTerm: 2, + }; +} + +const _removeChildren = (element) => { + while (element && element.lastChild) element.removeChild(element.lastChild); +}; + +/** + * See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Guide/Regular_Expressions#escaping + */ +const _escapeRegExp = (string) => + string.replace(/[.*+\-?^${}()|[\]\\]/g, "\\$&"); // $& means the whole matched string + +const _displayItem = (item, searchTerms, highlightTerms) => { + const docBuilder = DOCUMENTATION_OPTIONS.BUILDER; + const docFileSuffix = DOCUMENTATION_OPTIONS.FILE_SUFFIX; + const docLinkSuffix = DOCUMENTATION_OPTIONS.LINK_SUFFIX; + const showSearchSummary = DOCUMENTATION_OPTIONS.SHOW_SEARCH_SUMMARY; + const contentRoot = document.documentElement.dataset.content_root; + + const [docName, title, anchor, descr, score, _filename] = item; + + let listItem = document.createElement("li"); + let requestUrl; + let linkUrl; + if (docBuilder === "dirhtml") { + // dirhtml builder + let dirname = docName + "/"; + if (dirname.match(/\/index\/$/)) + dirname = dirname.substring(0, dirname.length - 6); + else if (dirname === "index/") dirname = ""; + requestUrl = contentRoot + dirname; + linkUrl = requestUrl; + } else { + // normal html builders + requestUrl = contentRoot + docName + docFileSuffix; + linkUrl = docName + docLinkSuffix; + } + let linkEl = listItem.appendChild(document.createElement("a")); + linkEl.href = linkUrl + anchor; + linkEl.dataset.score = score; + linkEl.innerHTML = title; + if (descr) { + listItem.appendChild(document.createElement("span")).innerHTML = + " (" + descr + ")"; + // highlight search terms in the description + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + } + else if (showSearchSummary) + fetch(requestUrl) + .then((responseData) => responseData.text()) + .then((data) => { + if (data) + listItem.appendChild( + Search.makeSearchSummary(data, searchTerms, anchor) + ); + // highlight search terms in the summary + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + }); + Search.output.appendChild(listItem); +}; +const _finishSearch = (resultCount) => { + Search.stopPulse(); + Search.title.innerText = _("Search Results"); + if (!resultCount) + Search.status.innerText = Documentation.gettext( + "Your search did not match any documents. Please make sure that all words are spelled correctly and that you've selected enough categories." + ); + else + Search.status.innerText = _( + "Search finished, found ${resultCount} page(s) matching the search query." + ).replace('${resultCount}', resultCount); +}; +const _displayNextItem = ( + results, + resultCount, + searchTerms, + highlightTerms, +) => { + // results left, load the summary and display it + // this is intended to be dynamic (don't sub resultsCount) + if (results.length) { + _displayItem(results.pop(), searchTerms, highlightTerms); + setTimeout( + () => _displayNextItem(results, resultCount, searchTerms, highlightTerms), + 5 + ); + } + // search finished, update title and status message + else _finishSearch(resultCount); +}; +// Helper function used by query() to order search results. +// Each input is an array of [docname, title, anchor, descr, score, filename]. +// Order the results by score (in opposite order of appearance, since the +// `_displayNextItem` function uses pop() to retrieve items) and then alphabetically. +const _orderResultsByScoreThenName = (a, b) => { + const leftScore = a[4]; + const rightScore = b[4]; + if (leftScore === rightScore) { + // same score: sort alphabetically + const leftTitle = a[1].toLowerCase(); + const rightTitle = b[1].toLowerCase(); + if (leftTitle === rightTitle) return 0; + return leftTitle > rightTitle ? -1 : 1; // inverted is intentional + } + return leftScore > rightScore ? 1 : -1; +}; + +/** + * Default splitQuery function. Can be overridden in ``sphinx.search`` with a + * custom function per language. + * + * The regular expression works by splitting the string on consecutive characters + * that are not Unicode letters, numbers, underscores, or emoji characters. + * This is the same as ``\W+`` in Python, preserving the surrogate pair area. + */ +if (typeof splitQuery === "undefined") { + var splitQuery = (query) => query + .split(/[^\p{Letter}\p{Number}_\p{Emoji_Presentation}]+/gu) + .filter(term => term) // remove remaining empty strings +} + +/** + * Search Module + */ +const Search = { + _index: null, + _queued_query: null, + _pulse_status: -1, + + htmlToText: (htmlString, anchor) => { + const htmlElement = new DOMParser().parseFromString(htmlString, 'text/html'); + for (const removalQuery of [".headerlink", "script", "style"]) { + htmlElement.querySelectorAll(removalQuery).forEach((el) => { el.remove() }); + } + if (anchor) { + const anchorContent = htmlElement.querySelector(`[role="main"] ${anchor}`); + if (anchorContent) return anchorContent.textContent; + + console.warn( + `Anchored content block not found. Sphinx search tries to obtain it via DOM query '[role=main] ${anchor}'. Check your theme or template.` + ); + } + + // if anchor not specified or not found, fall back to main content + const docContent = htmlElement.querySelector('[role="main"]'); + if (docContent) return docContent.textContent; + + console.warn( + "Content block not found. Sphinx search tries to obtain it via DOM query '[role=main]'. Check your theme or template." + ); + return ""; + }, + + init: () => { + const query = new URLSearchParams(window.location.search).get("q"); + document + .querySelectorAll('input[name="q"]') + .forEach((el) => (el.value = query)); + if (query) Search.performSearch(query); + }, + + loadIndex: (url) => + (document.body.appendChild(document.createElement("script")).src = url), + + setIndex: (index) => { + Search._index = index; + if (Search._queued_query !== null) { + const query = Search._queued_query; + Search._queued_query = null; + Search.query(query); + } + }, + + hasIndex: () => Search._index !== null, + + deferQuery: (query) => (Search._queued_query = query), + + stopPulse: () => (Search._pulse_status = -1), + + startPulse: () => { + if (Search._pulse_status >= 0) return; + + const pulse = () => { + Search._pulse_status = (Search._pulse_status + 1) % 4; + Search.dots.innerText = ".".repeat(Search._pulse_status); + if (Search._pulse_status >= 0) window.setTimeout(pulse, 500); + }; + pulse(); + }, + + /** + * perform a search for something (or wait until index is loaded) + */ + performSearch: (query) => { + // create the required interface elements + const searchText = document.createElement("h2"); + searchText.textContent = _("Searching"); + const searchSummary = document.createElement("p"); + searchSummary.classList.add("search-summary"); + searchSummary.innerText = ""; + const searchList = document.createElement("ul"); + searchList.classList.add("search"); + + const out = document.getElementById("search-results"); + Search.title = out.appendChild(searchText); + Search.dots = Search.title.appendChild(document.createElement("span")); + Search.status = out.appendChild(searchSummary); + Search.output = out.appendChild(searchList); + + const searchProgress = document.getElementById("search-progress"); + // Some themes don't use the search progress node + if (searchProgress) { + searchProgress.innerText = _("Preparing search..."); + } + Search.startPulse(); + + // index already loaded, the browser was quick! + if (Search.hasIndex()) Search.query(query); + else Search.deferQuery(query); + }, + + _parseQuery: (query) => { + // stem the search terms and add them to the correct list + const stemmer = new Stemmer(); + const searchTerms = new Set(); + const excludedTerms = new Set(); + const highlightTerms = new Set(); + const objectTerms = new Set(splitQuery(query.toLowerCase().trim())); + splitQuery(query.trim()).forEach((queryTerm) => { + const queryTermLower = queryTerm.toLowerCase(); + + // maybe skip this "word" + // stopwords array is from language_data.js + if ( + stopwords.indexOf(queryTermLower) !== -1 || + queryTerm.match(/^\d+$/) + ) + return; + + // stem the word + let word = stemmer.stemWord(queryTermLower); + // select the correct list + if (word[0] === "-") excludedTerms.add(word.substr(1)); + else { + searchTerms.add(word); + highlightTerms.add(queryTermLower); + } + }); + + if (SPHINX_HIGHLIGHT_ENABLED) { // set in sphinx_highlight.js + localStorage.setItem("sphinx_highlight_terms", [...highlightTerms].join(" ")) + } + + // console.debug("SEARCH: searching for:"); + // console.info("required: ", [...searchTerms]); + // console.info("excluded: ", [...excludedTerms]); + + return [query, searchTerms, excludedTerms, highlightTerms, objectTerms]; + }, + + /** + * execute search (requires search index to be loaded) + */ + _performSearch: (query, searchTerms, excludedTerms, highlightTerms, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + const allTitles = Search._index.alltitles; + const indexEntries = Search._index.indexentries; + + // Collect multiple result groups to be sorted separately and then ordered. + // Each is an array of [docname, title, anchor, descr, score, filename]. + const normalResults = []; + const nonMainIndexResults = []; + + _removeChildren(document.getElementById("search-progress")); + + const queryLower = query.toLowerCase().trim(); + for (const [title, foundTitles] of Object.entries(allTitles)) { + if (title.toLowerCase().trim().includes(queryLower) && (queryLower.length >= title.length/2)) { + for (const [file, id] of foundTitles) { + const score = Math.round(Scorer.title * queryLower.length / title.length); + const boost = titles[file] === title ? 1 : 0; // add a boost for document titles + normalResults.push([ + docNames[file], + titles[file] !== title ? `${titles[file]} > ${title}` : title, + id !== null ? "#" + id : "", + null, + score + boost, + filenames[file], + ]); + } + } + } + + // search for explicit entries in index directives + for (const [entry, foundEntries] of Object.entries(indexEntries)) { + if (entry.includes(queryLower) && (queryLower.length >= entry.length/2)) { + for (const [file, id, isMain] of foundEntries) { + const score = Math.round(100 * queryLower.length / entry.length); + const result = [ + docNames[file], + titles[file], + id ? "#" + id : "", + null, + score, + filenames[file], + ]; + if (isMain) { + normalResults.push(result); + } else { + nonMainIndexResults.push(result); + } + } + } + } + + // lookup as object + objectTerms.forEach((term) => + normalResults.push(...Search.performObjectSearch(term, objectTerms)) + ); + + // lookup as search terms in fulltext + normalResults.push(...Search.performTermsSearch(searchTerms, excludedTerms)); + + // let the scorer override scores with a custom scoring function + if (Scorer.score) { + normalResults.forEach((item) => (item[4] = Scorer.score(item))); + nonMainIndexResults.forEach((item) => (item[4] = Scorer.score(item))); + } + + // Sort each group of results by score and then alphabetically by name. + normalResults.sort(_orderResultsByScoreThenName); + nonMainIndexResults.sort(_orderResultsByScoreThenName); + + // Combine the result groups in (reverse) order. + // Non-main index entries are typically arbitrary cross-references, + // so display them after other results. + let results = [...nonMainIndexResults, ...normalResults]; + + // remove duplicate search results + // note the reversing of results, so that in the case of duplicates, the highest-scoring entry is kept + let seen = new Set(); + results = results.reverse().reduce((acc, result) => { + let resultStr = result.slice(0, 4).concat([result[5]]).map(v => String(v)).join(','); + if (!seen.has(resultStr)) { + acc.push(result); + seen.add(resultStr); + } + return acc; + }, []); + + return results.reverse(); + }, + + query: (query) => { + const [searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms] = Search._parseQuery(query); + const results = Search._performSearch(searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms); + + // for debugging + //Search.lastresults = results.slice(); // a copy + // console.info("search results:", Search.lastresults); + + // print the results + _displayNextItem(results, results.length, searchTerms, highlightTerms); + }, + + /** + * search for object names + */ + performObjectSearch: (object, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const objects = Search._index.objects; + const objNames = Search._index.objnames; + const titles = Search._index.titles; + + const results = []; + + const objectSearchCallback = (prefix, match) => { + const name = match[4] + const fullname = (prefix ? prefix + "." : "") + name; + const fullnameLower = fullname.toLowerCase(); + if (fullnameLower.indexOf(object) < 0) return; + + let score = 0; + const parts = fullnameLower.split("."); + + // check for different match types: exact matches of full name or + // "last name" (i.e. last dotted part) + if (fullnameLower === object || parts.slice(-1)[0] === object) + score += Scorer.objNameMatch; + else if (parts.slice(-1)[0].indexOf(object) > -1) + score += Scorer.objPartialMatch; // matches in last name + + const objName = objNames[match[1]][2]; + const title = titles[match[0]]; + + // If more than one term searched for, we require other words to be + // found in the name/title/description + const otherTerms = new Set(objectTerms); + otherTerms.delete(object); + if (otherTerms.size > 0) { + const haystack = `${prefix} ${name} ${objName} ${title}`.toLowerCase(); + if ( + [...otherTerms].some((otherTerm) => haystack.indexOf(otherTerm) < 0) + ) + return; + } + + let anchor = match[3]; + if (anchor === "") anchor = fullname; + else if (anchor === "-") anchor = objNames[match[1]][1] + "-" + fullname; + + const descr = objName + _(", in ") + title; + + // add custom score for some objects according to scorer + if (Scorer.objPrio.hasOwnProperty(match[2])) + score += Scorer.objPrio[match[2]]; + else score += Scorer.objPrioDefault; + + results.push([ + docNames[match[0]], + fullname, + "#" + anchor, + descr, + score, + filenames[match[0]], + ]); + }; + Object.keys(objects).forEach((prefix) => + objects[prefix].forEach((array) => + objectSearchCallback(prefix, array) + ) + ); + return results; + }, + + /** + * search for full-text terms in the index + */ + performTermsSearch: (searchTerms, excludedTerms) => { + // prepare search + const terms = Search._index.terms; + const titleTerms = Search._index.titleterms; + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + + const scoreMap = new Map(); + const fileMap = new Map(); + + // perform the search on the required terms + searchTerms.forEach((word) => { + const files = []; + const arr = [ + { files: terms[word], score: Scorer.term }, + { files: titleTerms[word], score: Scorer.title }, + ]; + // add support for partial matches + if (word.length > 2) { + const escapedWord = _escapeRegExp(word); + if (!terms.hasOwnProperty(word)) { + Object.keys(terms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: terms[term], score: Scorer.partialTerm }); + }); + } + if (!titleTerms.hasOwnProperty(word)) { + Object.keys(titleTerms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: titleTerms[term], score: Scorer.partialTitle }); + }); + } + } + + // no match but word was a required one + if (arr.every((record) => record.files === undefined)) return; + + // found search word in contents + arr.forEach((record) => { + if (record.files === undefined) return; + + let recordFiles = record.files; + if (recordFiles.length === undefined) recordFiles = [recordFiles]; + files.push(...recordFiles); + + // set score for the word in each file + recordFiles.forEach((file) => { + if (!scoreMap.has(file)) scoreMap.set(file, {}); + scoreMap.get(file)[word] = record.score; + }); + }); + + // create the mapping + files.forEach((file) => { + if (!fileMap.has(file)) fileMap.set(file, [word]); + else if (fileMap.get(file).indexOf(word) === -1) fileMap.get(file).push(word); + }); + }); + + // now check if the files don't contain excluded terms + const results = []; + for (const [file, wordList] of fileMap) { + // check if all requirements are matched + + // as search terms with length < 3 are discarded + const filteredTermCount = [...searchTerms].filter( + (term) => term.length > 2 + ).length; + if ( + wordList.length !== searchTerms.size && + wordList.length !== filteredTermCount + ) + continue; + + // ensure that none of the excluded terms is in the search result + if ( + [...excludedTerms].some( + (term) => + terms[term] === file || + titleTerms[term] === file || + (terms[term] || []).includes(file) || + (titleTerms[term] || []).includes(file) + ) + ) + break; + + // select one (max) score for the file. + const score = Math.max(...wordList.map((w) => scoreMap.get(file)[w])); + // add result to the result list + results.push([ + docNames[file], + titles[file], + "", + null, + score, + filenames[file], + ]); + } + return results; + }, + + /** + * helper function to return a node containing the + * search summary for a given text. keywords is a list + * of stemmed words. + */ + makeSearchSummary: (htmlText, keywords, anchor) => { + const text = Search.htmlToText(htmlText, anchor); + if (text === "") return null; + + const textLower = text.toLowerCase(); + const actualStartPosition = [...keywords] + .map((k) => textLower.indexOf(k.toLowerCase())) + .filter((i) => i > -1) + .slice(-1)[0]; + const startWithContext = Math.max(actualStartPosition - 120, 0); + + const top = startWithContext === 0 ? "" : "..."; + const tail = startWithContext + 240 < text.length ? "..." : ""; + + let summary = document.createElement("p"); + summary.classList.add("context"); + summary.textContent = top + text.substr(startWithContext, 240).trim() + tail; + + return summary; + }, +}; + +_ready(Search.init); diff --git a/branch/rantahar-autodoc-to-md/_static/sphinx_highlight.js b/branch/rantahar-autodoc-to-md/_static/sphinx_highlight.js new file mode 100644 index 0000000..8a96c69 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/sphinx_highlight.js @@ -0,0 +1,154 @@ +/* Highlighting utilities for Sphinx HTML documentation. */ +"use strict"; + +const SPHINX_HIGHLIGHT_ENABLED = true + +/** + * highlight a given string on a node by wrapping it in + * span elements with the given class name. + */ +const _highlight = (node, addItems, text, className) => { + if (node.nodeType === Node.TEXT_NODE) { + const val = node.nodeValue; + const parent = node.parentNode; + const pos = val.toLowerCase().indexOf(text); + if ( + pos >= 0 && + !parent.classList.contains(className) && + !parent.classList.contains("nohighlight") + ) { + let span; + + const closestNode = parent.closest("body, svg, foreignObject"); + const isInSVG = closestNode && closestNode.matches("svg"); + if (isInSVG) { + span = document.createElementNS("http://www.w3.org/2000/svg", "tspan"); + } else { + span = document.createElement("span"); + span.classList.add(className); + } + + span.appendChild(document.createTextNode(val.substr(pos, text.length))); + const rest = document.createTextNode(val.substr(pos + text.length)); + parent.insertBefore( + span, + parent.insertBefore( + rest, + node.nextSibling + ) + ); + node.nodeValue = val.substr(0, pos); + /* There may be more occurrences of search term in this node. So call this + * function recursively on the remaining fragment. + */ + _highlight(rest, addItems, text, className); + + if (isInSVG) { + const rect = document.createElementNS( + "http://www.w3.org/2000/svg", + "rect" + ); + const bbox = parent.getBBox(); + rect.x.baseVal.value = bbox.x; + rect.y.baseVal.value = bbox.y; + rect.width.baseVal.value = bbox.width; + rect.height.baseVal.value = bbox.height; + rect.setAttribute("class", className); + addItems.push({ parent: parent, target: rect }); + } + } + } else if (node.matches && !node.matches("button, select, textarea")) { + node.childNodes.forEach((el) => _highlight(el, addItems, text, className)); + } +}; +const _highlightText = (thisNode, text, className) => { + let addItems = []; + _highlight(thisNode, addItems, text, className); + addItems.forEach((obj) => + obj.parent.insertAdjacentElement("beforebegin", obj.target) + ); +}; + +/** + * Small JavaScript module for the documentation. + */ +const SphinxHighlight = { + + /** + * highlight the search words provided in localstorage in the text + */ + highlightSearchWords: () => { + if (!SPHINX_HIGHLIGHT_ENABLED) return; // bail if no highlight + + // get and clear terms from localstorage + const url = new URL(window.location); + const highlight = + localStorage.getItem("sphinx_highlight_terms") + || url.searchParams.get("highlight") + || ""; + localStorage.removeItem("sphinx_highlight_terms") + url.searchParams.delete("highlight"); + window.history.replaceState({}, "", url); + + // get individual terms from highlight string + const terms = highlight.toLowerCase().split(/\s+/).filter(x => x); + if (terms.length === 0) return; // nothing to do + + // There should never be more than one element matching "div.body" + const divBody = document.querySelectorAll("div.body"); + const body = divBody.length ? divBody[0] : document.querySelector("body"); + window.setTimeout(() => { + terms.forEach((term) => _highlightText(body, term, "highlighted")); + }, 10); + + const searchBox = document.getElementById("searchbox"); + if (searchBox === null) return; + searchBox.appendChild( + document + .createRange() + .createContextualFragment( + '

' + + '' + + _("Hide Search Matches") + + "

" + ) + ); + }, + + /** + * helper function to hide the search marks again + */ + hideSearchWords: () => { + document + .querySelectorAll("#searchbox .highlight-link") + .forEach((el) => el.remove()); + document + .querySelectorAll("span.highlighted") + .forEach((el) => el.classList.remove("highlighted")); + localStorage.removeItem("sphinx_highlight_terms") + }, + + initEscapeListener: () => { + // only install a listener if it is really needed + if (!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS) return; + + document.addEventListener("keydown", (event) => { + // bail for input elements + if (BLACKLISTED_KEY_CONTROL_ELEMENTS.has(document.activeElement.tagName)) return; + // bail with special keys + if (event.shiftKey || event.altKey || event.ctrlKey || event.metaKey) return; + if (DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS && (event.key === "Escape")) { + SphinxHighlight.hideSearchWords(); + event.preventDefault(); + } + }); + }, +}; + +_ready(() => { + /* Do not call highlightSearchWords() when we are on the search page. + * It will highlight words from the *previous* search query. + */ + if (typeof Search === "undefined") SphinxHighlight.highlightSearchWords(); + SphinxHighlight.initEscapeListener(); +}); diff --git a/branch/rantahar-autodoc-to-md/_static/sphinx_lesson.css b/branch/rantahar-autodoc-to-md/_static/sphinx_lesson.css new file mode 100644 index 0000000..14b20c6 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/sphinx_lesson.css @@ -0,0 +1,51 @@ +/* sphinx_lesson.css */ + +body.wy-body-for-nav img.with-border { + border: 2px solid; +} + +.rst-content .admonition-no-content { + padding-bottom: 0px; +} + +.rst-content .demo > .admonition-title::before { + content: "\01F440"; /* Eyes */ } +.rst-content .type-along > .admonition-title::before { + content: "\02328\0FE0F"; /* Keyboard */ } +.rst-content .exercise > .admonition-title::before { + content: "\0270D\0FE0F"; /* Hand */ } +.rst-content .solution > .admonition-title::before { + content: "\02714\0FE0E"; /* Check mark */ } +.rst-content .homework > .admonition-title::before { + content: "\01F4DD"; /* Memo */ } +.rst-content .discussion > .admonition-title::before { + content: "\01F4AC"; /* Speech balloon */ } +.rst-content .questions > .admonition-title::before { + content: "\02753\0FE0E"; /* Question mark */ } +.rst-content .prerequisites > .admonition-title::before { + content: "\02699"; /* Gear */ } +.rst-content .seealso > .admonition-title::before { + content: "\027A1\0FE0E"; /* Question mark */ } + + +/* instructor-note */ +.rst-content .instructor-note { + background: #e7e7e7; +} +.rst-content .instructor-note > .admonition-title { + background: #6a6a6a; +} +.rst-content .instructor-note > .admonition-title::before { + content: ""; +} + + +/* sphinx_toggle_button, make the font white */ +.rst-content .toggle.admonition button.toggle-button { + color: white; +} + +/* sphinx-togglebutton, remove underflow when toggled to hidden mode */ +.rst-content .admonition.toggle-hidden { + padding-bottom: 0px; +} diff --git a/branch/rantahar-autodoc-to-md/_static/sphinx_rtd_theme_ext_color_contrast.css b/branch/rantahar-autodoc-to-md/_static/sphinx_rtd_theme_ext_color_contrast.css new file mode 100644 index 0000000..e68feb8 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/sphinx_rtd_theme_ext_color_contrast.css @@ -0,0 +1,47 @@ +/* The following are for web accessibility of sphinx_rtd_theme: they + * solve some of the most frequent contrast issues. Remove when this + * solved: + * https://github.com/readthedocs/sphinx_rtd_theme/issues/971 + */ +/* background: #fcfcfc, note boxes #E7F2FA */ +a { color: #2573A7; } /* original #2980B9, #1F5C84; */ +body { color: #242424; } /* original #404040, #383838 */ +.wy-side-nav-search>a, .wy-side-nav-search .wy-dropdown>a { + color: #ffffff; +} /* original #fcfcfc */ +footer { color: #737373; } /* original gray=#808080*/ +footer span.commit code, footer span.commit .rst-content tt, .rst-content footer span.commit tt { + color: #737373; +} /* original gray=#808080*/ +.rst-content tt.literal, .rst-content tt.literal, .rst-content code.literal { + color: #AB2314; +} +/* Sidebar background */ +.wy-side-nav-search { background-color: #277CB4;} + +/* Same, but for pygments */ +.highlight .ch { color: #3E7A89; } /* #! line */ +.highlight .c1 { color: #3E7A89; } /* also comments */ +.highlight .nv { color: #AD3ECC; } /* variable */ +.highlight .gp { color: #B45608; } /* prompt character, $*/ +.highlight .si { color: #3975B1; } /* ${} variable text */ +.highlight .nc { color: #0C78A7; } + +/* Sphinx admonitions */ +/* warning */ +.wy-alert.wy-alert-warning .wy-alert-title, .rst-content .wy-alert-warning.note .wy-alert-title, .rst-content .attention .wy-alert-title, .rst-content .caution .wy-alert-title, .rst-content .wy-alert-warning.danger .wy-alert-title, .rst-content .wy-alert-warning.error .wy-alert-title, .rst-content .wy-alert-warning.hint .wy-alert-title, .rst-content .wy-alert-warning.important .wy-alert-title, .rst-content .wy-alert-warning.tip .wy-alert-title, .rst-content .warning .wy-alert-title, .rst-content .wy-alert-warning.seealso .wy-alert-title, .rst-content .admonition-todo .wy-alert-title, .rst-content .wy-alert-warning.admonition .wy-alert-title, .wy-alert.wy-alert-warning .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-warning .admonition-title, .rst-content .wy-alert-warning.note .admonition-title, .rst-content .attention .admonition-title, .rst-content .caution .admonition-title, .rst-content .wy-alert-warning.danger .admonition-title, .rst-content .wy-alert-warning.error .admonition-title, .rst-content .wy-alert-warning.hint .admonition-title, .rst-content .wy-alert-warning.important .admonition-title, .rst-content .wy-alert-warning.tip .admonition-title, .rst-content .warning .admonition-title, .rst-content .wy-alert-warning.seealso .admonition-title, .rst-content .admonition-todo .admonition-title, .rst-content .wy-alert-warning.admonition .admonition-title { + background: #B15E16; } +/* important */ +.wy-alert.wy-alert-success .wy-alert-title, .rst-content .wy-alert-success.note .wy-alert-title, .rst-content .wy-alert-success.attention .wy-alert-title, .rst-content .wy-alert-success.caution .wy-alert-title, .rst-content .wy-alert-success.danger .wy-alert-title, .rst-content .wy-alert-success.error .wy-alert-title, .rst-content .hint .wy-alert-title, .rst-content .important .wy-alert-title, .rst-content .tip .wy-alert-title, .rst-content .wy-alert-success.warning .wy-alert-title, .rst-content .wy-alert-success.seealso .wy-alert-title, .rst-content .wy-alert-success.admonition-todo .wy-alert-title, .rst-content .wy-alert-success.admonition .wy-alert-title, .wy-alert.wy-alert-success .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-success .admonition-title, .rst-content .wy-alert-success.note .admonition-title, .rst-content .wy-alert-success.attention .admonition-title, .rst-content .wy-alert-success.caution .admonition-title, .rst-content .wy-alert-success.danger .admonition-title, .rst-content .wy-alert-success.error .admonition-title, .rst-content .hint .admonition-title, .rst-content .important .admonition-title, .rst-content .tip .admonition-title, .rst-content .wy-alert-success.warning .admonition-title, .rst-content .wy-alert-success.seealso .admonition-title, .rst-content .wy-alert-success.admonition-todo .admonition-title, .rst-content .wy-alert-success.admonition .admonition-title { + background: #12826C; } +/* seealso, note, etc */ +.wy-alert.wy-alert-info .wy-alert-title, .rst-content .note .wy-alert-title, .rst-content .wy-alert-info.attention .wy-alert-title, .rst-content .wy-alert-info.caution .wy-alert-title, .rst-content .wy-alert-info.danger .wy-alert-title, .rst-content .wy-alert-info.error .wy-alert-title, .rst-content .wy-alert-info.hint .wy-alert-title, .rst-content .wy-alert-info.important .wy-alert-title, .rst-content .wy-alert-info.tip .wy-alert-title, .rst-content .wy-alert-info.warning .wy-alert-title, .rst-content .seealso .wy-alert-title, .rst-content .wy-alert-info.admonition-todo .wy-alert-title, .rst-content .wy-alert-info.admonition .wy-alert-title, .wy-alert.wy-alert-info .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-info .admonition-title, .rst-content .note .admonition-title, .rst-content .wy-alert-info.attention .admonition-title, .rst-content .wy-alert-info.caution .admonition-title, .rst-content .wy-alert-info.danger .admonition-title, .rst-content .wy-alert-info.error .admonition-title, .rst-content .wy-alert-info.hint .admonition-title, .rst-content .wy-alert-info.important .admonition-title, .rst-content .wy-alert-info.tip .admonition-title, .rst-content .wy-alert-info.warning .admonition-title, .rst-content .seealso .admonition-title, .rst-content .wy-alert-info.admonition-todo .admonition-title, .rst-content .wy-alert-info.admonition .admonition-title { + background: #277CB4; } +/* error, danger */ +.rst-content .danger .admonition-title, .rst-content .danger .wy-alert-title, .rst-content .error .admonition-title, .rst-content .error .wy-alert-title, .rst-content .wy-alert-danger.admonition-todo .admonition-title, .rst-content .wy-alert-danger.admonition-todo .wy-alert-title, .rst-content .wy-alert-danger.admonition .admonition-title, .rst-content .wy-alert-danger.admonition .wy-alert-title, .rst-content .wy-alert-danger.attention .admonition-title, .rst-content .wy-alert-danger.attention .wy-alert-title, .rst-content .wy-alert-danger.caution .admonition-title, .rst-content .wy-alert-danger.caution .wy-alert-title, .rst-content .wy-alert-danger.hint .admonition-title, .rst-content .wy-alert-danger.hint .wy-alert-title, .rst-content .wy-alert-danger.important .admonition-title, .rst-content .wy-alert-danger.important .wy-alert-title, .rst-content .wy-alert-danger.note .admonition-title, .rst-content .wy-alert-danger.note .wy-alert-title, .rst-content .wy-alert-danger.seealso .admonition-title, .rst-content .wy-alert-danger.seealso .wy-alert-title, .rst-content .wy-alert-danger.tip .admonition-title, .rst-content .wy-alert-danger.tip .wy-alert-title, .rst-content .wy-alert-danger.warning .admonition-title, .rst-content .wy-alert-danger.warning .wy-alert-title, .rst-content .wy-alert.wy-alert-danger .admonition-title, .wy-alert.wy-alert-danger .rst-content .admonition-title, .wy-alert.wy-alert-danger .wy-alert-title { + background: #e31704; +} + +/* Generic admonition titles */ +.wy-alert-title, .rst-content .admonition-title { + background: #277CB4; } diff --git a/branch/rantahar-autodoc-to-md/_static/tabs.css b/branch/rantahar-autodoc-to-md/_static/tabs.css new file mode 100644 index 0000000..957ba60 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/tabs.css @@ -0,0 +1,89 @@ +.sphinx-tabs { + margin-bottom: 1rem; +} + +[role="tablist"] { + border-bottom: 1px solid #a0b3bf; +} + +.sphinx-tabs-tab { + position: relative; + font-family: Lato,'Helvetica Neue',Arial,Helvetica,sans-serif; + color: #1D5C87; + line-height: 24px; + margin: 0; + font-size: 16px; + font-weight: 400; + background-color: rgba(255, 255, 255, 0); + border-radius: 5px 5px 0 0; + border: 0; + padding: 1rem 1.5rem; + margin-bottom: 0; +} + +.sphinx-tabs-tab[aria-selected="true"] { + font-weight: 700; + border: 1px solid #a0b3bf; + border-bottom: 1px solid white; + margin: -1px; + background-color: white; +} + +.sphinx-tabs-tab:focus { + z-index: 1; + outline-offset: 1px; +} + +.sphinx-tabs-panel { + position: relative; + padding: 1rem; + border: 1px solid #a0b3bf; + margin: 0px -1px -1px -1px; + border-radius: 0 0 5px 5px; + border-top: 0; + background: white; +} + +.sphinx-tabs-panel.code-tab { + padding: 0.4rem; +} + +.sphinx-tab img { + margin-bottom: 24 px; +} + +/* Dark theme preference styling */ + +@media (prefers-color-scheme: dark) { + body[data-theme="auto"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); + } + + body[data-theme="auto"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); + } + + body[data-theme="auto"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 1px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); + } +} + +/* Explicit dark theme styling */ + +body[data-theme="dark"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); +} + +body[data-theme="dark"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); +} + +body[data-theme="dark"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 2px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); +} diff --git a/branch/rantahar-autodoc-to-md/_static/tabs.js b/branch/rantahar-autodoc-to-md/_static/tabs.js new file mode 100644 index 0000000..48dc303 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/tabs.js @@ -0,0 +1,145 @@ +try { + var session = window.sessionStorage || {}; +} catch (e) { + var session = {}; +} + +window.addEventListener("DOMContentLoaded", () => { + const allTabs = document.querySelectorAll('.sphinx-tabs-tab'); + const tabLists = document.querySelectorAll('[role="tablist"]'); + + allTabs.forEach(tab => { + tab.addEventListener("click", changeTabs); + }); + + tabLists.forEach(tabList => { + tabList.addEventListener("keydown", keyTabs); + }); + + // Restore group tab selection from session + const lastSelected = session.getItem('sphinx-tabs-last-selected'); + if (lastSelected != null) selectNamedTabs(lastSelected); +}); + +/** + * Key focus left and right between sibling elements using arrows + * @param {Node} e the element in focus when key was pressed + */ +function keyTabs(e) { + const tab = e.target; + let nextTab = null; + if (e.keyCode === 39 || e.keyCode === 37) { + tab.setAttribute("tabindex", -1); + // Move right + if (e.keyCode === 39) { + nextTab = tab.nextElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.firstElementChild; + } + // Move left + } else if (e.keyCode === 37) { + nextTab = tab.previousElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.lastElementChild; + } + } + } + + if (nextTab !== null) { + nextTab.setAttribute("tabindex", 0); + nextTab.focus(); + } +} + +/** + * Select or deselect clicked tab. If a group tab + * is selected, also select tab in other tabLists. + * @param {Node} e the element that was clicked + */ +function changeTabs(e) { + // Use this instead of the element that was clicked, in case it's a child + const notSelected = this.getAttribute("aria-selected") === "false"; + const positionBefore = this.parentNode.getBoundingClientRect().top; + const notClosable = !this.parentNode.classList.contains("closeable"); + + deselectTabList(this); + + if (notSelected || notClosable) { + selectTab(this); + const name = this.getAttribute("name"); + selectNamedTabs(name, this.id); + + if (this.classList.contains("group-tab")) { + // Persist during session + session.setItem('sphinx-tabs-last-selected', name); + } + } + + const positionAfter = this.parentNode.getBoundingClientRect().top; + const positionDelta = positionAfter - positionBefore; + // Scroll to offset content resizing + window.scrollTo(0, window.scrollY + positionDelta); +} + +/** + * Select tab and show associated panel. + * @param {Node} tab tab to select + */ +function selectTab(tab) { + tab.setAttribute("aria-selected", true); + + // Show the associated panel + document + .getElementById(tab.getAttribute("aria-controls")) + .removeAttribute("hidden"); +} + +/** + * Hide the panels associated with all tabs within the + * tablist containing this tab. + * @param {Node} tab a tab within the tablist to deselect + */ +function deselectTabList(tab) { + const parent = tab.parentNode; + const grandparent = parent.parentNode; + + Array.from(parent.children) + .forEach(t => t.setAttribute("aria-selected", false)); + + Array.from(grandparent.children) + .slice(1) // Skip tablist + .forEach(panel => panel.setAttribute("hidden", true)); +} + +/** + * Select grouped tabs with the same name, but no the tab + * with the given id. + * @param {Node} name name of grouped tab to be selected + * @param {Node} clickedId id of clicked tab + */ +function selectNamedTabs(name, clickedId=null) { + const groupedTabs = document.querySelectorAll(`.sphinx-tabs-tab[name="${name}"]`); + const tabLists = Array.from(groupedTabs).map(tab => tab.parentNode); + + tabLists + .forEach(tabList => { + // Don't want to change the tabList containing the clicked tab + const clickedTab = tabList.querySelector(`[id="${clickedId}"]`); + if (clickedTab === null ) { + // Select first tab with matching name + const tab = tabList.querySelector(`.sphinx-tabs-tab[name="${name}"]`); + deselectTabList(tab); + selectTab(tab); + } + }) +} + +if (typeof exports === 'undefined') { + exports = {}; +} + +exports.keyTabs = keyTabs; +exports.changeTabs = changeTabs; +exports.selectTab = selectTab; +exports.deselectTabList = deselectTabList; +exports.selectNamedTabs = selectNamedTabs; diff --git a/branch/rantahar-autodoc-to-md/_static/term_role_formatting.css b/branch/rantahar-autodoc-to-md/_static/term_role_formatting.css new file mode 100644 index 0000000..0b66095 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/term_role_formatting.css @@ -0,0 +1,4 @@ +/* Make terms bold */ +a.reference span.std-term { + font-weight: bold; +} diff --git a/branch/rantahar-autodoc-to-md/_static/togglebutton.css b/branch/rantahar-autodoc-to-md/_static/togglebutton.css new file mode 100644 index 0000000..54a6787 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/togglebutton.css @@ -0,0 +1,160 @@ +/** + * Admonition-based toggles + */ + +/* Visibility of the target */ +.admonition.toggle .admonition-title ~ * { + transition: opacity .3s, height .3s; +} + +/* Toggle buttons inside admonitions so we see the title */ +.admonition.toggle { + position: relative; +} + +/* Titles should cut off earlier to avoid overlapping w/ button */ +.admonition.toggle .admonition-title { + padding-right: 25%; + cursor: pointer; +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:hover { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 1%); +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:active { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 3%); +} + +/* Remove extra whitespace below the admonition title when hidden */ +.admonition.toggle-hidden { + padding-bottom: 0; +} + +.admonition.toggle-hidden .admonition-title { + margin-bottom: 0; +} + +/* hides all the content of a page until de-toggled */ +.admonition.toggle-hidden .admonition-title ~ * { + height: 0; + margin: 0; + opacity: 0; + visibility: hidden; +} + +/* General button style and position*/ +button.toggle-button { + /** + * Background and shape. By default there's no background + * but users can style as they wish + */ + background: none; + border: none; + outline: none; + + /* Positioning just inside the admonition title */ + position: absolute; + right: 0.5em; + padding: 0px; + border: none; + outline: none; +} + +/* Display the toggle hint on wide screens */ +@media (min-width: 768px) { + button.toggle-button.toggle-button-hidden:before { + content: attr(data-toggle-hint); /* This will be filled in by JS */ + font-size: .8em; + align-self: center; + } +} + +/* Icon behavior */ +.tb-icon { + transition: transform .2s ease-out; + height: 1.5em; + width: 1.5em; + stroke: currentColor; /* So that we inherit the color of other text */ +} + +/* The icon should point right when closed, down when open. */ +/* Open */ +.admonition.toggle button .tb-icon { + transform: rotate(90deg); +} + +/* Closed */ +.admonition.toggle button.toggle-button-hidden .tb-icon { + transform: rotate(0deg); +} + +/* With details toggles, we don't rotate the icon so it points right */ +details.toggle-details .tb-icon { + height: 1.4em; + width: 1.4em; + margin-top: 0.1em; /* To center the button vertically */ +} + + +/** + * Details-based toggles. + * In this case, we wrap elements with `.toggle` in a details block. + */ + +/* Details blocks */ +details.toggle-details { + margin: 1em 0; +} + + +details.toggle-details summary { + display: flex; + align-items: center; + cursor: pointer; + list-style: none; + border-radius: .2em; + border-left: 3px solid #1976d2; + background-color: rgb(204 204 204 / 10%); + padding: 0.2em 0.7em 0.3em 0.5em; /* Less padding on left because the SVG has left margin */ + font-size: 0.9em; +} + +details.toggle-details summary:hover { + background-color: rgb(204 204 204 / 20%); +} + +details.toggle-details summary:active { + background: rgb(204 204 204 / 28%); +} + +.toggle-details__summary-text { + margin-left: 0.2em; +} + +details.toggle-details[open] summary { + margin-bottom: .5em; +} + +details.toggle-details[open] summary .tb-icon { + transform: rotate(90deg); +} + +details.toggle-details[open] summary ~ * { + animation: toggle-fade-in .3s ease-out; +} + +@keyframes toggle-fade-in { + from {opacity: 0%;} + to {opacity: 100%;} +} + +/* Print rules - we hide all toggle button elements at print */ +@media print { + /* Always hide the summary so the button doesn't show up */ + details.toggle-details summary { + display: none; + } +} \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/_static/togglebutton.js b/branch/rantahar-autodoc-to-md/_static/togglebutton.js new file mode 100644 index 0000000..215a7ee --- /dev/null +++ b/branch/rantahar-autodoc-to-md/_static/togglebutton.js @@ -0,0 +1,187 @@ +/** + * Add Toggle Buttons to elements + */ + +let toggleChevron = ` + + + +`; + +var initToggleItems = () => { + var itemsToToggle = document.querySelectorAll(togglebuttonSelector); + console.log(`[togglebutton]: Adding toggle buttons to ${itemsToToggle.length} items`) + // Add the button to each admonition and hook up a callback to toggle visibility + itemsToToggle.forEach((item, index) => { + if (item.classList.contains("admonition")) { + // If it's an admonition block, then we'll add a button inside + // Generate unique IDs for this item + var toggleID = `toggle-${index}`; + var buttonID = `button-${toggleID}`; + + item.setAttribute('id', toggleID); + if (!item.classList.contains("toggle")){ + item.classList.add("toggle"); + } + // This is the button that will be added to each item to trigger the toggle + var collapseButton = ` + `; + + title = item.querySelector(".admonition-title") + title.insertAdjacentHTML("beforeend", collapseButton); + thisButton = document.getElementById(buttonID); + + // Add click handlers for the button + admonition title (if admonition) + admonitionTitle = document.querySelector(`#${toggleID} > .admonition-title`) + if (admonitionTitle) { + // If an admonition, then make the whole title block clickable + admonitionTitle.addEventListener('click', toggleClickHandler); + admonitionTitle.dataset.target = toggleID + admonitionTitle.dataset.button = buttonID + } else { + // If not an admonition then we'll listen for the button click + thisButton.addEventListener('click', toggleClickHandler); + } + + // Now hide the item for this toggle button unless explicitly noted to show + if (!item.classList.contains("toggle-shown")) { + toggleHidden(thisButton); + } + } else { + // If not an admonition, wrap the block in a
block + // Define the structure of the details block and insert it as a sibling + var detailsBlock = ` +
+ + ${toggleChevron} + ${toggleHintShow} + +
`; + item.insertAdjacentHTML("beforebegin", detailsBlock); + + // Now move the toggle-able content inside of the details block + details = item.previousElementSibling + details.appendChild(item) + item.classList.add("toggle-details__container") + + // Set up a click trigger to change the text as needed + details.addEventListener('click', (click) => { + let parent = click.target.parentElement; + if (parent.tagName.toLowerCase() == "details") { + summary = parent.querySelector("summary"); + details = parent; + } else { + summary = parent; + details = parent.parentElement; + } + // Update the inner text for the proper hint + if (details.open) { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintShow; + } else { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintHide; + } + + }); + + // If we have a toggle-shown class, open details block should be open + if (item.classList.contains("toggle-shown")) { + details.click(); + } + } + }) +}; + +// This should simply add / remove the collapsed class and change the button text +var toggleHidden = (button) => { + target = button.dataset['target'] + var itemToToggle = document.getElementById(target); + if (itemToToggle.classList.contains("toggle-hidden")) { + itemToToggle.classList.remove("toggle-hidden"); + button.classList.remove("toggle-button-hidden"); + } else { + itemToToggle.classList.add("toggle-hidden"); + button.classList.add("toggle-button-hidden"); + } +} + +var toggleClickHandler = (click) => { + // Be cause the admonition title is clickable and extends to the whole admonition + // We only look for a click event on this title to trigger the toggle. + + if (click.target.classList.contains("admonition-title")) { + button = click.target.querySelector(".toggle-button"); + } else if (click.target.classList.contains("tb-icon")) { + // We've clicked the icon and need to search up one parent for the button + button = click.target.parentElement; + } else if (click.target.tagName == "polyline") { + // We've clicked the SVG elements inside the button, need to up 2 layers + button = click.target.parentElement.parentElement; + } else if (click.target.classList.contains("toggle-button")) { + // We've clicked the button itself and so don't need to do anything + button = click.target; + } else { + console.log(`[togglebutton]: Couldn't find button for ${click.target}`) + } + target = document.getElementById(button.dataset['button']); + toggleHidden(target); +} + +// If we want to blanket-add toggle classes to certain cells +var addToggleToSelector = () => { + const selector = ""; + if (selector.length > 0) { + document.querySelectorAll(selector).forEach((item) => { + item.classList.add("toggle"); + }) + } +} + +// Helper function to run when the DOM is finished +const sphinxToggleRunWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} +sphinxToggleRunWhenDOMLoaded(addToggleToSelector) +sphinxToggleRunWhenDOMLoaded(initToggleItems) + +/** Toggle details blocks to be open when printing */ +if (toggleOpenOnPrint == "true") { + window.addEventListener("beforeprint", () => { + // Open the details + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.dataset["togglestatus"] = el.open; + el.open = true; + }); + + // Open the admonitions + document.querySelectorAll(".admonition.toggle.toggle-hidden").forEach((el) => { + console.log(el); + el.querySelector("button.toggle-button").click(); + el.dataset["toggle_after_print"] = "true"; + }); + }); + window.addEventListener("afterprint", () => { + // Re-close the details that were closed + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.open = el.dataset["togglestatus"] == "true"; + delete el.dataset["togglestatus"]; + }); + + // Re-close the admonition toggle buttons + document.querySelectorAll(".admonition.toggle").forEach((el) => { + if (el.dataset["toggle_after_print"] == "true") { + el.querySelector("button.toggle-button").click(); + delete el.dataset["toggle_after_print"]; + } + }); + }); +} diff --git a/branch/rantahar-autodoc-to-md/exercises/index.html b/branch/rantahar-autodoc-to-md/exercises/index.html new file mode 100644 index 0000000..6efed7e --- /dev/null +++ b/branch/rantahar-autodoc-to-md/exercises/index.html @@ -0,0 +1,764 @@ + + + + + + + List of exercises — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

List of exercises

+
+

Full list

+

This is a list of all exercises and solutions in this lesson, mainly +as a reference for helpers and instructors. This list is +automatically generated from all of the other pages in the lesson. +Any single teaching event will probably cover only a subset of these, +depending on their interests.

+
+

Motivation and wishlist

+

In wishlist.md:

+ +

In wishlist.md:

+ +
+
+

In-code documentation

+

In in-code-documentation.md:

+
+

In-code-1: Comments

+

Let’s take a look at two example comments (comments in Python start with #):

+

Comment A

+
# now we check if temperature is below -50
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Comment B

+
# we regard temperatures below -50 degrees as measurement errors
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Which of these comments is more useful? Can you explain why?

+ +
+
+
+

Writing good README files

+

In writing-readme-files.md:

+
+

Exercise README-1: Have fun testing some README features you may not have heard about

+
    +

  • Test the effect of adding the following to your GitHub README (read +more):

    +
    > [!NOTE]
+> Highlights information that users should take into account, even when skimming.
+
+> [!IMPORTANT]
+> Crucial information necessary for users to succeed.
+
+> [!WARNING]
+> Critical content demanding immediate user attention due to potential risks.
+
    +
    +
    • +

  • For more detailed descriptions which you don’t want to show by default you +might find this useful (please try it out):

    +
    <details>
+<summary>
+Short summary
+</summary>
+
+Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod
+tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam,
+quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo
+consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse
+cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non
+proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+</details>
+
    +
    +
    • +

  • Would you like to add a badge like this one: please replace with alt text?

    +

    Badge that links to a website (see also https://shields.io/):

    +
    [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)
+
    +
    +

    Badge without link:

    +
    ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)
+
    +
    +
    • +

  • Know about other tips and tricks? Please share them (send a pull request to this lesson).

    • +
+
+

In writing-readme-files.md:

+
+

Exercise README-2: Draft or improve a README for one of your recent projects

+

Try to draft a brief README or review a README which you have written for one +of your projects.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • Use the checklist which we have discussed earlier.

    • +

  • Think about the user (which can be a future you) of your project, what does this user need to know to use or +contribute to the project? And how do you make your project attractive to use or contribute to?

    • +

  • (Optional): Try the https://hemingwayapp.com/ to analyse your README file and make your writing bold and clear.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+

In writing-readme-files.md:

+
+

Exercise README-3: Review and discuss a README of a project that you have used

+

In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • When discussing other people’s projects please remember to be respectful and +constructive. The goal of this exercise is not to criticize other projects but +to learn from other projects and to collect the aspects that you enjoyed +finding in a README and to also collect aspects which you have searched for but +which are sometimes missing.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+

Sphinx and Markdown

+

In sphinx.md:

+
+

Sphinx-1: Generate the basic documentation template

+

Create a directory for the example documentation, step into it, and inside +generate the basic documentation template:

+
$ mkdir doc-example
+$ cd doc-example
+$ sphinx-quickstart
+
+
+

The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release:

+
> Separate source and build directories (y/n) [n]: <hit enter>
+> Project name: <your project name>
+> Author name(s): <your name>
+> Project release []: 0.1
+> Project language [en]: <hit enter>
+
+
+

A couple of files and directories are created:

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

File/directory

Contents

conf.py

Documentation configuration file

index.rst

Main file in Sphinx

_build/

Directory where docs are built (you can decide the name)

_templates/

Your own HTML templates

_static/

Static files (images, styles, etc.) copied to output directory on build

Makefile

Makefile to build documentation using make

make.bat

Makefile to build documentation using make (Windows)

+

Makefile and make.bat (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly.

+

Let’s have a look at the index.rst file, which is the main file of your documentation:

+
.. myproject documentation master file, created by
+   sphinx-quickstart on Sat Sep 23 17:35:26 2023.
+   You can adapt this file completely to your liking, but it should at least
+   contain the root `toctree` directive.
+
+Welcome to myproject's documentation!
+=====================================
+
+.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+
+
+
    +

  • We will not use the Indices and tables section now, so remove it and everything below.

    • +

  • The top four lines, starting with .., are a comment.

    • +

  • The next lines are the table of contents. We can add content below:

    • +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+
+
+

Note that some-feature.md needs to be indented to align with :caption:.

+

We now need to tell Sphinx to use markdown files. To do this, we open +conf.py and replace the line:

+
extensions = []
+
+
+

with this line so that Sphinx can parse Markdown files:

+
extensions = ['myst_parser']
+
+
+

Let’s create the file some-feature.md (in Markdown format) which we have just listed in +index.rst (which uses reStructured Text format).

+
# Some feature
+
+## Subsection
+
+Exciting documentation in here.
+Let's make a list (empty surrounding lines required):
+
+- item 1
+
+  - nested item 1
+  - nested item 2
+
+- item 2
+- item 3
+
+
+

We now build the site:

+
$ ls -1
+
+_static
+_templates
+conf.py
+index.rst
+make.bat
+Makefile
+some-feature.md
+
+$ sphinx-build . _build
+
+... lots of output ...
+build succeeded.
+
+The HTML pages are in _build.
+
+$ ls -1 _build
+
+_sources
+_static
+genindex.html
+index.html
+objects.inv
+search.html
+searchindex.js
+some-feature.html
+
+
+

Now open the file _build/index.html in your browser.

+
    +

  • Linux users, type:

    +
    $ xdg-open _build/index.html
+
    +
    +
    • +

  • macOS users, type:

    +
    $ open _build/index.html
+
    +
    +
    • +

  • Windows users, type:

    +
    $ start _build/index.html
+
    +
    +
    • +

  • If the above does not work: +Enter file:///home/user/doc-example/_build/index.html in your browser (adapting the path to your case).

    • +
+

Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere.

+

Note that you can change the styling by editing conf.py and changing the value html_theme +(for instance you can set it to sphinx_rtd_theme (if you have that Python package installed) +to have the Read the Docs look).

+
+

In sphinx.md:

+
+

Sphinx-2: Add more content to your example documentation

+
    +

  1. Add a entry below some-feature.md labeled another-feature.md (or a better name) to the index.rst file.

    2. +

  2. Create a file another-feature.md in the same directory as the index.rst file.

    3. +

  3. Add some content to another-feature.md, rebuild with sphinx-build . _build, and refresh the browser to look at the results.

    4. +

  4. Use the MyST Typography page as help.

    5. +
+

Experiment with the following Markdown syntax:

+
    +

  • *Emphasized text* and **bold text**

    • +

  • Headings:

    • +
+
# Level 1
+
+## Level 2
+
+### Level 3
+
+#### Level 4
+
+
+
    +

  • An image: ![alt text](image.png)

    • +

  • [A link](https://www.example.org)

    • +

  • Numbered lists (numbers adjusted automatically):

    • +
+
1. item 1
+2. item 2
+3. item 3
+1. item 4
+1. item 5
+
+
+
    +

  • Simple tables:

    • +
+
| No.  |  Prime |
+| ---- | ------ |
+| 1    |  No    |
+| 2    |  Yes   |
+| 3    |  Yes   |
+| 4    |  No    |
+
+
+
    +

  • Code blocks:

    • +
+
The following is a Python code block:
+```python
+  def hello():
+      print("Hello world")
+```
+
+And this is a C code block:
+```c
+#include <stdio.h>
+int main()
+{
+    printf("Hello, World!");
+    return 0;
+}
+```
+
+
+
    +

  • You could include an external file (here we assume a file called “example.py” +exists; at the same time we highlight lines 2 and 3):

    • +
+
```{literalinclude} example.py
+:language: python
+:emphasize-lines: 2-3
+```
+
+
+
    +

  • We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the +myst-nb extension to be installed.

    • +
+
+

In sphinx.md:

+
+

Sphinx-3: Rendering (LaTeX) math equations

+

Math equations should work out of the box. In some older versions, you might need +to edit conf.py and add sphinx.ext.mathjax:

+
extensions = ['myst_parser', 'sphinx.ext.mathjax']
+
+
+

Try this (result below):

+
This creates an equation:
+```{math}
+a^2 + b^2 = c^2
+```
+
+This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text.
+
+
+

This creates an equation:

+
+\[a^2 + b^2 = c^2\]
+

This is an in-line equation, \(a^2 + b^2 = c^2\), embedded in text.

+
+

In sphinx.md:

+
+

(optional) Sphinx-4: Auto-generating documentation from Python docstrings

+
    +

  1. Write some docstrings in functions and/or class definitions of an example python module:

    2. +
+
def multiply(a: float, b: float) -> float:
+    """
+    Multiply two numbers.
+
+    :param a: First number.
+    :param b: Second number.
+    :return: The product of a and b.
+    """
+    return a * b
+
+
+
    +

  1. Add a file api.md in the same folder as index.rst, with the following content:

    2. +
+
# API reference
+
+## example
+
+:::{automodule} example
+:members: 
+:::
+
+
+
    +

  1. In the file conf.py add 3 lines and modify “extensions”:

    2. +
+
# this is a trick to make sphinx find the modules in the parent directory
+import os
+import sys
+sys.path.insert(0, os.path.abspath("."))
+
+extensions = ['myst_parser', "sphinx.ext.autodoc"]
+
+
+
    +

  1. List the api.md file in index.rst.

    2. +

  2. Re-build the documentation and check the “API reference” section.

    3. +
+
+
+
+

Deploying Sphinx documentation to GitHub Pages

+

In gh_workflow.md:

+
+

GH-Pages-1: Deploy Sphinx documentation to GitHub Pages

+

In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages.

+

Step 1: Go to the documentation-example project template +on GitHub and create a copy to your namespace.

+
    +

  • Give it a name, for instance “documentation-example”.

    • +

  • You don’t need to “Include all branches”

    • +

  • Click on “Create a repository”.

    • +
+

Step 2: Browse the new repository.

+
    +

  • It will look very familar to the previous episode.

    • +

  • However, we have moved the documentation part under doc/ (many projects do it this +way). But it is still a Sphinx documentation project.

    • +

  • The source code for your project could then go under src/.

    • +
+

Step 3: Add the GitHub Action to your new Git repository.

+
    +

  • Add a new file at .github/workflows/documentation.yml (either through terminal or web interface), containing:

    • +
+
name: documentation
+
+on: [push, pull_request, workflow_dispatch]
+
+permissions:
+  contents: write
+
+jobs:
+  docs:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+      - name: Install dependencies
+        run: |
+          pip install sphinx sphinx_rtd_theme myst_parser
+      - name: Sphinx build
+        run: |
+          sphinx-build doc _build
+      - name: Deploy to GitHub Pages
+        uses: peaceiris/actions-gh-pages@v3
+        if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }}
+        with:
+          publish_branch: gh-pages
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: _build/
+          force_orphan: true
+
+
+
    +

  • You don’t need to understand all of the above, but you +might spot familiar commands in the run: sections.

    • +

  • After the file has been committed (and pushed), +check the action at https://github.com/USER/documentation-example/actions +(replace USER with your GitHub username).

    • +
+

Step 4: Enable GitHub Pages

+
    +

  • On GitHub go to “Settings” -> “Pages”.

    • +

  • In the “Source” section, choose “Deploy from a branch” in the dropdown menu.

    • +

  • In the “Branch” section choose “gh-pages” and “/root” in the dropdown menus and click +save.

    • +

  • You should now be able to verify the pages deployment in the Actions list).

    • +
+

Step 5: Verify the result

+
    +

  • Your site should now be live on https://USER.github.io/documentation-example/ (replace USER).

    • +
+

Step 6: Verify refreshing the documentation

+
    +

  • Commit some changes to your documentation

    • +

  • Verify that the documentation website refreshes after your changes (can take few seconds or a minute)

    • +
+
+
+
+

Hosting websites/homepages on GitHub Pages

+

In gh-pages.md:

+
+

GH-Pages-2: Host your own github page

+
    +

  • Deploy own website reusing a template:

    +
      +

    • Follow the steps from GitHub Pages https://pages.github.com/. +The documentation there is very good so there is no need for us to duplicate the screenshots.

      • +

    • Select “Project site”.

      • +

    • Select “Choose a theme”.

      • +

    • Follow the instructions on https://pages.github.com/.

      • +

    • Browse your page on https://USERNAME.github.io/REPOSITORY (adjust “USERNAME” and “REPOSITORY”).

      • +
    +
    • +

  • Make a change to the repository after the webpage has been deployed for the first time.

    • +

  • Please wait few minutes and then verify that the change shows up on the website.

    • +
+
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/genindex/index.html b/branch/rantahar-autodoc-to-md/genindex/index.html new file mode 100644 index 0000000..1d20b05 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/genindex/index.html @@ -0,0 +1,145 @@ + + + + + + Index — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ + +

Index

+ +
+ +
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/gh-pages/index.html b/branch/rantahar-autodoc-to-md/gh-pages/index.html new file mode 100644 index 0000000..e2d9ee3 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/gh-pages/index.html @@ -0,0 +1,225 @@ + + + + + + + Hosting websites/homepages on GitHub Pages — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Hosting websites/homepages on GitHub Pages

+
+

Often we don’t need more than a static website

+

You can host your personal homepage or group webpage or project website on +GitHub using GitHub Pages. +GitLab and +Bitbucket +also offer a very similar solution.

+

Unless you need user authentication or a sophisticated database behind your +website, GitHub Pages can be a very nice +alternative to running your own web servers. This is how all +https://coderefinery.org material is hosted.

+
+
+

How to find the website URL

+

Here below, NAMESPACE can either be a username or an organizational account.

+

Personal homepage or organizational homepage

+
    +

  • Generated URL: https://NAMESPACE.github.io

    • +

  • Generated from: https://github.com/NAMESPACE/NAMESPACE.github.io (main branch)

    • +
+

Project website

+
    +

  • Generated URL: https://NAMESPACE.github.io/REPOSITORY

    • +

  • Generated from: https://github.com/NAMESPACE/REPOSITORY (gh-pages branch)

    • +
+
+
+

Exercise - Your own website on GitHub Pages

+
+

GH-Pages-2: Host your own github page

+
    +

  • Deploy own website reusing a template:

    +
      +

    • Follow the steps from GitHub Pages https://pages.github.com/. +The documentation there is very good so there is no need for us to duplicate the screenshots.

      • +

    • Select “Project site”.

      • +

    • Select “Choose a theme”.

      • +

    • Follow the instructions on https://pages.github.com/.

      • +

    • Browse your page on https://USERNAME.github.io/REPOSITORY (adjust “USERNAME” and “REPOSITORY”).

      • +
    +
    • +

  • Make a change to the repository after the webpage has been deployed for the first time.

    • +

  • Please wait few minutes and then verify that the change shows up on the website.

    • +
+
+
+

Real-life examples

+ +
+
+

Note

+
    +

  • You can use HTML directly or another static site generator if you prefer +to not use the default Jekyll.

    • +

  • It is no problem to use a custom domain instead of *.github.io.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/gh_workflow/index.html b/branch/rantahar-autodoc-to-md/gh_workflow/index.html new file mode 100644 index 0000000..c313032 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/gh_workflow/index.html @@ -0,0 +1,297 @@ + + + + + + + Deploying Sphinx documentation to GitHub Pages — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+
    +
    • +
  • Deploying Sphinx documentation to GitHub Pages
    • +
  • + Edit on GitHub +
    • +
+
+
+
+
+ +
+

Deploying Sphinx documentation to GitHub Pages

+
+

Objectives

+
    +

  • Create a basic workflow which you can take home and adapt for your project.

    • +
+
+
+

GitHub Pages

+
    +

  • Serve websites from a GitHub repository.

    • +

  • It is no problem to serve using your own URL https://myproject.org instead of https://myuser.github.io/myproject.

    • +
+
+
+

GitHub Actions

+
    +

  • Automatically runs code when your repository changes.

    • +

  • We will let it run sphinx-build and make the result available to GitHub Pages.

    • +
+
+
+

Our goal: putting it all together

+
    +

  • Host source code with documentation sources on a public Git repository.

    • +

  • Each time we git push to the repository, a GitHub action triggers to +rebuild the documentation.

    • +

  • The documentation is pushed to a separate branch called ‘gh-pages’.

    • +
+
+
+
+

Exercise - Deploy Sphinx documentation to GitHub Pages

+
+

GH-Pages-1: Deploy Sphinx documentation to GitHub Pages

+

In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages.

+

Step 1: Go to the documentation-example project template +on GitHub and create a copy to your namespace.

+
    +

  • Give it a name, for instance “documentation-example”.

    • +

  • You don’t need to “Include all branches”

    • +

  • Click on “Create a repository”.

    • +
+

Step 2: Browse the new repository.

+
    +

  • It will look very familar to the previous episode.

    • +

  • However, we have moved the documentation part under doc/ (many projects do it this +way). But it is still a Sphinx documentation project.

    • +

  • The source code for your project could then go under src/.

    • +
+

Step 3: Add the GitHub Action to your new Git repository.

+
    +

  • Add a new file at .github/workflows/documentation.yml (either through terminal or web interface), containing:

    • +
+
name: documentation
+
+on: [push, pull_request, workflow_dispatch]
+
+permissions:
+  contents: write
+
+jobs:
+  docs:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+      - name: Install dependencies
+        run: |
+          pip install sphinx sphinx_rtd_theme myst_parser
+      - name: Sphinx build
+        run: |
+          sphinx-build doc _build
+      - name: Deploy to GitHub Pages
+        uses: peaceiris/actions-gh-pages@v3
+        if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }}
+        with:
+          publish_branch: gh-pages
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: _build/
+          force_orphan: true
+
+
+
    +

  • You don’t need to understand all of the above, but you +might spot familiar commands in the run: sections.

    • +

  • After the file has been committed (and pushed), +check the action at https://github.com/USER/documentation-example/actions +(replace USER with your GitHub username).

    • +
+

Step 4: Enable GitHub Pages

+
    +

  • On GitHub go to “Settings” -> “Pages”.

    • +

  • In the “Source” section, choose “Deploy from a branch” in the dropdown menu.

    • +

  • In the “Branch” section choose “gh-pages” and “/root” in the dropdown menus and click +save.

    • +

  • You should now be able to verify the pages deployment in the Actions list).

    • +
+

Step 5: Verify the result

+
    +

  • Your site should now be live on https://USER.github.io/documentation-example/ (replace USER).

    • +
+

Step 6: Verify refreshing the documentation

+
    +

  • Commit some changes to your documentation

    • +

  • Verify that the documentation website refreshes after your changes (can take few seconds or a minute)

    • +
+
+
+
+

Alternatives to GitHub Pages

+
    +

  • GitLab Pages +and GitLab CI can create a very similar workflow.

    • +

  • Read the Docs is the most common alternative to +hosting in GitHub Pages.

    • +

  • Sphinx builds HTML files (this is what static site generators do), and you +can host them anywhere, for example your university’s web space or own web server.

    • +
+
+
+

Migrating your own documentation to Sphinx

+
    +

  • First convert your documentation to Markdown using Pandoc.

    • +

  • Create a file index.rst which lists all other Markdown files and provides the +table of contents.

    • +

  • Add a conf.py file. You can generate a starting point for conf.py and +index.rst with sphinx-quickstart, or you can take the examples in this +lesson as inspiration.

    • +

  • Test building the documentation locally with sphinx-build.

    • +

  • Once this works, follow the above steps to build and deploy to GitHub Pages or some other web space.

    • +
+
+
+

Keypoints

+
    +

  • Sphinx makes simple HTML (and more) files, so it is easy to find a place to host them.

    • +

  • Github Pages + Github Actions provides a convenient way to make +sites and host them on the web.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/guide/index.html b/branch/rantahar-autodoc-to-md/guide/index.html new file mode 100644 index 0000000..23a6668 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/guide/index.html @@ -0,0 +1,286 @@ + + + + + + + Instructor guide — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Instructor guide

+
+

Why we teach this lesson

+

Everyone should document their code, even if they’re working alone.

+

These are the main points:

+
    +

  • Code documentation has to be versionnable and branchable

    • +

  • Code documentation should be tracked together with the source code

    • +

  • README is often enough

    • +
+

Please do not skim over the two above points. Please take few minutes to +explain why documentation (sources) should be tracked together with the source +code. Please discuss this aspect with workshop participants and connect it to +reproducibility. This is for me (Radovan) the most important take-home +message.

+

Specific motivations:

+
    +

  • Code documentation becomes quickly unmanageable if not part of the source code.

    • +

  • It helps people to quickly use your code thus reducing the time spent to explain over and again to new users.

    • +

  • It helps people to collaborate.

    • +

  • It improves the design of your code.

    • +
+
+
+

Intended learning outcomes

+

By the end of this lesson, learners should:

+
    +

  • Understand the importance of writing code documentation together with the source code

    • +

  • Know what makes a good documentation

    • +

  • Learn what tools can be used for writing documentation

    • +

  • Be able to motivate a balanced decision: sometimes READMEs are absolutely enough

    • +
+
+
+

Timing

+

As an instructor you should prepare all bullet points but do not go through +each bullet point in detail. Only highlight the main points and rather give +time for a discussion. Leave details for a later lecture for those who want to +find out more. If you go through each bullet point in detail, the motivation +can easily take up 30 minutes and you will run out of time.

+

The lesson does not fit into 1.5 hours if you go through everything. Optimize +for discussions and prepare well to be able to jump over bullet points which +can be left for a later lecture. Some sections can be skipped if needed (see +below). However, we recommend to have a discussion with your learners to make +them aware of what the training material contains.

+
    +

  • Do not insist on practicing Markdown or RST syntax.

    • +

  • The section Rendering (LaTeX) math equations may be optional if your +attendees do not have to deal with equations.

    • +

  • In the GitHub Pages episode, the +goal is not anymore to write code documentation but to show how to build +project website with GitHub. If time is tight, the GitHub pages episode can be +skipped or can be done as demonstration instead of exercise.

    • +
+
+
+

Detailed schedule

+
    +

  • 09:00 - 09:10 Motivation and tools

    +
      +

    • create a wishlist in collaborative notes

      • +
    +
    • +

  • 09:10 - 09:20 Writing good README files

    +
      +

    • brief discussion

      • +
    +
    • +

  • 09:20 - 09:40 Exercises: README-1, README-2, README-3 (choose one or multiple)

    • +

  • 09:40 - 10:00 Sphinx and Markdown: Sphinx-1 as type along

    • +

  • 10:00 - 10:10 Break

    • +

  • 10:10 - 10:40 Exercises, Sphinx-2, Sphinx-3, GH-Pages-1

    • +

  • 10:40 - 11:00 Discussion, GH Pages, Summary

    • +
+
+
+

Place this lesson towards the end of the workshop

+

Reason is that with collaborative Git we can create more interesting +documentation exercises. Currently there are some elements of forking and +pushing and this is only really introduced on day two. We have tried this +lesson on day one and it felt too early and disconnected/abrupt. It works best +after the reproducibility lesson since we then reuse the example and it feels +familiar.

+
+
+

Troubleshooting

+
+

Character encoding issues

+

Can arise when using non-utf8 characters in conf.py. Diagnose this with file -i conf.py +and locale.

+
+
+
+

Live better than reading the website material

+

It is better to demonstrate the commands live and type-along. Ideally connecting +to examples discussed earlier.

+

In online workshops most of the type-along becomes group exercise work where groups +can share screen and discuss.

+
+
+

Field reports

+
+

2022 September

+

We were pressed for time (we started 5-10 minutes late, relative to +the schedule below), so we made most of the first lessons fast. In +the schedule below, note that we had the first 10 minutes for +“Motivation” and “Popular tools”, which we didn’t fully realize so +that put us even further behind. Doing these introduction +parts quickly was hard but was probably worth it since we had plenty +of time in the end. For the “tools”, one person summarized the point +of each section on the page quickly. The README episode was done +quickly, we basically skipped the exercises to get to Sphinx, and this +put us back on schedule.

+

For Sphinx, we did it a lot like you see in the schedule: first +exercise (the basic setup) was type-along, but it was a bit too much +to do in the 10 minutes we had allotted (we typed too fast). But, +people then had a nice long time to make it up and do everything. It +seemed to work well. The GitHub pages deployment could then be done +as a nice, slow demo, and we had plenty of time to ask questions.

+

Overall, I think this was the right track, but we could have practiced +doing the first parts even faster, and warned people that we focus on +the Sphinx exercises.

+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/in-code-documentation/index.html b/branch/rantahar-autodoc-to-md/in-code-documentation/index.html new file mode 100644 index 0000000..ef56a0c --- /dev/null +++ b/branch/rantahar-autodoc-to-md/in-code-documentation/index.html @@ -0,0 +1,385 @@ + + + + + + + In-code documentation — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

In-code documentation

+
+

Questions

+
    +

  • What can I do to make my code more easily understandable?

    • +

  • What information should go into comments?

    • +

  • What are docstrings and what information should go into docstrings?

    • +
+
+

In this episode we will learn how to write good documentation inside your code.

+
+

Exercise - Writing good comments

+
+

In-code-1: Comments

+

Let’s take a look at two example comments (comments in Python start with #):

+

Comment A

+
# now we check if temperature is below -50
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Comment B

+
# we regard temperatures below -50 degrees as measurement errors
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Which of these comments is more useful? Can you explain why?

+ +
+
+
+

Sometimes version control is better than a comment

+
+

Examples for code comments where Git is a better solution

+

Keeping zombie code “just in case” (rather use version control):

+
# do not run this code!
+# if temperature > 0:
+#     print("It is warm")
+
+
+

Instead: Remove the code, you can always find it back in a previous version of your code in Git.

+

Emulating version control:

+
# John Doe: threshold changed from 0 to 15 on August 5, 2013
+if temperature > 15:
+    print("It is warm")
+
+
+

Instead: You can get this information from git log or git show or git   annotate or similar.

+
+
+
+

What are “docstrings” and how can they be useful?

+

Here is function fahrenheit_to_celsius which converts temperature in +Fahrenheit to Celsius, implemented in a couple of different languages. +Your language is missing? Please contribute an example.

+

The first set of examples uses regular comments:

+
+
# This function converts a temperature in Fahrenheit to Celsius.
+def fahrenheit_to_celsius(temp_f: float) -> float:
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+
+

The second set uses docstrings or similar concepts. Please compare the two +(above and below):

+
+
def fahrenheit_to_celsius(temp_f: float) -> float:
+    """
+    Converts a temperature in Fahrenheit to Celsius.
+
+    Parameters
+    ----------
+    temp_f : float
+        The temperature in Fahrenheit.
+
+    Returns
+    -------
+    float
+        The temperature in Celsius.
+    """
+
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+

Read more: https://peps.python.org/pep-0257/

+
+

Docstrings can do a bit more than just comments:

+
    +

  • Tools can generate help text automatically from the docstrings.

    • +

  • Tools can generate documentation pages automatically from code.

    • +
+

It is common to write docstrings for functions, classes, and modules.

+

Good docstrings describe:

+
    +

  • What the function does

    • +

  • What goes in (including the type of the input variables)

    • +

  • What goes out (including the return type)

    • +
+

Naming is documentation: +Giving explicit, descriptive names to your code segments (functions, classes, +variables) already provides very useful and important documentation. In +practice you will find that for simple functions it is unnecessary to add a +docstring when the function name and variable names already give enough +information.

+
+
+

Keypoints

+
    +

  • Comments should describe the why for your code not the what.

    • +

  • Writing docstrings can be a good way to write documentation while you type +code since it also makes it possible +to query that information from outside the code or to auto-generate +documentation pages.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/index.html b/branch/rantahar-autodoc-to-md/index.html new file mode 100644 index 0000000..e4854cc --- /dev/null +++ b/branch/rantahar-autodoc-to-md/index.html @@ -0,0 +1,228 @@ + + + + + + + How to document your research software — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

How to document your research software

+

In this lesson we will discuss different solutions for implementing and +deploying code documentation.

+

We will start with a discussion about what makes a good README. For many +projects, a README is more than enough.

+

We will then learn how to build documentation with the +documentation generator Sphinx (and compare it +with others) and how to +deploy it to Read the Docs, a service which hosts +open documentation for free.

+

This demonstration will be independent of programming languages.

+

We will also learn how +to deploy a project website or personal homepage to GitHub Pages. +The approach that we will learn will be transferable to +GitLab Pages and +Bitbucket Pages.

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+

Prerequisites

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    +

  1. Basic understanding of Git.

    2. +

  2. For the Sphinx part, You need to have +sphinx and sphinx_rtd_theme installed +(they are part of the coderefinery environment).

    3. +

  3. For the GitHub Pages part you need a GitHub account.

    4. +
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+ + + + + + + + + + + + + + + + + + + + + + + + + + + +

10 min

Motivation and wishlist

10 min

Popular tools and solutions

20 min

In-code documentation

30 min

Writing good README files

30 min

Sphinx and Markdown

20 min

Deploying Sphinx documentation to GitHub Pages

20 min

Hosting websites/homepages on GitHub Pages

5 min

Summary

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The lesson

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Reference

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+

About

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+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/lesson.pdf b/branch/rantahar-autodoc-to-md/lesson.pdf new file mode 100644 index 0000000..ad33da5 Binary files /dev/null and b/branch/rantahar-autodoc-to-md/lesson.pdf differ diff --git a/branch/rantahar-autodoc-to-md/license/index.html b/branch/rantahar-autodoc-to-md/license/index.html new file mode 100644 index 0000000..7943830 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/license/index.html @@ -0,0 +1,190 @@ + + + + + + + Credit and license — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
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Credit and license

+

This material is provided by CodeRefinery under the licenses stated below.

+
+

Website template

+

The website template is maintained by CodeRefinery +and rendered with sphinx-lesson: structured lessons with Sphinx.

+
+
+

Instructional material

+

All CodeRefinery instructional material is made available under the +Creative Commons Attribution license (CC-BY-4.0). +The following is a human-readable summary of (and not a substitute for) +the full legal text of the CC-BY-4.0 license.

+

You are free:

+
    +

  • to Share - copy and redistribute the material in any medium or format

    • +

  • to Adapt - remix, transform, and build upon the material

    • +
+

for any purpose, even commercially. The licensor cannot revoke these freedoms as long as you follow these license terms:

+
    +

  • Attribution - You must give appropriate credit +(mentioning that your work is derived from work that is Copyright +(c) CodeRefinery and, where practical, linking to +https://coderefinery.org, provide +a link to the license, +and indicate if changes were made. You may do so in any +reasonable manner, but not in any way that suggests the licensor +endorses you or your use.

    • +
+

No additional restrictions - You may not apply legal terms or technological +measures that legally restrict others from doing anything the license permits. +With the understanding that:

+
    +

  • You do not have to comply with the license for elements of the material in +the public domain or where your use is permitted by an applicable exception +or limitation.

    • +

  • No warranties are given. The license may not give you all of the +permissions necessary for your intended use. For example, other +rights such as publicity, privacy, or moral rights may limit how +you use the material.

    • +
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+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/objects.inv b/branch/rantahar-autodoc-to-md/objects.inv new file mode 100644 index 0000000..7744a48 Binary files /dev/null and b/branch/rantahar-autodoc-to-md/objects.inv differ diff --git a/branch/rantahar-autodoc-to-md/search/index.html b/branch/rantahar-autodoc-to-md/search/index.html new file mode 100644 index 0000000..1270d39 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/search/index.html @@ -0,0 +1,159 @@ + + + + + + Search — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
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  • Search
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+ + + + + + + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/searchindex.js b/branch/rantahar-autodoc-to-md/searchindex.js new file mode 100644 index 0000000..5f3934c --- /dev/null +++ b/branch/rantahar-autodoc-to-md/searchindex.js @@ -0,0 +1 @@ +Search.setIndex({"alltitles": {"(optional) Sphinx-4: Auto-generating documentation from Python docstrings": [[0, "exercise-3"], [7, "exercise-3"]], "2022 September": [[3, "september"]], "About": [[5, null]], "Alternatives to GitHub Pages": [[2, "alternatives-to-github-pages"]], "Before we start, let us verify whether we have the software we need": [[7, "prerequisites-0"]], "Character encoding issues": [[3, "character-encoding-issues"]], "Confused about reStructuredText vs. Markdown vs. MyST?": [[7, "confused-about-restructuredtext-vs-markdown-vs-myst"]], "Creating a checklist": [[10, "creating-a-checklist"]], "Credit and license": [[6, null]], "Deploying Sphinx documentation to GitHub Pages": [[0, 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"exercise-adding-more-sphinx-content"]], "Exercise: Discuss the README of a project that you use": [[11, "exercise-discuss-the-readme-of-a-project-that-you-use"]], "Exercise: Have fun testing some README features": [[11, "exercise-have-fun-testing-some-readme-features"]], "Exercise: Improve the README for your own project": [[11, "exercise-improve-the-readme-for-your-own-project"]], "Exercise: Sphinx and LaTeX": [[7, "exercise-sphinx-and-latex"]], "Exercise: Sphinx autodoc": [[7, "exercise-sphinx-autodoc"]], "Exercise: Sphinx quickstart": [[7, "exercise-sphinx-quickstart"]], "Field reports": [[3, "field-reports"]], "Full list": [[0, "full-list"]], "GH-Pages-1: Deploy Sphinx documentation to GitHub Pages": [[0, "exercise-0"], [2, "exercise-0"]], "GH-Pages-2: Host your own github page": [[0, "exercise-0"], [1, "exercise-0"]], "GitHub Actions": [[2, "github-actions"]], "GitHub Pages": [[2, "github-pages"]], "Good to know": [[7, "good-to-know"]], "HTML static site generators": [[9, "html-static-site-generators"]], "Hosting websites/homepages on GitHub Pages": [[0, "hosting-websiteshomepages-on-github-pages"], [1, null]], "How to document your research software": [[5, null]], "How to find the website URL": [[1, "how-to-find-the-website-url"]], "In-code documentation": [[0, "in-code-documentation"], [4, null], [9, "in-code-documentation"]], "In-code-1: Comments": [[0, "exercise-0"], [4, "exercise-0"]], "Instructional material": [[6, "instructional-material"]], "Instructor guide": [[3, null]], "Intended learning outcomes": [[3, "intended-learning-outcomes"]], "Keypoints": [[2, "keypoints-0"], [4, "keypoints-0"], [7, "keypoints-0"], [9, "keypoints-0"], [10, "keypoints-0"]], "LaTeX/PDF": [[9, "latex-pdf"]], "List of exercises": [[0, null]], "Live better than reading the website material": [[3, "live-better-than-reading-the-website-material"]], "Markup": [[0, "instructor-note-0"], [10, "instructor-note-0"]], "Migrating your own documentation to Sphinx": [[2, "migrating-your-own-documentation-to-sphinx"]], "Motivation": [[10, "motivation"]], "Motivation and wishlist": [[0, "motivation-and-wishlist"], [10, null]], "Motivation-1: Why documenting code?": [[10, "discussion-0"]], "Motivation-2: Create a wishlist": [[10, "discussion-1"]], "Objectives": [[2, "objectives-0"], [7, "objectives-0"], [9, "objectives-0"]], "Often we don\u2019t need more than a static website": [[1, "often-we-don-t-need-more-than-a-static-website"]], "Other tools": [[9, "other-tools"]], "Our goal: putting it all together": [[2, "our-goal-putting-it-all-together"]], "Our motivation (but let us brainstorm first)": [[0, "solution-0"], [10, "solution-0"]], "Our wishlist (but let us brainstorm first)": [[0, "solution-1"], [10, "solution-1"]], "Place this lesson towards the end of the workshop": [[3, "place-this-lesson-towards-the-end-of-the-workshop"]], "Popular tools and solutions": [[9, null]], "Prerequisites": [[5, "prerequisites-0"]], "Questions": [[4, "questions-0"], [8, "questions-0"], [9, "questions-0"]], "README files": [[9, "readme-files"]], "Real-life examples": [[1, "callout-0"]], "Reference": [[5, null]], "References": [[7, "references"]], "Solution": [[0, "solution-0"], [4, "solution-0"]], "Sometimes version control is better than a comment": [[4, "sometimes-version-control-is-better-than-a-comment"]], "Sphinx and Markdown": [[0, "sphinx-and-markdown"], [7, null]], "Sphinx-1: Generate the basic documentation template": [[0, "exercise-0"], [7, "exercise-0"]], "Sphinx-2: Add more content to your example documentation": [[0, "exercise-1"], [7, "exercise-1"]], "Sphinx-3: Rendering (LaTeX) math equations": [[0, "exercise-2"], [7, "exercise-2"]], "Summary": [[8, null]], "Table of contents in README files": [[11, "table-of-contents-in-readme-files"]], "The lesson": [[5, null]], "There is not the one right way: it is always a balance": [[8, "there-is-not-the-one-right-way-it-is-always-a-balance"]], "This lesson is built with Sphinx": [[7, 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and underscores.js. + * + * Copyright Sphinx contributors + * Released under the two clause BSD licence + */ + +/** + * small helper function to urldecode strings + * + * See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/decodeURIComponent#Decoding_query_parameters_from_a_URL + */ +jQuery.urldecode = function(x) { + if (!x) { + return x + } + return decodeURIComponent(x.replace(/\+/g, ' ')); +}; + +/** + * small helper function to urlencode strings + */ +jQuery.urlencode = encodeURIComponent; + +/** + * This function returns the parsed url parameters of the + * current request. Multiple values per key are supported, + * it will always return arrays of strings for the value parts. + */ +jQuery.getQueryParameters = function(s) { + if (typeof s === 'undefined') + s = document.location.search; + var parts = s.substr(s.indexOf('?') + 1).split('&'); + var result = {}; + for (var i = 0; i < parts.length; i++) { + var tmp = parts[i].split('=', 2); + var key = jQuery.urldecode(tmp[0]); + var value = jQuery.urldecode(tmp[1]); + if (key in result) + result[key].push(value); + else + result[key] = [value]; + } + return result; +}; + +/** + * highlight a given string on a jquery object by wrapping it in + * span elements with the given class name. + */ +jQuery.fn.highlightText = function(text, className) { + function highlight(node, addItems) { + if (node.nodeType === 3) { + var val = node.nodeValue; + var pos = val.toLowerCase().indexOf(text); + if (pos >= 0 && + !jQuery(node.parentNode).hasClass(className) && + !jQuery(node.parentNode).hasClass("nohighlight")) { + var span; 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+} + +div.code-block-caption span.caption-text { +} + +div.literal-block-wrapper { + margin: 1em 0; +} + +code.xref, a code { + background-color: transparent; + font-weight: bold; +} + +h1 code, h2 code, h3 code, h4 code, h5 code, h6 code { + background-color: transparent; +} + +.viewcode-link { + float: right; +} + +.viewcode-back { + float: right; + font-family: sans-serif; +} + +div.viewcode-block:target { + margin: -1px -10px; + padding: 0 10px; +} + +/* -- math display ---------------------------------------------------------- */ + +img.math { + vertical-align: middle; +} + +div.body div.math p { + text-align: center; +} + +span.eqno { + float: right; +} + +span.eqno a.headerlink { + position: absolute; + z-index: 1; +} + +div.math:hover a.headerlink { + visibility: visible; +} + +/* -- printout stylesheet --------------------------------------------------- */ + +@media print { + div.document, + div.documentwrapper, + div.bodywrapper { + margin: 0 !important; + width: 100%; + } + + div.sphinxsidebar, + div.related, + div.footer, + #top-link { + display: none; + } +} \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/check-solid.svg b/branch/rantahar-autodoc-to-md/singlehtml/_static/check-solid.svg new file mode 100644 index 0000000..92fad4b --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/check-solid.svg @@ -0,0 +1,4 @@ + + + + diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/clipboard.min.js b/branch/rantahar-autodoc-to-md/singlehtml/_static/clipboard.min.js new file mode 100644 index 0000000..54b3c46 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/clipboard.min.js @@ -0,0 +1,7 @@ +/*! + * clipboard.js v2.0.8 + * https://clipboardjs.com/ + * + * Licensed MIT © Zeno Rocha + */ +!function(t,e){"object"==typeof exports&&"object"==typeof module?module.exports=e():"function"==typeof define&&define.amd?define([],e):"object"==typeof exports?exports.ClipboardJS=e():t.ClipboardJS=e()}(this,function(){return n={686:function(t,e,n){"use strict";n.d(e,{default:function(){return o}});var e=n(279),i=n.n(e),e=n(370),u=n.n(e),e=n(817),c=n.n(e);function a(t){try{return document.execCommand(t)}catch(t){return}}var f=function(t){t=c()(t);return a("cut"),t};var l=function(t){var e,n,o,r=1 + + + + diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/copybutton.css b/branch/rantahar-autodoc-to-md/singlehtml/_static/copybutton.css new file mode 100644 index 0000000..40eafe5 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/copybutton.css @@ -0,0 +1,93 @@ +/* Copy buttons */ +button.copybtn { + position: absolute; + display: flex; + top: .3em; + right: .3em; + width: 1.7em; + height: 1.7em; + opacity: 0; + transition: opacity 0.3s, border .3s, background-color .3s; + user-select: none; + padding: 0; + border: none; + outline: none; + border-radius: 0.4em; + /* The colors that GitHub uses */ + border: #1b1f2426 1px solid; + background-color: #f6f8fa; + color: #57606a; +} + +button.copybtn.success { + border-color: #22863a; + color: #22863a; +} + +button.copybtn svg { + stroke: currentColor; + width: 1.5em; + height: 1.5em; + padding: 0.1em; +} + +div.highlight { + position: relative; +} + +.highlight:hover button.copybtn { + opacity: 1; +} + +.highlight button.copybtn:hover { + background-color: rgb(235, 235, 235); +} + +.highlight button.copybtn:active { + background-color: rgb(187, 187, 187); +} + +/** + * A minimal CSS-only tooltip copied from: + * https://codepen.io/mildrenben/pen/rVBrpK + * + * To use, write HTML like the following: + * + *

Short

+ */ + .o-tooltip--left { + position: relative; + } + + .o-tooltip--left:after { + opacity: 0; + visibility: hidden; + position: absolute; + content: attr(data-tooltip); + padding: .2em; + font-size: .8em; + left: -.2em; + background: grey; + color: white; + white-space: nowrap; + z-index: 2; + border-radius: 2px; + transform: translateX(-102%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); +} + +.o-tooltip--left:hover:after { + display: block; + opacity: 1; + visibility: visible; + transform: translateX(-100%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); + transition-delay: .5s; +} + +/* By default the copy button shouldn't show up when printing a page */ +@media print { + button.copybtn { + display: none; + } +} diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/copybutton.js b/branch/rantahar-autodoc-to-md/singlehtml/_static/copybutton.js new file mode 100644 index 0000000..f3ecd03 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/copybutton.js @@ -0,0 +1,241 @@ +// Localization support +const messages = { + 'en': { + 'copy': 'Copy', + 'copy_to_clipboard': 'Copy to clipboard', + 'copy_success': 'Copied!', + 'copy_failure': 'Failed to copy', + }, + 'es' : { + 'copy': 'Copiar', + 'copy_to_clipboard': 'Copiar al portapapeles', + 'copy_success': '¡Copiado!', + 'copy_failure': 'Error al copiar', + }, + 'de' : { + 'copy': 'Kopieren', + 'copy_to_clipboard': 'In die Zwischenablage kopieren', + 'copy_success': 'Kopiert!', + 'copy_failure': 'Fehler beim Kopieren', + }, + 'fr' : { + 'copy': 'Copier', + 'copy_to_clipboard': 'Copié dans le presse-papier', + 'copy_success': 'Copié !', + 'copy_failure': 'Échec de la copie', + }, + 'ru': { + 'copy': 'Скопировать', + 'copy_to_clipboard': 'Скопировать в буфер', + 'copy_success': 'Скопировано!', + 'copy_failure': 'Не удалось скопировать', + }, + 'zh-CN': { + 'copy': '复制', + 'copy_to_clipboard': '复制到剪贴板', + 'copy_success': '复制成功!', + 'copy_failure': '复制失败', + }, + 'it' : { + 'copy': 'Copiare', + 'copy_to_clipboard': 'Copiato negli appunti', + 'copy_success': 'Copiato!', + 'copy_failure': 'Errore durante la copia', + } +} + +let locale = 'en' +if( document.documentElement.lang !== undefined + && messages[document.documentElement.lang] !== undefined ) { + locale = document.documentElement.lang +} + +let doc_url_root = DOCUMENTATION_OPTIONS.URL_ROOT; +if (doc_url_root == '#') { + doc_url_root = ''; +} + +/** + * SVG files for our copy buttons + */ +let iconCheck = ` + ${messages[locale]['copy_success']} + + +` + +// If the user specified their own SVG use that, otherwise use the default +let iconCopy = ``; +if (!iconCopy) { + iconCopy = ` + ${messages[locale]['copy_to_clipboard']} + + + +` +} + +/** + * Set up copy/paste for code blocks + */ + +const runWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} + +const codeCellId = index => `codecell${index}` + +// Clears selected text since ClipboardJS will select the text when copying +const clearSelection = () => { + if (window.getSelection) { + window.getSelection().removeAllRanges() + } else if (document.selection) { + document.selection.empty() + } +} + +// Changes tooltip text for two seconds, then changes it back +const temporarilyChangeTooltip = (el, oldText, newText) => { + el.setAttribute('data-tooltip', newText) + el.classList.add('success') + setTimeout(() => el.setAttribute('data-tooltip', oldText), 2000) + setTimeout(() => el.classList.remove('success'), 2000) +} + +// Changes the copy button icon for two seconds, then changes it back +const temporarilyChangeIcon = (el) => { + el.innerHTML = iconCheck; + setTimeout(() => {el.innerHTML = iconCopy}, 2000) +} + +const addCopyButtonToCodeCells = () => { + // If ClipboardJS hasn't loaded, wait a bit and try again. This + // happens because we load ClipboardJS asynchronously. + if (window.ClipboardJS === undefined) { + setTimeout(addCopyButtonToCodeCells, 250) + return + } + + // Add copybuttons to all of our code cells + const COPYBUTTON_SELECTOR = 'div.highlight pre'; + const codeCells = document.querySelectorAll(COPYBUTTON_SELECTOR) + codeCells.forEach((codeCell, index) => { + const id = codeCellId(index) + codeCell.setAttribute('id', id) + + const clipboardButton = id => + `` + codeCell.insertAdjacentHTML('afterend', clipboardButton(id)) + }) + +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + promptFound = regexp.test(line) + lineGotPrompt.push(promptFound) + if (removePrompts && promptFound) { + outputLines.push(match[2]) + } else { + outputLines.push(line) + } + gotLineCont = line.endsWith(lineContinuationChar) & useLineCont + if (line.includes(hereDocDelim) & useHereDoc) + gotHereDoc = !gotHereDoc + } else if (!onlyCopyPromptLines) { + outputLines.push(line) + } else if (copyEmptyLines && line.trim() === '') { + outputLines.push(line) + } + } + + // If no lines with the prompt were found then just use original lines + if (lineGotPrompt.some(v => v === true)) { + textContent = outputLines.join('\n'); + } + + // Remove a trailing newline to avoid auto-running when pasting + if (textContent.endsWith("\n")) { + textContent = textContent.slice(0, -1) + } + return textContent +} + + +var copyTargetText = (trigger) => { + var target = document.querySelector(trigger.attributes['data-clipboard-target'].value); + + // get filtered text + let exclude = '.linenos, .gp'; + + let text = filterText(target, exclude); + return formatCopyText(text, '', false, true, true, true, '', '') +} + + // Initialize with a callback so we can modify the text before copy + const clipboard = new ClipboardJS('.copybtn', {text: copyTargetText}) + + // Update UI with error/success messages + clipboard.on('success', event => { + clearSelection() + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_success']) + temporarilyChangeIcon(event.trigger) + }) + + clipboard.on('error', event => { + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_failure']) + }) +} + +runWhenDOMLoaded(addCopyButtonToCodeCells) \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/copybutton_funcs.js b/branch/rantahar-autodoc-to-md/singlehtml/_static/copybutton_funcs.js new file mode 100644 index 0000000..dbe1aaa --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/copybutton_funcs.js @@ -0,0 +1,73 @@ +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +export function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +export function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + promptFound = regexp.test(line) + lineGotPrompt.push(promptFound) + if (removePrompts && promptFound) { + outputLines.push(match[2]) + } else { + outputLines.push(line) + } + gotLineCont = line.endsWith(lineContinuationChar) & useLineCont + if (line.includes(hereDocDelim) & useHereDoc) + gotHereDoc = !gotHereDoc + } else if (!onlyCopyPromptLines) { + outputLines.push(line) + } else if (copyEmptyLines && line.trim() === '') { + outputLines.push(line) + } + } + + // If no lines with the prompt were found then just use original lines + if (lineGotPrompt.some(v => v === true)) { + textContent = outputLines.join('\n'); + } + + // Remove a trailing newline to avoid auto-running when pasting + if (textContent.endsWith("\n")) { + textContent = textContent.slice(0, -1) + } + return textContent +} diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/css/badge_only.css b/branch/rantahar-autodoc-to-md/singlehtml/_static/css/badge_only.css new file mode 100644 index 0000000..c718cee --- 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+ return this; // for chaining... + } +})(jQuery); + +// NO good way to do this!. 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+ var top = secProperties['top']; + var height = secProperties['height'] + var win_height = window.innerHeight; + //console.info(top, height, win_height) + + var scroll_to = 0; + if (height >= win_height || height == 0) { + scroll_to = top; + } else { + scroll_to = top - (win_height-height)/3.; + } + //console.info(top, height, win_height, scroll_to) + + $('html, body').animate({ + scrollTop: scroll_to //+ 'px' + }, 'fast'); + +} + + +function minipres() { + /* Enable the minipres mode: + - call the hide() function + - set up the scrolling listener + */ + document.addEventListener('keydown', function (event) { + switch(event.which) { + case 37: // left + switch_slide(-1); + event.preventDefault(); + return false; + break; + //case 38: // up + case 39: // right + switch_slide(+1); + event.preventDefault(); + return false; + break; + //case 40: // down + default: + return; // exit this handler for other keys + } + }, true) + + hide() + + // Increase space between sections + //$("div .section").css('margin-bottom', '50%'); 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background-color: #E75C58 +} + +div.highlight .-Color[class*=-BGGreen] { + background-color: #00A250 +} + +div.highlight .-Color[class*=-BGYellow] { + background-color: #DDB62B +} + +div.highlight .-Color[class*=-BGBlue] { + background-color: #208FFB +} + +div.highlight .-Color[class*=-BGMagenta] { + background-color: #D160C4 +} + +div.highlight .-Color[class*=-BGCyan] { + background-color: #60C6C8 +} + +div.highlight .-Color[class*=-BGWhite] { + background-color: #C5C1B4 +} + +/* Font colors for 8-bit ANSI */ + +div.highlight .-Color[class*=-C0] { + color: #000000 +} + +div.highlight .-Color[class*=-BGC0] { + background-color: #000000 +} + +div.highlight .-Color[class*=-C1] { + color: #800000 +} + +div.highlight .-Color[class*=-BGC1] { + background-color: #800000 +} + +div.highlight .-Color[class*=-C2] { + color: #008000 +} + +div.highlight .-Color[class*=-BGC2] { + background-color: #008000 +} + +div.highlight .-Color[class*=-C3] { + color: #808000 +} + +div.highlight .-Color[class*=-BGC3] { + background-color: #808000 +} + +div.highlight .-Color[class*=-C4] { + color: #000080 +} + +div.highlight .-Color[class*=-BGC4] { + background-color: #000080 +} + +div.highlight .-Color[class*=-C5] { + color: #800080 +} + +div.highlight .-Color[class*=-BGC5] { + background-color: #800080 +} + +div.highlight .-Color[class*=-C6] { + color: #008080 +} + +div.highlight .-Color[class*=-BGC6] { + background-color: #008080 +} + +div.highlight .-Color[class*=-C7] { + color: #C0C0C0 +} + +div.highlight .-Color[class*=-BGC7] { + background-color: #C0C0C0 +} + +div.highlight .-Color[class*=-C8] { + color: #808080 +} + +div.highlight .-Color[class*=-BGC8] { + background-color: #808080 +} + +div.highlight .-Color[class*=-C9] { + color: #FF0000 +} + +div.highlight .-Color[class*=-BGC9] { + background-color: #FF0000 +} + +div.highlight .-Color[class*=-C10] { + color: #00FF00 +} + +div.highlight .-Color[class*=-BGC10] { + background-color: #00FF00 +} + +div.highlight .-Color[class*=-C11] { + color: #FFFF00 +} + +div.highlight .-Color[class*=-BGC11] { + background-color: #FFFF00 +} + +div.highlight .-Color[class*=-C12] { + color: #0000FF +} + +div.highlight .-Color[class*=-BGC12] { + background-color: #0000FF +} + +div.highlight .-Color[class*=-C13] { + color: #FF00FF +} + +div.highlight .-Color[class*=-BGC13] { + background-color: #FF00FF +} + +div.highlight .-Color[class*=-C14] { + color: #00FFFF +} + +div.highlight .-Color[class*=-BGC14] { + background-color: #00FFFF +} + +div.highlight .-Color[class*=-C15] { + color: #FFFFFF +} + +div.highlight .-Color[class*=-BGC15] { + background-color: #FFFFFF +} + +div.highlight .-Color[class*=-C16] { + color: #000000 +} + +div.highlight .-Color[class*=-BGC16] { + background-color: #000000 +} + +div.highlight .-Color[class*=-C17] { + color: #00005F +} + +div.highlight .-Color[class*=-BGC17] { + background-color: #00005F +} + +div.highlight .-Color[class*=-C18] { + color: #000087 +} + +div.highlight .-Color[class*=-BGC18] { + background-color: #000087 +} + +div.highlight .-Color[class*=-C19] { + color: #0000AF +} + +div.highlight .-Color[class*=-BGC19] { + background-color: #0000AF +} + +div.highlight .-Color[class*=-C20] { + color: #0000D7 +} + +div.highlight .-Color[class*=-BGC20] { + background-color: #0000D7 +} + +div.highlight .-Color[class*=-C21] { + color: #0000FF +} + +div.highlight .-Color[class*=-BGC21] { + background-color: #0000FF +} + +div.highlight .-Color[class*=-C22] { + color: #005F00 +} + +div.highlight .-Color[class*=-BGC22] { + background-color: #005F00 +} + +div.highlight .-Color[class*=-C23] { + color: #005F5F +} + +div.highlight .-Color[class*=-BGC23] { + background-color: #005F5F +} + +div.highlight .-Color[class*=-C24] { + color: #005F87 +} + +div.highlight .-Color[class*=-BGC24] { + background-color: #005F87 +} + +div.highlight .-Color[class*=-C25] { + color: #005FAF +} + +div.highlight .-Color[class*=-BGC25] { + background-color: #005FAF +} + +div.highlight .-Color[class*=-C26] { + color: #005FD7 +} + +div.highlight .-Color[class*=-BGC26] { + background-color: #005FD7 +} + +div.highlight .-Color[class*=-C27] { + color: #005FFF +} + +div.highlight .-Color[class*=-BGC27] { + background-color: #005FFF +} + +div.highlight .-Color[class*=-C28] { + color: #008700 +} + +div.highlight .-Color[class*=-BGC28] { + background-color: #008700 +} + +div.highlight .-Color[class*=-C29] { + color: #00875F +} + +div.highlight .-Color[class*=-BGC29] { + background-color: #00875F +} + +div.highlight .-Color[class*=-C30] { + color: #008787 +} + +div.highlight .-Color[class*=-BGC30] { + background-color: #008787 +} + +div.highlight .-Color[class*=-C31] { + color: #0087AF +} + +div.highlight .-Color[class*=-BGC31] { + background-color: #0087AF +} + +div.highlight .-Color[class*=-C32] { + color: #0087D7 +} + +div.highlight .-Color[class*=-BGC32] { + background-color: #0087D7 +} + +div.highlight .-Color[class*=-C33] { + color: #0087FF +} + +div.highlight .-Color[class*=-BGC33] { + background-color: #0087FF +} + +div.highlight .-Color[class*=-C34] { + color: #00AF00 +} + +div.highlight .-Color[class*=-BGC34] { + background-color: #00AF00 +} + +div.highlight .-Color[class*=-C35] { + color: #00AF5F +} + +div.highlight .-Color[class*=-BGC35] { + background-color: #00AF5F +} + +div.highlight .-Color[class*=-C36] { + color: #00AF87 +} + +div.highlight .-Color[class*=-BGC36] { + background-color: #00AF87 +} + +div.highlight .-Color[class*=-C37] { + color: #00AFAF +} + +div.highlight .-Color[class*=-BGC37] { + background-color: #00AFAF +} + +div.highlight .-Color[class*=-C38] { + color: #00AFD7 +} + +div.highlight .-Color[class*=-BGC38] { + background-color: #00AFD7 +} + +div.highlight .-Color[class*=-C39] { + color: #00AFFF +} + +div.highlight .-Color[class*=-BGC39] { + background-color: #00AFFF +} + +div.highlight .-Color[class*=-C40] { + color: #00D700 +} + +div.highlight .-Color[class*=-BGC40] { + background-color: #00D700 +} + +div.highlight .-Color[class*=-C41] { + color: #00D75F +} + +div.highlight .-Color[class*=-BGC41] { + background-color: #00D75F +} + +div.highlight .-Color[class*=-C42] { + color: #00D787 +} + +div.highlight .-Color[class*=-BGC42] { + background-color: #00D787 +} + +div.highlight .-Color[class*=-C43] { + color: #00D7AF +} + +div.highlight .-Color[class*=-BGC43] { + background-color: #00D7AF +} + +div.highlight .-Color[class*=-C44] { + color: #00D7D7 +} + +div.highlight .-Color[class*=-BGC44] { + background-color: #00D7D7 +} + +div.highlight .-Color[class*=-C45] { + color: #00D7FF +} + +div.highlight .-Color[class*=-BGC45] { + background-color: #00D7FF +} + +div.highlight .-Color[class*=-C46] { + color: #00FF00 +} + +div.highlight .-Color[class*=-BGC46] { + background-color: #00FF00 +} + +div.highlight .-Color[class*=-C47] { + color: #00FF5F +} + +div.highlight .-Color[class*=-BGC47] { + background-color: #00FF5F +} + +div.highlight .-Color[class*=-C48] { + color: #00FF87 +} + +div.highlight .-Color[class*=-BGC48] { + background-color: #00FF87 +} + +div.highlight .-Color[class*=-C49] { + color: #00FFAF +} + +div.highlight .-Color[class*=-BGC49] { + background-color: #00FFAF +} + +div.highlight .-Color[class*=-C50] { + color: #00FFD7 +} + +div.highlight .-Color[class*=-BGC50] { + background-color: #00FFD7 +} + +div.highlight .-Color[class*=-C51] { + color: #00FFFF +} + +div.highlight .-Color[class*=-BGC51] { + background-color: #00FFFF +} + +div.highlight .-Color[class*=-C52] { + color: #5F0000 +} + +div.highlight .-Color[class*=-BGC52] { + background-color: #5F0000 +} + +div.highlight .-Color[class*=-C53] { + color: #5F005F +} + +div.highlight .-Color[class*=-BGC53] { + background-color: #5F005F +} + +div.highlight .-Color[class*=-C54] { + color: #5F0087 +} + +div.highlight .-Color[class*=-BGC54] { + background-color: #5F0087 +} + +div.highlight .-Color[class*=-C55] { + color: #5F00AF +} + +div.highlight .-Color[class*=-BGC55] { + background-color: #5F00AF +} + +div.highlight .-Color[class*=-C56] { + color: #5F00D7 +} + +div.highlight .-Color[class*=-BGC56] { + background-color: #5F00D7 +} + +div.highlight .-Color[class*=-C57] { + color: #5F00FF +} + +div.highlight .-Color[class*=-BGC57] { + background-color: #5F00FF +} + +div.highlight .-Color[class*=-C58] { + color: #5F5F00 +} + +div.highlight .-Color[class*=-BGC58] { + background-color: #5F5F00 +} + +div.highlight .-Color[class*=-C59] { + color: #5F5F5F +} + +div.highlight .-Color[class*=-BGC59] { + background-color: #5F5F5F +} + +div.highlight .-Color[class*=-C60] { + color: #5F5F87 +} + +div.highlight .-Color[class*=-BGC60] { + background-color: #5F5F87 +} + +div.highlight .-Color[class*=-C61] { + color: #5F5FAF +} + +div.highlight .-Color[class*=-BGC61] { + background-color: #5F5FAF +} + +div.highlight .-Color[class*=-C62] { + color: #5F5FD7 +} + +div.highlight .-Color[class*=-BGC62] { + background-color: #5F5FD7 +} + +div.highlight .-Color[class*=-C63] { + color: #5F5FFF +} + +div.highlight .-Color[class*=-BGC63] { + background-color: #5F5FFF +} + +div.highlight .-Color[class*=-C64] { + color: #5F8700 +} + +div.highlight .-Color[class*=-BGC64] { + background-color: #5F8700 +} + +div.highlight .-Color[class*=-C65] { + color: #5F875F +} + +div.highlight .-Color[class*=-BGC65] { + background-color: #5F875F +} + +div.highlight .-Color[class*=-C66] { + color: #5F8787 +} + +div.highlight .-Color[class*=-BGC66] { + background-color: #5F8787 +} + +div.highlight .-Color[class*=-C67] { + color: #5F87AF +} + +div.highlight .-Color[class*=-BGC67] { + background-color: #5F87AF +} + +div.highlight .-Color[class*=-C68] { + color: #5F87D7 +} + +div.highlight .-Color[class*=-BGC68] { + background-color: #5F87D7 +} + +div.highlight .-Color[class*=-C69] { + color: #5F87FF +} + +div.highlight .-Color[class*=-BGC69] { + background-color: #5F87FF +} + +div.highlight .-Color[class*=-C70] { + color: #5FAF00 +} + +div.highlight .-Color[class*=-BGC70] { + background-color: #5FAF00 +} + +div.highlight .-Color[class*=-C71] { + color: #5FAF5F +} + +div.highlight .-Color[class*=-BGC71] { + background-color: #5FAF5F +} + +div.highlight .-Color[class*=-C72] { + color: #5FAF87 +} + +div.highlight .-Color[class*=-BGC72] { + background-color: #5FAF87 +} + +div.highlight .-Color[class*=-C73] { + color: #5FAFAF +} + +div.highlight .-Color[class*=-BGC73] { + background-color: #5FAFAF +} + +div.highlight .-Color[class*=-C74] { + color: #5FAFD7 +} + +div.highlight .-Color[class*=-BGC74] { + background-color: #5FAFD7 +} + +div.highlight .-Color[class*=-C75] { + color: #5FAFFF +} + +div.highlight .-Color[class*=-BGC75] { + background-color: #5FAFFF +} + +div.highlight .-Color[class*=-C76] { + color: #5FD700 +} + +div.highlight .-Color[class*=-BGC76] { + background-color: #5FD700 +} + +div.highlight .-Color[class*=-C77] { + color: #5FD75F +} + +div.highlight .-Color[class*=-BGC77] { + background-color: #5FD75F +} + +div.highlight .-Color[class*=-C78] { + color: #5FD787 +} + +div.highlight .-Color[class*=-BGC78] { + background-color: #5FD787 +} + +div.highlight .-Color[class*=-C79] { + color: #5FD7AF +} + +div.highlight .-Color[class*=-BGC79] { + background-color: #5FD7AF +} + +div.highlight .-Color[class*=-C80] { + color: #5FD7D7 +} + +div.highlight .-Color[class*=-BGC80] { + background-color: #5FD7D7 +} + +div.highlight .-Color[class*=-C81] { + color: #5FD7FF +} + +div.highlight .-Color[class*=-BGC81] { + background-color: #5FD7FF +} + +div.highlight .-Color[class*=-C82] { + color: #5FFF00 +} + +div.highlight .-Color[class*=-BGC82] { + background-color: #5FFF00 +} + +div.highlight .-Color[class*=-C83] { + color: #5FFF5F +} + +div.highlight .-Color[class*=-BGC83] { + background-color: #5FFF5F +} + +div.highlight .-Color[class*=-C84] { + color: #5FFF87 +} + +div.highlight .-Color[class*=-BGC84] { + background-color: #5FFF87 +} + +div.highlight .-Color[class*=-C85] { + color: #5FFFAF +} + +div.highlight .-Color[class*=-BGC85] { + background-color: #5FFFAF +} + +div.highlight .-Color[class*=-C86] { + color: #5FFFD7 +} + +div.highlight .-Color[class*=-BGC86] { + background-color: #5FFFD7 +} + +div.highlight .-Color[class*=-C87] { + color: #5FFFFF +} + +div.highlight .-Color[class*=-BGC87] { + background-color: #5FFFFF +} + +div.highlight .-Color[class*=-C88] { + color: #870000 +} + +div.highlight .-Color[class*=-BGC88] { + background-color: #870000 +} + +div.highlight .-Color[class*=-C89] { + color: #87005F +} + +div.highlight .-Color[class*=-BGC89] { + background-color: #87005F +} + +div.highlight .-Color[class*=-C90] { + color: #870087 +} + +div.highlight .-Color[class*=-BGC90] { + background-color: #870087 +} + +div.highlight .-Color[class*=-C91] { + color: #8700AF +} + +div.highlight .-Color[class*=-BGC91] { + background-color: #8700AF +} + +div.highlight .-Color[class*=-C92] { + color: #8700D7 +} + +div.highlight .-Color[class*=-BGC92] { + background-color: #8700D7 +} + +div.highlight .-Color[class*=-C93] { + color: #8700FF +} + +div.highlight .-Color[class*=-BGC93] { + background-color: #8700FF +} + +div.highlight .-Color[class*=-C94] { + color: #875F00 +} + +div.highlight .-Color[class*=-BGC94] { + background-color: #875F00 +} + +div.highlight .-Color[class*=-C95] { + color: #875F5F +} + +div.highlight .-Color[class*=-BGC95] { + background-color: #875F5F +} + +div.highlight .-Color[class*=-C96] { + color: #875F87 +} + +div.highlight .-Color[class*=-BGC96] { + background-color: #875F87 +} + +div.highlight .-Color[class*=-C97] { + color: #875FAF +} + +div.highlight .-Color[class*=-BGC97] { + background-color: #875FAF +} + +div.highlight .-Color[class*=-C98] { + color: #875FD7 +} + +div.highlight .-Color[class*=-BGC98] { + background-color: #875FD7 +} + +div.highlight .-Color[class*=-C99] { + color: #875FFF +} + +div.highlight .-Color[class*=-BGC99] { + background-color: #875FFF +} + +div.highlight .-Color[class*=-C100] { + color: #878700 +} + +div.highlight .-Color[class*=-BGC100] { + background-color: #878700 +} + +div.highlight .-Color[class*=-C101] { + color: #87875F +} + +div.highlight .-Color[class*=-BGC101] { + background-color: #87875F +} + +div.highlight .-Color[class*=-C102] { + color: #878787 +} + +div.highlight .-Color[class*=-BGC102] { + background-color: #878787 +} + +div.highlight .-Color[class*=-C103] { + color: #8787AF +} + +div.highlight .-Color[class*=-BGC103] { + background-color: #8787AF +} + +div.highlight .-Color[class*=-C104] { + color: #8787D7 +} + +div.highlight .-Color[class*=-BGC104] { + background-color: #8787D7 +} + +div.highlight .-Color[class*=-C105] { + color: #8787FF +} + +div.highlight .-Color[class*=-BGC105] { + background-color: #8787FF +} + +div.highlight .-Color[class*=-C106] { + color: #87AF00 +} + +div.highlight .-Color[class*=-BGC106] { + background-color: #87AF00 +} + +div.highlight .-Color[class*=-C107] { + color: #87AF5F +} + +div.highlight .-Color[class*=-BGC107] { + background-color: #87AF5F +} + +div.highlight .-Color[class*=-C108] { + color: #87AF87 +} + +div.highlight .-Color[class*=-BGC108] { + background-color: #87AF87 +} + +div.highlight .-Color[class*=-C109] { + color: #87AFAF +} + +div.highlight .-Color[class*=-BGC109] { + background-color: #87AFAF +} + +div.highlight .-Color[class*=-C110] { + color: #87AFD7 +} + +div.highlight .-Color[class*=-BGC110] { + background-color: #87AFD7 +} + +div.highlight .-Color[class*=-C111] { + color: #87AFFF +} + +div.highlight .-Color[class*=-BGC111] { + background-color: #87AFFF +} + +div.highlight .-Color[class*=-C112] { + color: #87D700 +} + +div.highlight .-Color[class*=-BGC112] { + background-color: #87D700 +} + +div.highlight .-Color[class*=-C113] { + color: #87D75F +} + +div.highlight .-Color[class*=-BGC113] { + background-color: #87D75F +} + +div.highlight .-Color[class*=-C114] { + color: #87D787 +} + +div.highlight .-Color[class*=-BGC114] { + background-color: #87D787 +} + +div.highlight .-Color[class*=-C115] { + color: #87D7AF +} + +div.highlight .-Color[class*=-BGC115] { + background-color: #87D7AF +} + +div.highlight .-Color[class*=-C116] { + color: #87D7D7 +} + +div.highlight .-Color[class*=-BGC116] { + background-color: #87D7D7 +} + +div.highlight .-Color[class*=-C117] { + color: #87D7FF +} + +div.highlight .-Color[class*=-BGC117] { + background-color: #87D7FF +} + +div.highlight .-Color[class*=-C118] { + color: #87FF00 +} + +div.highlight .-Color[class*=-BGC118] { + background-color: #87FF00 +} + +div.highlight .-Color[class*=-C119] { + color: #87FF5F +} + +div.highlight .-Color[class*=-BGC119] { + background-color: #87FF5F +} + +div.highlight .-Color[class*=-C120] { + color: #87FF87 +} + +div.highlight .-Color[class*=-BGC120] { + background-color: #87FF87 +} + +div.highlight .-Color[class*=-C121] { + color: #87FFAF +} + +div.highlight .-Color[class*=-BGC121] { + background-color: #87FFAF +} + +div.highlight .-Color[class*=-C122] { + color: #87FFD7 +} + +div.highlight .-Color[class*=-BGC122] { + background-color: #87FFD7 +} + +div.highlight .-Color[class*=-C123] { + color: #87FFFF +} + +div.highlight .-Color[class*=-BGC123] { + background-color: #87FFFF +} + +div.highlight .-Color[class*=-C124] { + color: #AF0000 +} + +div.highlight .-Color[class*=-BGC124] { + background-color: #AF0000 +} + +div.highlight .-Color[class*=-C125] { + color: #AF005F +} + +div.highlight .-Color[class*=-BGC125] { + background-color: #AF005F +} + +div.highlight .-Color[class*=-C126] { + color: #AF0087 +} + +div.highlight .-Color[class*=-BGC126] { + background-color: #AF0087 +} + +div.highlight .-Color[class*=-C127] { + color: #AF00AF +} + +div.highlight .-Color[class*=-BGC127] { + background-color: #AF00AF +} + +div.highlight .-Color[class*=-C128] { + color: #AF00D7 +} + +div.highlight .-Color[class*=-BGC128] { + background-color: #AF00D7 +} + +div.highlight .-Color[class*=-C129] { + color: #AF00FF +} + +div.highlight .-Color[class*=-BGC129] { + background-color: #AF00FF +} + +div.highlight .-Color[class*=-C130] { + color: #AF5F00 +} + 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background-color: #AF875F +} + +div.highlight .-Color[class*=-C138] { + color: #AF8787 +} + +div.highlight .-Color[class*=-BGC138] { + background-color: #AF8787 +} + +div.highlight .-Color[class*=-C139] { + color: #AF87AF +} + +div.highlight .-Color[class*=-BGC139] { + background-color: #AF87AF +} + +div.highlight .-Color[class*=-C140] { + color: #AF87D7 +} + +div.highlight .-Color[class*=-BGC140] { + background-color: #AF87D7 +} + +div.highlight .-Color[class*=-C141] { + color: #AF87FF +} + +div.highlight .-Color[class*=-BGC141] { + background-color: #AF87FF +} + +div.highlight .-Color[class*=-C142] { + color: #AFAF00 +} + +div.highlight .-Color[class*=-BGC142] { + background-color: #AFAF00 +} + +div.highlight .-Color[class*=-C143] { + color: #AFAF5F +} + +div.highlight .-Color[class*=-BGC143] { + background-color: #AFAF5F +} + +div.highlight .-Color[class*=-C144] { + color: #AFAF87 +} + +div.highlight .-Color[class*=-BGC144] { + background-color: #AFAF87 +} + +div.highlight 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searchtools.js + * ~~~~~~~~~~~~~~~~ + * + * Sphinx JavaScript utilities for the full-text search. + * + * :copyright: Copyright 2007-2024 by the Sphinx team, see AUTHORS. + * :license: BSD, see LICENSE for details. + * + */ +"use strict"; + +/** + * Simple result scoring code. + */ +if (typeof Scorer === "undefined") { + var Scorer = { + // Implement the following function to further tweak the score for each result + // The function takes a result array [docname, title, anchor, descr, score, filename] + // and returns the new score. + /* + score: result => { + const [docname, title, anchor, descr, score, filename] = result + return score + }, + */ + + // query matches the full name of an object + objNameMatch: 11, + // or matches in the last dotted part of the object name + objPartialMatch: 6, + // Additive scores depending on the priority of the object + objPrio: { + 0: 15, // used to be importantResults + 1: 5, // used to be objectResults + 2: -5, // used to be unimportantResults + }, + // Used when the priority is not in the mapping. + objPrioDefault: 0, + + // query found in title + title: 15, + partialTitle: 7, + // query found in terms + term: 5, + partialTerm: 2, + }; +} + +const _removeChildren = (element) => { + while (element && element.lastChild) element.removeChild(element.lastChild); +}; + +/** + * See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Guide/Regular_Expressions#escaping + */ +const _escapeRegExp = (string) => + string.replace(/[.*+\-?^${}()|[\]\\]/g, "\\$&"); // $& means the whole matched string + +const _displayItem = (item, searchTerms, highlightTerms) => { + const docBuilder = DOCUMENTATION_OPTIONS.BUILDER; + const docFileSuffix = DOCUMENTATION_OPTIONS.FILE_SUFFIX; + const docLinkSuffix = DOCUMENTATION_OPTIONS.LINK_SUFFIX; + const showSearchSummary = DOCUMENTATION_OPTIONS.SHOW_SEARCH_SUMMARY; + const contentRoot = document.documentElement.dataset.content_root; + + const [docName, title, anchor, descr, score, _filename] = item; + + let listItem = document.createElement("li"); + let requestUrl; + let linkUrl; + if (docBuilder === "dirhtml") { + // dirhtml builder + let dirname = docName + "/"; + if (dirname.match(/\/index\/$/)) + dirname = dirname.substring(0, dirname.length - 6); + else if (dirname === "index/") dirname = ""; + requestUrl = contentRoot + dirname; + linkUrl = requestUrl; + } else { + // normal html builders + requestUrl = contentRoot + docName + docFileSuffix; + linkUrl = docName + docLinkSuffix; + } + let linkEl = listItem.appendChild(document.createElement("a")); + linkEl.href = linkUrl + anchor; + linkEl.dataset.score = score; + linkEl.innerHTML = title; + if (descr) { + listItem.appendChild(document.createElement("span")).innerHTML = + " (" + descr + ")"; + // highlight search terms in the description + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + } + else if (showSearchSummary) + fetch(requestUrl) + .then((responseData) => responseData.text()) + .then((data) => { + if (data) + listItem.appendChild( + Search.makeSearchSummary(data, searchTerms, anchor) + ); + // highlight search terms in the summary + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + }); + Search.output.appendChild(listItem); +}; +const _finishSearch = (resultCount) => { + Search.stopPulse(); + Search.title.innerText = _("Search Results"); + if (!resultCount) + Search.status.innerText = Documentation.gettext( + "Your search did not match any documents. Please make sure that all words are spelled correctly and that you've selected enough categories." + ); + else + Search.status.innerText = _( + "Search finished, found ${resultCount} page(s) matching the search query." + ).replace('${resultCount}', resultCount); +}; +const _displayNextItem = ( + results, + resultCount, + searchTerms, + highlightTerms, +) => { + // results left, load the summary and display it + // this is intended to be dynamic (don't sub resultsCount) + if (results.length) { + _displayItem(results.pop(), searchTerms, highlightTerms); + setTimeout( + () => _displayNextItem(results, resultCount, searchTerms, highlightTerms), + 5 + ); + } + // search finished, update title and status message + else _finishSearch(resultCount); +}; +// Helper function used by query() to order search results. +// Each input is an array of [docname, title, anchor, descr, score, filename]. +// Order the results by score (in opposite order of appearance, since the +// `_displayNextItem` function uses pop() to retrieve items) and then alphabetically. +const _orderResultsByScoreThenName = (a, b) => { + const leftScore = a[4]; + const rightScore = b[4]; + if (leftScore === rightScore) { + // same score: sort alphabetically + const leftTitle = a[1].toLowerCase(); + const rightTitle = b[1].toLowerCase(); + if (leftTitle === rightTitle) return 0; + return leftTitle > rightTitle ? -1 : 1; // inverted is intentional + } + return leftScore > rightScore ? 1 : -1; +}; + +/** + * Default splitQuery function. Can be overridden in ``sphinx.search`` with a + * custom function per language. + * + * The regular expression works by splitting the string on consecutive characters + * that are not Unicode letters, numbers, underscores, or emoji characters. + * This is the same as ``\W+`` in Python, preserving the surrogate pair area. + */ +if (typeof splitQuery === "undefined") { + var splitQuery = (query) => query + .split(/[^\p{Letter}\p{Number}_\p{Emoji_Presentation}]+/gu) + .filter(term => term) // remove remaining empty strings +} + +/** + * Search Module + */ +const Search = { + _index: null, + _queued_query: null, + _pulse_status: -1, + + htmlToText: (htmlString, anchor) => { + const htmlElement = new DOMParser().parseFromString(htmlString, 'text/html'); + for (const removalQuery of [".headerlink", "script", "style"]) { + htmlElement.querySelectorAll(removalQuery).forEach((el) => { el.remove() }); + } + if (anchor) { + const anchorContent = htmlElement.querySelector(`[role="main"] ${anchor}`); + if (anchorContent) return anchorContent.textContent; + + console.warn( + `Anchored content block not found. Sphinx search tries to obtain it via DOM query '[role=main] ${anchor}'. Check your theme or template.` + ); + } + + // if anchor not specified or not found, fall back to main content + const docContent = htmlElement.querySelector('[role="main"]'); + if (docContent) return docContent.textContent; + + console.warn( + "Content block not found. Sphinx search tries to obtain it via DOM query '[role=main]'. Check your theme or template." + ); + return ""; + }, + + init: () => { + const query = new URLSearchParams(window.location.search).get("q"); + document + .querySelectorAll('input[name="q"]') + .forEach((el) => (el.value = query)); + if (query) Search.performSearch(query); + }, + + loadIndex: (url) => + (document.body.appendChild(document.createElement("script")).src = url), + + setIndex: (index) => { + Search._index = index; + if (Search._queued_query !== null) { + const query = Search._queued_query; + Search._queued_query = null; + Search.query(query); + } + }, + + hasIndex: () => Search._index !== null, + + deferQuery: (query) => (Search._queued_query = query), + + stopPulse: () => (Search._pulse_status = -1), + + startPulse: () => { + if (Search._pulse_status >= 0) return; + + const pulse = () => { + Search._pulse_status = (Search._pulse_status + 1) % 4; + Search.dots.innerText = ".".repeat(Search._pulse_status); + if (Search._pulse_status >= 0) window.setTimeout(pulse, 500); + }; + pulse(); + }, + + /** + * perform a search for something (or wait until index is loaded) + */ + performSearch: (query) => { + // create the required interface elements + const searchText = document.createElement("h2"); + searchText.textContent = _("Searching"); + const searchSummary = document.createElement("p"); + searchSummary.classList.add("search-summary"); + searchSummary.innerText = ""; + const searchList = document.createElement("ul"); + searchList.classList.add("search"); + + const out = document.getElementById("search-results"); + Search.title = out.appendChild(searchText); + Search.dots = Search.title.appendChild(document.createElement("span")); + Search.status = out.appendChild(searchSummary); + Search.output = out.appendChild(searchList); + + const searchProgress = document.getElementById("search-progress"); + // Some themes don't use the search progress node + if (searchProgress) { + searchProgress.innerText = _("Preparing search..."); + } + Search.startPulse(); + + // index already loaded, the browser was quick! + if (Search.hasIndex()) Search.query(query); + else Search.deferQuery(query); + }, + + _parseQuery: (query) => { + // stem the search terms and add them to the correct list + const stemmer = new Stemmer(); + const searchTerms = new Set(); + const excludedTerms = new Set(); + const highlightTerms = new Set(); + const objectTerms = new Set(splitQuery(query.toLowerCase().trim())); + splitQuery(query.trim()).forEach((queryTerm) => { + const queryTermLower = queryTerm.toLowerCase(); + + // maybe skip this "word" + // stopwords array is from language_data.js + if ( + stopwords.indexOf(queryTermLower) !== -1 || + queryTerm.match(/^\d+$/) + ) + return; + + // stem the word + let word = stemmer.stemWord(queryTermLower); + // select the correct list + if (word[0] === "-") excludedTerms.add(word.substr(1)); + else { + searchTerms.add(word); + highlightTerms.add(queryTermLower); + } + }); + + if (SPHINX_HIGHLIGHT_ENABLED) { // set in sphinx_highlight.js + localStorage.setItem("sphinx_highlight_terms", [...highlightTerms].join(" ")) + } + + // console.debug("SEARCH: searching for:"); + // console.info("required: ", [...searchTerms]); + // console.info("excluded: ", [...excludedTerms]); + + return [query, searchTerms, excludedTerms, highlightTerms, objectTerms]; + }, + + /** + * execute search (requires search index to be loaded) + */ + _performSearch: (query, searchTerms, excludedTerms, highlightTerms, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + const allTitles = Search._index.alltitles; + const indexEntries = Search._index.indexentries; + + // Collect multiple result groups to be sorted separately and then ordered. + // Each is an array of [docname, title, anchor, descr, score, filename]. + const normalResults = []; + const nonMainIndexResults = []; + + _removeChildren(document.getElementById("search-progress")); + + const queryLower = query.toLowerCase().trim(); + for (const [title, foundTitles] of Object.entries(allTitles)) { + if (title.toLowerCase().trim().includes(queryLower) && (queryLower.length >= title.length/2)) { + for (const [file, id] of foundTitles) { + const score = Math.round(Scorer.title * queryLower.length / title.length); + const boost = titles[file] === title ? 1 : 0; // add a boost for document titles + normalResults.push([ + docNames[file], + titles[file] !== title ? `${titles[file]} > ${title}` : title, + id !== null ? "#" + id : "", + null, + score + boost, + filenames[file], + ]); + } + } + } + + // search for explicit entries in index directives + for (const [entry, foundEntries] of Object.entries(indexEntries)) { + if (entry.includes(queryLower) && (queryLower.length >= entry.length/2)) { + for (const [file, id, isMain] of foundEntries) { + const score = Math.round(100 * queryLower.length / entry.length); + const result = [ + docNames[file], + titles[file], + id ? "#" + id : "", + null, + score, + filenames[file], + ]; + if (isMain) { + normalResults.push(result); + } else { + nonMainIndexResults.push(result); + } + } + } + } + + // lookup as object + objectTerms.forEach((term) => + normalResults.push(...Search.performObjectSearch(term, objectTerms)) + ); + + // lookup as search terms in fulltext + normalResults.push(...Search.performTermsSearch(searchTerms, excludedTerms)); + + // let the scorer override scores with a custom scoring function + if (Scorer.score) { + normalResults.forEach((item) => (item[4] = Scorer.score(item))); + nonMainIndexResults.forEach((item) => (item[4] = Scorer.score(item))); + } + + // Sort each group of results by score and then alphabetically by name. + normalResults.sort(_orderResultsByScoreThenName); + nonMainIndexResults.sort(_orderResultsByScoreThenName); + + // Combine the result groups in (reverse) order. + // Non-main index entries are typically arbitrary cross-references, + // so display them after other results. + let results = [...nonMainIndexResults, ...normalResults]; + + // remove duplicate search results + // note the reversing of results, so that in the case of duplicates, the highest-scoring entry is kept + let seen = new Set(); + results = results.reverse().reduce((acc, result) => { + let resultStr = result.slice(0, 4).concat([result[5]]).map(v => String(v)).join(','); + if (!seen.has(resultStr)) { + acc.push(result); + seen.add(resultStr); + } + return acc; + }, []); + + return results.reverse(); + }, + + query: (query) => { + const [searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms] = Search._parseQuery(query); + const results = Search._performSearch(searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms); + + // for debugging + //Search.lastresults = results.slice(); // a copy + // console.info("search results:", Search.lastresults); + + // print the results + _displayNextItem(results, results.length, searchTerms, highlightTerms); + }, + + /** + * search for object names + */ + performObjectSearch: (object, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const objects = Search._index.objects; + const objNames = Search._index.objnames; + const titles = Search._index.titles; + + const results = []; + + const objectSearchCallback = (prefix, match) => { + const name = match[4] + const fullname = (prefix ? prefix + "." : "") + name; + const fullnameLower = fullname.toLowerCase(); + if (fullnameLower.indexOf(object) < 0) return; + + let score = 0; + const parts = fullnameLower.split("."); + + // check for different match types: exact matches of full name or + // "last name" (i.e. last dotted part) + if (fullnameLower === object || parts.slice(-1)[0] === object) + score += Scorer.objNameMatch; + else if (parts.slice(-1)[0].indexOf(object) > -1) + score += Scorer.objPartialMatch; // matches in last name + + const objName = objNames[match[1]][2]; + const title = titles[match[0]]; + + // If more than one term searched for, we require other words to be + // found in the name/title/description + const otherTerms = new Set(objectTerms); + otherTerms.delete(object); + if (otherTerms.size > 0) { + const haystack = `${prefix} ${name} ${objName} ${title}`.toLowerCase(); + if ( + [...otherTerms].some((otherTerm) => haystack.indexOf(otherTerm) < 0) + ) + return; + } + + let anchor = match[3]; + if (anchor === "") anchor = fullname; + else if (anchor === "-") anchor = objNames[match[1]][1] + "-" + fullname; + + const descr = objName + _(", in ") + title; + + // add custom score for some objects according to scorer + if (Scorer.objPrio.hasOwnProperty(match[2])) + score += Scorer.objPrio[match[2]]; + else score += Scorer.objPrioDefault; + + results.push([ + docNames[match[0]], + fullname, + "#" + anchor, + descr, + score, + filenames[match[0]], + ]); + }; + Object.keys(objects).forEach((prefix) => + objects[prefix].forEach((array) => + objectSearchCallback(prefix, array) + ) + ); + return results; + }, + + /** + * search for full-text terms in the index + */ + performTermsSearch: (searchTerms, excludedTerms) => { + // prepare search + const terms = Search._index.terms; + const titleTerms = Search._index.titleterms; + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + + const scoreMap = new Map(); + const fileMap = new Map(); + + // perform the search on the required terms + searchTerms.forEach((word) => { + const files = []; + const arr = [ + { files: terms[word], score: Scorer.term }, + { files: titleTerms[word], score: Scorer.title }, + ]; + // add support for partial matches + if (word.length > 2) { + const escapedWord = _escapeRegExp(word); + if (!terms.hasOwnProperty(word)) { + Object.keys(terms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: terms[term], score: Scorer.partialTerm }); + }); + } + if (!titleTerms.hasOwnProperty(word)) { + Object.keys(titleTerms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: titleTerms[term], score: Scorer.partialTitle }); + }); + } + } + + // no match but word was a required one + if (arr.every((record) => record.files === undefined)) return; + + // found search word in contents + arr.forEach((record) => { + if (record.files === undefined) return; + + let recordFiles = record.files; + if (recordFiles.length === undefined) recordFiles = [recordFiles]; + files.push(...recordFiles); + + // set score for the word in each file + recordFiles.forEach((file) => { + if (!scoreMap.has(file)) scoreMap.set(file, {}); + scoreMap.get(file)[word] = record.score; + }); + }); + + // create the mapping + files.forEach((file) => { + if (!fileMap.has(file)) fileMap.set(file, [word]); + else if (fileMap.get(file).indexOf(word) === -1) fileMap.get(file).push(word); + }); + }); + + // now check if the files don't contain excluded terms + const results = []; + for (const [file, wordList] of fileMap) { + // check if all requirements are matched + + // as search terms with length < 3 are discarded + const filteredTermCount = [...searchTerms].filter( + (term) => term.length > 2 + ).length; + if ( + wordList.length !== searchTerms.size && + wordList.length !== filteredTermCount + ) + continue; + + // ensure that none of the excluded terms is in the search result + if ( + [...excludedTerms].some( + (term) => + terms[term] === file || + titleTerms[term] === file || + (terms[term] || []).includes(file) || + (titleTerms[term] || []).includes(file) + ) + ) + break; + + // select one (max) score for the file. + const score = Math.max(...wordList.map((w) => scoreMap.get(file)[w])); + // add result to the result list + results.push([ + docNames[file], + titles[file], + "", + null, + score, + filenames[file], + ]); + } + return results; + }, + + /** + * helper function to return a node containing the + * search summary for a given text. keywords is a list + * of stemmed words. + */ + makeSearchSummary: (htmlText, keywords, anchor) => { + const text = Search.htmlToText(htmlText, anchor); + if (text === "") return null; + + const textLower = text.toLowerCase(); + const actualStartPosition = [...keywords] + .map((k) => textLower.indexOf(k.toLowerCase())) + .filter((i) => i > -1) + .slice(-1)[0]; + const startWithContext = Math.max(actualStartPosition - 120, 0); + + const top = startWithContext === 0 ? "" : "..."; + const tail = startWithContext + 240 < text.length ? "..." : ""; + + let summary = document.createElement("p"); + summary.classList.add("context"); + summary.textContent = top + text.substr(startWithContext, 240).trim() + tail; + + return summary; + }, +}; + +_ready(Search.init); diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/sphinx_highlight.js b/branch/rantahar-autodoc-to-md/singlehtml/_static/sphinx_highlight.js new file mode 100644 index 0000000..8a96c69 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/sphinx_highlight.js @@ -0,0 +1,154 @@ +/* Highlighting utilities for Sphinx HTML documentation. */ +"use strict"; + +const SPHINX_HIGHLIGHT_ENABLED = true + +/** + * highlight a given string on a node by wrapping it in + * span elements with the given class name. + */ +const _highlight = (node, addItems, text, className) => { + if (node.nodeType === Node.TEXT_NODE) { + const val = node.nodeValue; + const parent = node.parentNode; + const pos = val.toLowerCase().indexOf(text); + if ( + pos >= 0 && + !parent.classList.contains(className) && + !parent.classList.contains("nohighlight") + ) { + let span; + + const closestNode = parent.closest("body, svg, foreignObject"); + const isInSVG = closestNode && closestNode.matches("svg"); + if (isInSVG) { + span = document.createElementNS("http://www.w3.org/2000/svg", "tspan"); + } else { + span = document.createElement("span"); + span.classList.add(className); + } + + span.appendChild(document.createTextNode(val.substr(pos, text.length))); + const rest = document.createTextNode(val.substr(pos + text.length)); + parent.insertBefore( + span, + parent.insertBefore( + rest, + node.nextSibling + ) + ); + node.nodeValue = val.substr(0, pos); + /* There may be more occurrences of search term in this node. So call this + * function recursively on the remaining fragment. + */ + _highlight(rest, addItems, text, className); + + if (isInSVG) { + const rect = document.createElementNS( + "http://www.w3.org/2000/svg", + "rect" + ); + const bbox = parent.getBBox(); + rect.x.baseVal.value = bbox.x; + rect.y.baseVal.value = bbox.y; + rect.width.baseVal.value = bbox.width; + rect.height.baseVal.value = bbox.height; + rect.setAttribute("class", className); + addItems.push({ parent: parent, target: rect }); + } + } + } else if (node.matches && !node.matches("button, select, textarea")) { + node.childNodes.forEach((el) => _highlight(el, addItems, text, className)); + } +}; +const _highlightText = (thisNode, text, className) => { + let addItems = []; + _highlight(thisNode, addItems, text, className); + addItems.forEach((obj) => + obj.parent.insertAdjacentElement("beforebegin", obj.target) + ); +}; + +/** + * Small JavaScript module for the documentation. + */ +const SphinxHighlight = { + + /** + * highlight the search words provided in localstorage in the text + */ + highlightSearchWords: () => { + if (!SPHINX_HIGHLIGHT_ENABLED) return; // bail if no highlight + + // get and clear terms from localstorage + const url = new URL(window.location); + const highlight = + localStorage.getItem("sphinx_highlight_terms") + || url.searchParams.get("highlight") + || ""; + localStorage.removeItem("sphinx_highlight_terms") + url.searchParams.delete("highlight"); + window.history.replaceState({}, "", url); + + // get individual terms from highlight string + const terms = highlight.toLowerCase().split(/\s+/).filter(x => x); + if (terms.length === 0) return; // nothing to do + + // There should never be more than one element matching "div.body" + const divBody = document.querySelectorAll("div.body"); + const body = divBody.length ? divBody[0] : document.querySelector("body"); + window.setTimeout(() => { + terms.forEach((term) => _highlightText(body, term, "highlighted")); + }, 10); + + const searchBox = document.getElementById("searchbox"); + if (searchBox === null) return; + searchBox.appendChild( + document + .createRange() + .createContextualFragment( + '

' + + '' + + _("Hide Search Matches") + + "

" + ) + ); + }, + + /** + * helper function to hide the search marks again + */ + hideSearchWords: () => { + document + .querySelectorAll("#searchbox .highlight-link") + .forEach((el) => el.remove()); + document + .querySelectorAll("span.highlighted") + .forEach((el) => el.classList.remove("highlighted")); + localStorage.removeItem("sphinx_highlight_terms") + }, + + initEscapeListener: () => { + // only install a listener if it is really needed + if (!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS) return; + + document.addEventListener("keydown", (event) => { + // bail for input elements + if (BLACKLISTED_KEY_CONTROL_ELEMENTS.has(document.activeElement.tagName)) return; + // bail with special keys + if (event.shiftKey || event.altKey || event.ctrlKey || event.metaKey) return; + if (DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS && (event.key === "Escape")) { + SphinxHighlight.hideSearchWords(); + event.preventDefault(); + } + }); + }, +}; + +_ready(() => { + /* Do not call highlightSearchWords() when we are on the search page. + * It will highlight words from the *previous* search query. + */ + if (typeof Search === "undefined") SphinxHighlight.highlightSearchWords(); + SphinxHighlight.initEscapeListener(); +}); diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/sphinx_lesson.css b/branch/rantahar-autodoc-to-md/singlehtml/_static/sphinx_lesson.css new file mode 100644 index 0000000..14b20c6 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/sphinx_lesson.css @@ -0,0 +1,51 @@ +/* sphinx_lesson.css */ + +body.wy-body-for-nav img.with-border { + border: 2px solid; +} + +.rst-content .admonition-no-content { + padding-bottom: 0px; +} + +.rst-content .demo > .admonition-title::before { + content: "\01F440"; /* Eyes */ } +.rst-content .type-along > .admonition-title::before { + content: "\02328\0FE0F"; /* Keyboard */ } +.rst-content .exercise > .admonition-title::before { + content: "\0270D\0FE0F"; /* Hand */ } +.rst-content .solution > .admonition-title::before { + content: "\02714\0FE0E"; /* Check mark */ } +.rst-content .homework > .admonition-title::before { + content: "\01F4DD"; /* Memo */ } +.rst-content .discussion > .admonition-title::before { + content: "\01F4AC"; /* Speech balloon */ } +.rst-content .questions > .admonition-title::before { + content: "\02753\0FE0E"; /* Question mark */ } +.rst-content .prerequisites > .admonition-title::before { + content: "\02699"; /* Gear */ } +.rst-content .seealso > .admonition-title::before { + content: "\027A1\0FE0E"; /* Question mark */ } + + +/* instructor-note */ +.rst-content .instructor-note { + background: #e7e7e7; +} +.rst-content .instructor-note > .admonition-title { + background: #6a6a6a; +} +.rst-content .instructor-note > .admonition-title::before { + content: ""; +} + + +/* sphinx_toggle_button, make the font white */ +.rst-content .toggle.admonition button.toggle-button { + color: white; +} + +/* sphinx-togglebutton, remove underflow when toggled to hidden mode */ +.rst-content .admonition.toggle-hidden { + padding-bottom: 0px; +} diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/sphinx_rtd_theme_ext_color_contrast.css b/branch/rantahar-autodoc-to-md/singlehtml/_static/sphinx_rtd_theme_ext_color_contrast.css new file mode 100644 index 0000000..e68feb8 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/sphinx_rtd_theme_ext_color_contrast.css @@ -0,0 +1,47 @@ +/* The following are for web accessibility of sphinx_rtd_theme: they + * solve some of the most frequent contrast issues. Remove when this + * solved: + * https://github.com/readthedocs/sphinx_rtd_theme/issues/971 + */ +/* background: #fcfcfc, note boxes #E7F2FA */ +a { color: #2573A7; } /* original #2980B9, #1F5C84; */ +body { color: #242424; } /* original #404040, #383838 */ +.wy-side-nav-search>a, .wy-side-nav-search .wy-dropdown>a { + color: #ffffff; +} /* original #fcfcfc */ +footer { color: #737373; } /* original gray=#808080*/ +footer span.commit code, footer span.commit .rst-content tt, .rst-content footer span.commit tt { + color: #737373; +} /* original gray=#808080*/ +.rst-content tt.literal, .rst-content tt.literal, .rst-content code.literal { + color: #AB2314; +} +/* Sidebar background */ +.wy-side-nav-search { background-color: #277CB4;} + +/* Same, but for pygments */ +.highlight .ch { color: #3E7A89; } /* #! line */ +.highlight .c1 { color: #3E7A89; } /* also comments */ +.highlight .nv { color: #AD3ECC; } /* variable */ +.highlight .gp { color: #B45608; } /* prompt character, $*/ +.highlight .si { color: #3975B1; } /* ${} variable text */ +.highlight .nc { color: #0C78A7; } + +/* Sphinx admonitions */ +/* warning */ +.wy-alert.wy-alert-warning .wy-alert-title, .rst-content .wy-alert-warning.note .wy-alert-title, .rst-content .attention .wy-alert-title, .rst-content .caution .wy-alert-title, .rst-content .wy-alert-warning.danger .wy-alert-title, .rst-content .wy-alert-warning.error .wy-alert-title, .rst-content .wy-alert-warning.hint .wy-alert-title, .rst-content .wy-alert-warning.important .wy-alert-title, .rst-content .wy-alert-warning.tip .wy-alert-title, .rst-content .warning .wy-alert-title, .rst-content .wy-alert-warning.seealso .wy-alert-title, .rst-content .admonition-todo .wy-alert-title, .rst-content .wy-alert-warning.admonition .wy-alert-title, .wy-alert.wy-alert-warning .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-warning .admonition-title, .rst-content .wy-alert-warning.note .admonition-title, .rst-content .attention .admonition-title, .rst-content .caution .admonition-title, .rst-content .wy-alert-warning.danger .admonition-title, .rst-content .wy-alert-warning.error .admonition-title, .rst-content .wy-alert-warning.hint .admonition-title, .rst-content .wy-alert-warning.important .admonition-title, .rst-content .wy-alert-warning.tip .admonition-title, .rst-content .warning .admonition-title, .rst-content .wy-alert-warning.seealso .admonition-title, .rst-content .admonition-todo .admonition-title, .rst-content .wy-alert-warning.admonition .admonition-title { + background: #B15E16; } +/* important */ +.wy-alert.wy-alert-success .wy-alert-title, .rst-content .wy-alert-success.note .wy-alert-title, .rst-content .wy-alert-success.attention .wy-alert-title, .rst-content .wy-alert-success.caution .wy-alert-title, .rst-content .wy-alert-success.danger .wy-alert-title, .rst-content .wy-alert-success.error .wy-alert-title, .rst-content .hint .wy-alert-title, .rst-content .important .wy-alert-title, .rst-content .tip .wy-alert-title, .rst-content .wy-alert-success.warning .wy-alert-title, .rst-content .wy-alert-success.seealso .wy-alert-title, .rst-content .wy-alert-success.admonition-todo .wy-alert-title, .rst-content .wy-alert-success.admonition .wy-alert-title, .wy-alert.wy-alert-success .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-success .admonition-title, .rst-content .wy-alert-success.note .admonition-title, .rst-content .wy-alert-success.attention .admonition-title, .rst-content .wy-alert-success.caution .admonition-title, .rst-content .wy-alert-success.danger .admonition-title, .rst-content .wy-alert-success.error .admonition-title, .rst-content .hint .admonition-title, .rst-content .important .admonition-title, .rst-content .tip .admonition-title, .rst-content .wy-alert-success.warning .admonition-title, .rst-content .wy-alert-success.seealso .admonition-title, .rst-content .wy-alert-success.admonition-todo .admonition-title, .rst-content .wy-alert-success.admonition .admonition-title { + background: #12826C; } +/* seealso, note, etc */ +.wy-alert.wy-alert-info .wy-alert-title, .rst-content .note .wy-alert-title, .rst-content .wy-alert-info.attention .wy-alert-title, .rst-content .wy-alert-info.caution .wy-alert-title, .rst-content .wy-alert-info.danger .wy-alert-title, .rst-content .wy-alert-info.error .wy-alert-title, .rst-content .wy-alert-info.hint .wy-alert-title, .rst-content .wy-alert-info.important .wy-alert-title, .rst-content .wy-alert-info.tip .wy-alert-title, .rst-content .wy-alert-info.warning .wy-alert-title, .rst-content .seealso .wy-alert-title, .rst-content .wy-alert-info.admonition-todo .wy-alert-title, .rst-content .wy-alert-info.admonition .wy-alert-title, .wy-alert.wy-alert-info .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-info .admonition-title, .rst-content .note .admonition-title, .rst-content .wy-alert-info.attention .admonition-title, .rst-content .wy-alert-info.caution .admonition-title, .rst-content .wy-alert-info.danger .admonition-title, .rst-content .wy-alert-info.error .admonition-title, .rst-content .wy-alert-info.hint .admonition-title, .rst-content .wy-alert-info.important .admonition-title, .rst-content .wy-alert-info.tip .admonition-title, .rst-content .wy-alert-info.warning .admonition-title, .rst-content .seealso .admonition-title, .rst-content .wy-alert-info.admonition-todo .admonition-title, .rst-content .wy-alert-info.admonition .admonition-title { + background: #277CB4; } +/* error, danger */ +.rst-content .danger .admonition-title, .rst-content .danger .wy-alert-title, .rst-content .error .admonition-title, .rst-content .error .wy-alert-title, .rst-content .wy-alert-danger.admonition-todo .admonition-title, .rst-content .wy-alert-danger.admonition-todo .wy-alert-title, .rst-content .wy-alert-danger.admonition .admonition-title, .rst-content .wy-alert-danger.admonition .wy-alert-title, .rst-content .wy-alert-danger.attention .admonition-title, .rst-content .wy-alert-danger.attention .wy-alert-title, .rst-content .wy-alert-danger.caution .admonition-title, .rst-content .wy-alert-danger.caution .wy-alert-title, .rst-content .wy-alert-danger.hint .admonition-title, .rst-content .wy-alert-danger.hint .wy-alert-title, .rst-content .wy-alert-danger.important .admonition-title, .rst-content .wy-alert-danger.important .wy-alert-title, .rst-content .wy-alert-danger.note .admonition-title, .rst-content .wy-alert-danger.note .wy-alert-title, .rst-content .wy-alert-danger.seealso .admonition-title, .rst-content .wy-alert-danger.seealso .wy-alert-title, .rst-content .wy-alert-danger.tip .admonition-title, .rst-content .wy-alert-danger.tip .wy-alert-title, .rst-content .wy-alert-danger.warning .admonition-title, .rst-content .wy-alert-danger.warning .wy-alert-title, .rst-content .wy-alert.wy-alert-danger .admonition-title, .wy-alert.wy-alert-danger .rst-content .admonition-title, .wy-alert.wy-alert-danger .wy-alert-title { + background: #e31704; +} + +/* Generic admonition titles */ +.wy-alert-title, .rst-content .admonition-title { + background: #277CB4; } diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/tabs.css b/branch/rantahar-autodoc-to-md/singlehtml/_static/tabs.css new file mode 100644 index 0000000..957ba60 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/tabs.css @@ -0,0 +1,89 @@ +.sphinx-tabs { + margin-bottom: 1rem; +} + +[role="tablist"] { + border-bottom: 1px solid #a0b3bf; +} + +.sphinx-tabs-tab { + position: relative; + font-family: Lato,'Helvetica Neue',Arial,Helvetica,sans-serif; + color: #1D5C87; + line-height: 24px; + margin: 0; + font-size: 16px; + font-weight: 400; + background-color: rgba(255, 255, 255, 0); + border-radius: 5px 5px 0 0; + border: 0; + padding: 1rem 1.5rem; + margin-bottom: 0; +} + +.sphinx-tabs-tab[aria-selected="true"] { + font-weight: 700; + border: 1px solid #a0b3bf; + border-bottom: 1px solid white; + margin: -1px; + background-color: white; +} + +.sphinx-tabs-tab:focus { + z-index: 1; + outline-offset: 1px; +} + +.sphinx-tabs-panel { + position: relative; + padding: 1rem; + border: 1px solid #a0b3bf; + margin: 0px -1px -1px -1px; + border-radius: 0 0 5px 5px; + border-top: 0; + background: white; +} + +.sphinx-tabs-panel.code-tab { + padding: 0.4rem; +} + +.sphinx-tab img { + margin-bottom: 24 px; +} + +/* Dark theme preference styling */ + +@media (prefers-color-scheme: dark) { + body[data-theme="auto"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); + } + + body[data-theme="auto"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); + } + + body[data-theme="auto"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 1px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); + } +} + +/* Explicit dark theme styling */ + +body[data-theme="dark"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); +} + +body[data-theme="dark"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); +} + +body[data-theme="dark"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 2px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); +} diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/tabs.js b/branch/rantahar-autodoc-to-md/singlehtml/_static/tabs.js new file mode 100644 index 0000000..48dc303 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/tabs.js @@ -0,0 +1,145 @@ +try { + var session = window.sessionStorage || {}; +} catch (e) { + var session = {}; +} + +window.addEventListener("DOMContentLoaded", () => { + const allTabs = document.querySelectorAll('.sphinx-tabs-tab'); + const tabLists = document.querySelectorAll('[role="tablist"]'); + + allTabs.forEach(tab => { + tab.addEventListener("click", changeTabs); + }); + + tabLists.forEach(tabList => { + tabList.addEventListener("keydown", keyTabs); + }); + + // Restore group tab selection from session + const lastSelected = session.getItem('sphinx-tabs-last-selected'); + if (lastSelected != null) selectNamedTabs(lastSelected); +}); + +/** + * Key focus left and right between sibling elements using arrows + * @param {Node} e the element in focus when key was pressed + */ +function keyTabs(e) { + const tab = e.target; + let nextTab = null; + if (e.keyCode === 39 || e.keyCode === 37) { + tab.setAttribute("tabindex", -1); + // Move right + if (e.keyCode === 39) { + nextTab = tab.nextElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.firstElementChild; + } + // Move left + } else if (e.keyCode === 37) { + nextTab = tab.previousElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.lastElementChild; + } + } + } + + if (nextTab !== null) { + nextTab.setAttribute("tabindex", 0); + nextTab.focus(); + } +} + +/** + * Select or deselect clicked tab. If a group tab + * is selected, also select tab in other tabLists. + * @param {Node} e the element that was clicked + */ +function changeTabs(e) { + // Use this instead of the element that was clicked, in case it's a child + const notSelected = this.getAttribute("aria-selected") === "false"; + const positionBefore = this.parentNode.getBoundingClientRect().top; + const notClosable = !this.parentNode.classList.contains("closeable"); + + deselectTabList(this); + + if (notSelected || notClosable) { + selectTab(this); + const name = this.getAttribute("name"); + selectNamedTabs(name, this.id); + + if (this.classList.contains("group-tab")) { + // Persist during session + session.setItem('sphinx-tabs-last-selected', name); + } + } + + const positionAfter = this.parentNode.getBoundingClientRect().top; + const positionDelta = positionAfter - positionBefore; + // Scroll to offset content resizing + window.scrollTo(0, window.scrollY + positionDelta); +} + +/** + * Select tab and show associated panel. + * @param {Node} tab tab to select + */ +function selectTab(tab) { + tab.setAttribute("aria-selected", true); + + // Show the associated panel + document + .getElementById(tab.getAttribute("aria-controls")) + .removeAttribute("hidden"); +} + +/** + * Hide the panels associated with all tabs within the + * tablist containing this tab. + * @param {Node} tab a tab within the tablist to deselect + */ +function deselectTabList(tab) { + const parent = tab.parentNode; + const grandparent = parent.parentNode; + + Array.from(parent.children) + .forEach(t => t.setAttribute("aria-selected", false)); + + Array.from(grandparent.children) + .slice(1) // Skip tablist + .forEach(panel => panel.setAttribute("hidden", true)); +} + +/** + * Select grouped tabs with the same name, but no the tab + * with the given id. + * @param {Node} name name of grouped tab to be selected + * @param {Node} clickedId id of clicked tab + */ +function selectNamedTabs(name, clickedId=null) { + const groupedTabs = document.querySelectorAll(`.sphinx-tabs-tab[name="${name}"]`); + const tabLists = Array.from(groupedTabs).map(tab => tab.parentNode); + + tabLists + .forEach(tabList => { + // Don't want to change the tabList containing the clicked tab + const clickedTab = tabList.querySelector(`[id="${clickedId}"]`); + if (clickedTab === null ) { + // Select first tab with matching name + const tab = tabList.querySelector(`.sphinx-tabs-tab[name="${name}"]`); + deselectTabList(tab); + selectTab(tab); + } + }) +} + +if (typeof exports === 'undefined') { + exports = {}; +} + +exports.keyTabs = keyTabs; +exports.changeTabs = changeTabs; +exports.selectTab = selectTab; +exports.deselectTabList = deselectTabList; +exports.selectNamedTabs = selectNamedTabs; diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/term_role_formatting.css b/branch/rantahar-autodoc-to-md/singlehtml/_static/term_role_formatting.css new file mode 100644 index 0000000..0b66095 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/term_role_formatting.css @@ -0,0 +1,4 @@ +/* Make terms bold */ +a.reference span.std-term { + font-weight: bold; +} diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/togglebutton.css b/branch/rantahar-autodoc-to-md/singlehtml/_static/togglebutton.css new file mode 100644 index 0000000..54a6787 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/togglebutton.css @@ -0,0 +1,160 @@ +/** + * Admonition-based toggles + */ + +/* Visibility of the target */ +.admonition.toggle .admonition-title ~ * { + transition: opacity .3s, height .3s; +} + +/* Toggle buttons inside admonitions so we see the title */ +.admonition.toggle { + position: relative; +} + +/* Titles should cut off earlier to avoid overlapping w/ button */ +.admonition.toggle .admonition-title { + padding-right: 25%; + cursor: pointer; +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:hover { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 1%); +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:active { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 3%); +} + +/* Remove extra whitespace below the admonition title when hidden */ +.admonition.toggle-hidden { + padding-bottom: 0; +} + +.admonition.toggle-hidden .admonition-title { + margin-bottom: 0; +} + +/* hides all the content of a page until de-toggled */ +.admonition.toggle-hidden .admonition-title ~ * { + height: 0; + margin: 0; + opacity: 0; + visibility: hidden; +} + +/* General button style and position*/ +button.toggle-button { + /** + * Background and shape. By default there's no background + * but users can style as they wish + */ + background: none; + border: none; + outline: none; + + /* Positioning just inside the admonition title */ + position: absolute; + right: 0.5em; + padding: 0px; + border: none; + outline: none; +} + +/* Display the toggle hint on wide screens */ +@media (min-width: 768px) { + button.toggle-button.toggle-button-hidden:before { + content: attr(data-toggle-hint); /* This will be filled in by JS */ + font-size: .8em; + align-self: center; + } +} + +/* Icon behavior */ +.tb-icon { + transition: transform .2s ease-out; + height: 1.5em; + width: 1.5em; + stroke: currentColor; /* So that we inherit the color of other text */ +} + +/* The icon should point right when closed, down when open. */ +/* Open */ +.admonition.toggle button .tb-icon { + transform: rotate(90deg); +} + +/* Closed */ +.admonition.toggle button.toggle-button-hidden .tb-icon { + transform: rotate(0deg); +} + +/* With details toggles, we don't rotate the icon so it points right */ +details.toggle-details .tb-icon { + height: 1.4em; + width: 1.4em; + margin-top: 0.1em; /* To center the button vertically */ +} + + +/** + * Details-based toggles. + * In this case, we wrap elements with `.toggle` in a details block. + */ + +/* Details blocks */ +details.toggle-details { + margin: 1em 0; +} + + +details.toggle-details summary { + display: flex; + align-items: center; + cursor: pointer; + list-style: none; + border-radius: .2em; + border-left: 3px solid #1976d2; + background-color: rgb(204 204 204 / 10%); + padding: 0.2em 0.7em 0.3em 0.5em; /* Less padding on left because the SVG has left margin */ + font-size: 0.9em; +} + +details.toggle-details summary:hover { + background-color: rgb(204 204 204 / 20%); +} + +details.toggle-details summary:active { + background: rgb(204 204 204 / 28%); +} + +.toggle-details__summary-text { + margin-left: 0.2em; +} + +details.toggle-details[open] summary { + margin-bottom: .5em; +} + +details.toggle-details[open] summary .tb-icon { + transform: rotate(90deg); +} + +details.toggle-details[open] summary ~ * { + animation: toggle-fade-in .3s ease-out; +} + +@keyframes toggle-fade-in { + from {opacity: 0%;} + to {opacity: 100%;} +} + +/* Print rules - we hide all toggle button elements at print */ +@media print { + /* Always hide the summary so the button doesn't show up */ + details.toggle-details summary { + display: none; + } +} \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/singlehtml/_static/togglebutton.js b/branch/rantahar-autodoc-to-md/singlehtml/_static/togglebutton.js new file mode 100644 index 0000000..215a7ee --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/_static/togglebutton.js @@ -0,0 +1,187 @@ +/** + * Add Toggle Buttons to elements + */ + +let toggleChevron = ` + + + +`; + +var initToggleItems = () => { + var itemsToToggle = document.querySelectorAll(togglebuttonSelector); + console.log(`[togglebutton]: Adding toggle buttons to ${itemsToToggle.length} items`) + // Add the button to each admonition and hook up a callback to toggle visibility + itemsToToggle.forEach((item, index) => { + if (item.classList.contains("admonition")) { + // If it's an admonition block, then we'll add a button inside + // Generate unique IDs for this item + var toggleID = `toggle-${index}`; + var buttonID = `button-${toggleID}`; + + item.setAttribute('id', toggleID); + if (!item.classList.contains("toggle")){ + item.classList.add("toggle"); + } + // This is the button that will be added to each item to trigger the toggle + var collapseButton = ` + `; + + title = item.querySelector(".admonition-title") + title.insertAdjacentHTML("beforeend", collapseButton); + thisButton = document.getElementById(buttonID); + + // Add click handlers for the button + admonition title (if admonition) + admonitionTitle = document.querySelector(`#${toggleID} > .admonition-title`) + if (admonitionTitle) { + // If an admonition, then make the whole title block clickable + admonitionTitle.addEventListener('click', toggleClickHandler); + admonitionTitle.dataset.target = toggleID + admonitionTitle.dataset.button = buttonID + } else { + // If not an admonition then we'll listen for the button click + thisButton.addEventListener('click', toggleClickHandler); + } + + // Now hide the item for this toggle button unless explicitly noted to show + if (!item.classList.contains("toggle-shown")) { + toggleHidden(thisButton); + } + } else { + // If not an admonition, wrap the block in a
block + // Define the structure of the details block and insert it as a sibling + var detailsBlock = ` +
+ + ${toggleChevron} + ${toggleHintShow} + +
`; + item.insertAdjacentHTML("beforebegin", detailsBlock); + + // Now move the toggle-able content inside of the details block + details = item.previousElementSibling + details.appendChild(item) + item.classList.add("toggle-details__container") + + // Set up a click trigger to change the text as needed + details.addEventListener('click', (click) => { + let parent = click.target.parentElement; + if (parent.tagName.toLowerCase() == "details") { + summary = parent.querySelector("summary"); + details = parent; + } else { + summary = parent; + details = parent.parentElement; + } + // Update the inner text for the proper hint + if (details.open) { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintShow; + } else { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintHide; + } + + }); + + // If we have a toggle-shown class, open details block should be open + if (item.classList.contains("toggle-shown")) { + details.click(); + } + } + }) +}; + +// This should simply add / remove the collapsed class and change the button text +var toggleHidden = (button) => { + target = button.dataset['target'] + var itemToToggle = document.getElementById(target); + if (itemToToggle.classList.contains("toggle-hidden")) { + itemToToggle.classList.remove("toggle-hidden"); + button.classList.remove("toggle-button-hidden"); + } else { + itemToToggle.classList.add("toggle-hidden"); + button.classList.add("toggle-button-hidden"); + } +} + +var toggleClickHandler = (click) => { + // Be cause the admonition title is clickable and extends to the whole admonition + // We only look for a click event on this title to trigger the toggle. + + if (click.target.classList.contains("admonition-title")) { + button = click.target.querySelector(".toggle-button"); + } else if (click.target.classList.contains("tb-icon")) { + // We've clicked the icon and need to search up one parent for the button + button = click.target.parentElement; + } else if (click.target.tagName == "polyline") { + // We've clicked the SVG elements inside the button, need to up 2 layers + button = click.target.parentElement.parentElement; + } else if (click.target.classList.contains("toggle-button")) { + // We've clicked the button itself and so don't need to do anything + button = click.target; + } else { + console.log(`[togglebutton]: Couldn't find button for ${click.target}`) + } + target = document.getElementById(button.dataset['button']); + toggleHidden(target); +} + +// If we want to blanket-add toggle classes to certain cells +var addToggleToSelector = () => { + const selector = ""; + if (selector.length > 0) { + document.querySelectorAll(selector).forEach((item) => { + item.classList.add("toggle"); + }) + } +} + +// Helper function to run when the DOM is finished +const sphinxToggleRunWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} +sphinxToggleRunWhenDOMLoaded(addToggleToSelector) +sphinxToggleRunWhenDOMLoaded(initToggleItems) + +/** Toggle details blocks to be open when printing */ +if (toggleOpenOnPrint == "true") { + window.addEventListener("beforeprint", () => { + // Open the details + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.dataset["togglestatus"] = el.open; + el.open = true; + }); + + // Open the admonitions + document.querySelectorAll(".admonition.toggle.toggle-hidden").forEach((el) => { + console.log(el); + el.querySelector("button.toggle-button").click(); + el.dataset["toggle_after_print"] = "true"; + }); + }); + window.addEventListener("afterprint", () => { + // Re-close the details that were closed + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.open = el.dataset["togglestatus"] == "true"; + delete el.dataset["togglestatus"]; + }); + + // Re-close the admonition toggle buttons + document.querySelectorAll(".admonition.toggle").forEach((el) => { + if (el.dataset["toggle_after_print"] == "true") { + el.querySelector("button.toggle-button").click(); + delete el.dataset["toggle_after_print"]; + } + }); + }); +} diff --git a/branch/rantahar-autodoc-to-md/singlehtml/index.html b/branch/rantahar-autodoc-to-md/singlehtml/index.html new file mode 100644 index 0000000..bebc4fe --- /dev/null +++ b/branch/rantahar-autodoc-to-md/singlehtml/index.html @@ -0,0 +1,1780 @@ + + + + + + + How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+
    +
    • +
  • How to document your research software documentation
    • +
  • + Edit on GitHub +
    • +
+
+
+
+
+ +
+

How to document your research software

+

In this lesson we will discuss different solutions for implementing and +deploying code documentation.

+

We will start with a discussion about what makes a good README. For many +projects, a README is more than enough.

+

We will then learn how to build documentation with the +documentation generator Sphinx (and compare it +with others) and how to +deploy it to Read the Docs, a service which hosts +open documentation for free.

+

This demonstration will be independent of programming languages.

+

We will also learn how +to deploy a project website or personal homepage to GitHub Pages. +The approach that we will learn will be transferable to +GitLab Pages and +Bitbucket Pages.

+
+

Prerequisites

+
    +

  1. Basic understanding of Git.

    2. +

  2. For the Sphinx part, You need to have +sphinx and sphinx_rtd_theme installed +(they are part of the coderefinery environment).

    3. +

  3. For the GitHub Pages part you need a GitHub account.

    4. +
+
+ + + + + + + + + + + + + + + + + + + + + + + + + + + +

10 min

Motivation and wishlist

10 min

Popular tools and solutions

20 min

In-code documentation

30 min

Writing good README files

30 min

Sphinx and Markdown

20 min

Deploying Sphinx documentation to GitHub Pages

20 min

Hosting websites/homepages on GitHub Pages

5 min

Summary

+
+
+

Motivation and wishlist

+
+

Motivation

+
+

Motivation-1: Why documenting code?

+

Use the collaborative document:

+
    +

  • Is project documentation important? Why?

    • +

  • How would you describe a useful documentation?

    • +

  • How can you motivate your colleagues to contribute to the documentation?

    • +
+
+ +
+
+

What do we expect from a suitably good documentation?

+
+

Note

+

Documentation comes in different forms - what is documentation?

+
    +

  • Tutorials: learning-oriented, allows the newcomer to get started

    • +

  • How-to guides: goal-oriented, shows how to solve a specific problem

    • +

  • Explanation: understanding-oriented, explains a concept

    • +

  • Reference: information-oriented, describes the machinery

    • +
+

Read more:

+ +
+

There is no one size fits all: often for small projects a README.md or +README.rst can be enough (more about these formats later).

+
+
+

Creating a checklist

+
+

Motivation-2: Create a wishlist

+

Use the collaborative document:

+
    +

  • Let us create a wishlist for how we would like documentation to be.

    • +

  • Below are some of our ideas but please do not look at them yet.

    • +

  • We are sure you will come up with ideas we did not think about.

    • +
+
+ +
+

Documentation checklist

+

Which items to include depends on the number of users apart from yourself.

+
    +

  • Purpose

    • +

  • Authors

    • +

  • License

    • +

  • Recommended citation

    • +

  • Copy-paste-able example to get started

    • +

  • Dependencies and their versions or version ranges

    • +

  • Installation instructions

    • +

  • Tutorials covering key functionality

    • +

  • Reference documentation (e.g. API) covering all functionality

    • +

  • How do you want to be asked questions (mailing list or forum or chat or issue tracker)

    • +

  • Possibly a FAQ section

    • +

  • Contribution guide

    • +
+
+
+

Keypoints

+
    +

  • Documentation is part of the code and should be versionable.

    • +

  • Documentation (sources) should be tracked with the corresponding code in the same repository.

    • +

  • Use standard markup languages such as reStructuredText or Markdown.

    • +
+
+
+
+ +
+

In-code documentation

+
+

Questions

+
    +

  • What can I do to make my code more easily understandable?

    • +

  • What information should go into comments?

    • +

  • What are docstrings and what information should go into docstrings?

    • +
+
+

In this episode we will learn how to write good documentation inside your code.

+
+

Exercise - Writing good comments

+
+

In-code-1: Comments

+

Let’s take a look at two example comments (comments in Python start with #):

+

Comment A

+
# now we check if temperature is below -50
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Comment B

+
# we regard temperatures below -50 degrees as measurement errors
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Which of these comments is more useful? Can you explain why?

+ +
+
+
+

Sometimes version control is better than a comment

+
+

Examples for code comments where Git is a better solution

+

Keeping zombie code “just in case” (rather use version control):

+
# do not run this code!
+# if temperature > 0:
+#     print("It is warm")
+
+
+

Instead: Remove the code, you can always find it back in a previous version of your code in Git.

+

Emulating version control:

+
# John Doe: threshold changed from 0 to 15 on August 5, 2013
+if temperature > 15:
+    print("It is warm")
+
+
+

Instead: You can get this information from git log or git show or git   annotate or similar.

+
+
+
+

What are “docstrings” and how can they be useful?

+

Here is function fahrenheit_to_celsius which converts temperature in +Fahrenheit to Celsius, implemented in a couple of different languages. +Your language is missing? Please contribute an example.

+

The first set of examples uses regular comments:

+
+
# This function converts a temperature in Fahrenheit to Celsius.
+def fahrenheit_to_celsius(temp_f: float) -> float:
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+
+

The second set uses docstrings or similar concepts. Please compare the two +(above and below):

+
+
def fahrenheit_to_celsius(temp_f: float) -> float:
+    """
+    Converts a temperature in Fahrenheit to Celsius.
+
+    Parameters
+    ----------
+    temp_f : float
+        The temperature in Fahrenheit.
+
+    Returns
+    -------
+    float
+        The temperature in Celsius.
+    """
+
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+

Read more: https://peps.python.org/pep-0257/

+
+

Docstrings can do a bit more than just comments:

+
    +

  • Tools can generate help text automatically from the docstrings.

    • +

  • Tools can generate documentation pages automatically from code.

    • +
+

It is common to write docstrings for functions, classes, and modules.

+

Good docstrings describe:

+
    +

  • What the function does

    • +

  • What goes in (including the type of the input variables)

    • +

  • What goes out (including the return type)

    • +
+

Naming is documentation: +Giving explicit, descriptive names to your code segments (functions, classes, +variables) already provides very useful and important documentation. In +practice you will find that for simple functions it is unnecessary to add a +docstring when the function name and variable names already give enough +information.

+
+
+

Keypoints

+
    +

  • Comments should describe the why for your code not the what.

    • +

  • Writing docstrings can be a good way to write documentation while you type +code since it also makes it possible +to query that information from outside the code or to auto-generate +documentation pages.

    • +
+
+
+
+
+

Writing good README files

+

The README file (often README.md or README.rst) is usually the first thing +users/collaborators see when visiting your GitHub repository.

+

Use it to communicate important information about your project! For many +smaller or mid-size projects, this is enough documentation. It’s not that hard +to make a basic one, and it’s easy to expand as needed.

+
+

Exercise: Have fun testing some README features

+
+

Exercise README-1: Have fun testing some README features you may not have heard about

+
    +

  • Test the effect of adding the following to your GitHub README (read +more):

    +
    > [!NOTE]
+> Highlights information that users should take into account, even when skimming.
+
+> [!IMPORTANT]
+> Crucial information necessary for users to succeed.
+
+> [!WARNING]
+> Critical content demanding immediate user attention due to potential risks.
+
    +
    +
    • +

  • For more detailed descriptions which you don’t want to show by default you +might find this useful (please try it out):

    +
    <details>
+<summary>
+Short summary
+</summary>
+
+Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod
+tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam,
+quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo
+consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse
+cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non
+proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+</details>
+
    +
    +
    • +

  • Would you like to add a badge like this one: please replace with alt text?

    +

    Badge that links to a website (see also https://shields.io/):

    +
    [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)
+
    +
    +

    Badge without link:

    +
    ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)
+
    +
    +
    • +

  • Know about other tips and tricks? Please share them (send a pull request to this lesson).

    • +
+
+
+
+

Exercise: Improve the README for your own project

+
+

Exercise README-2: Draft or improve a README for one of your recent projects

+

Try to draft a brief README or review a README which you have written for one +of your projects.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • Use the checklist which we have discussed earlier.

    • +

  • Think about the user (which can be a future you) of your project, what does this user need to know to use or +contribute to the project? And how do you make your project attractive to use or contribute to?

    • +

  • (Optional): Try the https://hemingwayapp.com/ to analyse your README file and make your writing bold and clear.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Exercise: Discuss the README of a project that you use

+
+

Exercise README-3: Review and discuss a README of a project that you have used

+

In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • When discussing other people’s projects please remember to be respectful and +constructive. The goal of this exercise is not to criticize other projects but +to learn from other projects and to collect the aspects that you enjoyed +finding in a README and to also collect aspects which you have searched for but +which are sometimes missing.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Table of contents in README files

+
    +

  • GitHub automatically generates a table of contents for README.md files.

    • +

  • On GitLab you can generate a TOC in Markdown with:

    +
    [[_TOC_]]
+
    +
    +
    • +

  • With RST you can generate a table of contents (TOC) automatically by adding:

    +
    .. contents:: Table of Contents
+
    +
    +
    • +
+
+
+
+

Sphinx and Markdown

+
+

Objectives

+
    +

  • Understand how static site generators build websites out of plain +text files.

    • +

  • Create example Sphinx documentation and learn some Markdown along the way.

    • +
+
+

We will take the first steps in creating documentation using Sphinx, and learn some +MyST flavored Markdown syntax along the way.

+
+

This lesson is built with Sphinx

+

Try to compare the source +code +and the result side by side.

+
+

Our goal in this episode is to build HTML pages locally on our computers.

+
+

Before we start, let us verify whether we have the software we need

+

You may need to activate your CodeRefinery conda environment we set up +in the installation instructions. This was covered as part of the +installation instructions, but the most usual command to do this is:

+
$ conda activate coderefinery
+
+
+

Check whether Python is available +(you should see a version; precise version is not so important):

+
$ python --version
+
+Python 3.11.5
+
+
+

Check whether Sphinx is available +(you should see a version; precise version is not so important):

+
$ sphinx-build --version
+
+sphinx-build 5.3.0
+
+
+

Check whether the quickstart tool is available +(you should see a version; precise version is not so important):

+
$ sphinx-quickstart --version
+
+sphinx-quickstart 5.3.0
+
+
+

Check whether MyST parser is available +(you should see no output):

+
$ python -c "import myst_parser"
+
+
+

If the above commands produce an error +(command not found or module not found or ModuleNotFoundError), +please follow our +installation instructions. +But please don’t give up if you don’t have these - the episodes after this one will work even without these +tools.

+
+
+

Exercise: Sphinx quickstart

+
+

Sphinx-1: Generate the basic documentation template

+

Create a directory for the example documentation, step into it, and inside +generate the basic documentation template:

+
$ mkdir doc-example
+$ cd doc-example
+$ sphinx-quickstart
+
+
+

The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release:

+
> Separate source and build directories (y/n) [n]: <hit enter>
+> Project name: <your project name>
+> Author name(s): <your name>
+> Project release []: 0.1
+> Project language [en]: <hit enter>
+
+
+

A couple of files and directories are created:

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

File/directory

Contents

conf.py

Documentation configuration file

index.rst

Main file in Sphinx

_build/

Directory where docs are built (you can decide the name)

_templates/

Your own HTML templates

_static/

Static files (images, styles, etc.) copied to output directory on build

Makefile

Makefile to build documentation using make

make.bat

Makefile to build documentation using make (Windows)

+

Makefile and make.bat (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly.

+

Let’s have a look at the index.rst file, which is the main file of your documentation:

+
.. myproject documentation master file, created by
+   sphinx-quickstart on Sat Sep 23 17:35:26 2023.
+   You can adapt this file completely to your liking, but it should at least
+   contain the root `toctree` directive.
+
+Welcome to myproject's documentation!
+=====================================
+
+.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+
+
+
    +

  • We will not use the Indices and tables section now, so remove it and everything below.

    • +

  • The top four lines, starting with .., are a comment.

    • +

  • The next lines are the table of contents. We can add content below:

    • +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+
+
+

Note that some-feature.md needs to be indented to align with :caption:.

+

We now need to tell Sphinx to use markdown files. To do this, we open +conf.py and replace the line:

+
extensions = []
+
+
+

with this line so that Sphinx can parse Markdown files:

+
extensions = ['myst_parser']
+
+
+

Let’s create the file some-feature.md (in Markdown format) which we have just listed in +index.rst (which uses reStructured Text format).

+
# Some feature
+
+## Subsection
+
+Exciting documentation in here.
+Let's make a list (empty surrounding lines required):
+
+- item 1
+
+  - nested item 1
+  - nested item 2
+
+- item 2
+- item 3
+
+
+

We now build the site:

+
$ ls -1
+
+_static
+_templates
+conf.py
+index.rst
+make.bat
+Makefile
+some-feature.md
+
+$ sphinx-build . _build
+
+... lots of output ...
+build succeeded.
+
+The HTML pages are in _build.
+
+$ ls -1 _build
+
+_sources
+_static
+genindex.html
+index.html
+objects.inv
+search.html
+searchindex.js
+some-feature.html
+
+
+

Now open the file _build/index.html in your browser.

+
    +

  • Linux users, type:

    +
    $ xdg-open _build/index.html
+
    +
    +
    • +

  • macOS users, type:

    +
    $ open _build/index.html
+
    +
    +
    • +

  • Windows users, type:

    +
    $ start _build/index.html
+
    +
    +
    • +

  • If the above does not work: +Enter file:///home/user/doc-example/_build/index.html in your browser (adapting the path to your case).

    • +
+

Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere.

+

Note that you can change the styling by editing conf.py and changing the value html_theme +(for instance you can set it to sphinx_rtd_theme (if you have that Python package installed) +to have the Read the Docs look).

+
+
+
+

Exercise: Adding more Sphinx content

+
+

Sphinx-2: Add more content to your example documentation

+
    +

  1. Add a entry below some-feature.md labeled another-feature.md (or a better name) to the index.rst file.

    2. +

  2. Create a file another-feature.md in the same directory as the index.rst file.

    3. +

  3. Add some content to another-feature.md, rebuild with sphinx-build . _build, and refresh the browser to look at the results.

    4. +

  4. Use the MyST Typography page as help.

    5. +
+

Experiment with the following Markdown syntax:

+
    +

  • *Emphasized text* and **bold text**

    • +

  • Headings:

    • +
+
# Level 1
+
+## Level 2
+
+### Level 3
+
+#### Level 4
+
+
+
    +

  • An image: ![alt text](image.png)

    • +

  • [A link](https://www.example.org)

    • +

  • Numbered lists (numbers adjusted automatically):

    • +
+
1. item 1
+2. item 2
+3. item 3
+1. item 4
+1. item 5
+
+
+
    +

  • Simple tables:

    • +
+
| No.  |  Prime |
+| ---- | ------ |
+| 1    |  No    |
+| 2    |  Yes   |
+| 3    |  Yes   |
+| 4    |  No    |
+
+
+
    +

  • Code blocks:

    • +
+
The following is a Python code block:
+```python
+  def hello():
+      print("Hello world")
+```
+
+And this is a C code block:
+```c
+#include <stdio.h>
+int main()
+{
+    printf("Hello, World!");
+    return 0;
+}
+```
+
+
+
    +

  • You could include an external file (here we assume a file called “example.py” +exists; at the same time we highlight lines 2 and 3):

    • +
+
```{literalinclude} example.py
+:language: python
+:emphasize-lines: 2-3
+```
+
+
+
    +

  • We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the +myst-nb extension to be installed.

    • +
+
+
+
+

Exercise: Sphinx and LaTeX

+
+

Sphinx-3: Rendering (LaTeX) math equations

+

Math equations should work out of the box. In some older versions, you might need +to edit conf.py and add sphinx.ext.mathjax:

+
extensions = ['myst_parser', 'sphinx.ext.mathjax']
+
+
+

Try this (result below):

+
This creates an equation:
+```{math}
+a^2 + b^2 = c^2
+```
+
+This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text.
+
+
+

This creates an equation:

+
+\[a^2 + b^2 = c^2\]
+

This is an in-line equation, \(a^2 + b^2 = c^2\), embedded in text.

+
+
+
+

Exercise: Sphinx autodoc

+
+

(optional) Sphinx-4: Auto-generating documentation from Python docstrings

+
    +

  1. Write some docstrings in functions and/or class definitions of an example python module:

    2. +
+
def multiply(a: float, b: float) -> float:
+    """
+    Multiply two numbers.
+
+    :param a: First number.
+    :param b: Second number.
+    :return: The product of a and b.
+    """
+    return a * b
+
+
+
    +

  1. Add a file api.md in the same folder as index.rst, with the following content:

    2. +
+
# API reference
+
+## example
+
+:::{automodule} example
+:members: 
+:::
+
+
+
    +

  1. In the file conf.py add 3 lines and modify “extensions”:

    2. +
+
# this is a trick to make sphinx find the modules in the parent directory
+import os
+import sys
+sys.path.insert(0, os.path.abspath("."))
+
+extensions = ['myst_parser', "sphinx.ext.autodoc"]
+
+
+
    +

  1. List the api.md file in index.rst.

    2. +

  2. Re-build the documentation and check the “API reference” section.

    3. +
+
+
+
+

Confused about reStructuredText vs. Markdown vs. MyST?

+
    +

  • At the beginning there was reStructuredText and Sphinx was built for reStructuredText.

    • +

  • Independently, Markdown was invented and evolved into a couple of flavors.

    • +

  • Markdown became more and more popular but was limited compared to reStructuredText.

    • +

  • Later, MyST +was invented to be able to write +something that looks like Markdown but in addition can do everything that +reStructuredText can do with extra directives.

    • +
+
+
+

Good to know

+
    +

  • The _build directory is a generated directory +and should not be part of the Git repository. We recommend to add _build +to .gitignore to prevent you from accidentally adding files below +_build to the Git repository.

    • +

  • sphinx-autobuild +provides a local web server that will automatically refresh your view +every time you save a file - which makes writing and testing much easier.

    • +

  • This is useful if you want to check the integrity of all internal and external links:

    +
    $ sphinx-build . -W -b linkcheck _build
+
    +
    +
    • +
+
+
+

References

+ +
+

Keypoints

+
    +

  • Sphinx and Markdown is a powerful duo for writing documentation.

    • +

  • Another option is to use reStructuredText, see the Sphinx documentation +and the quick-reference

    • +

  • In the next episode we will learn how to deploy the documentation to a cloud service and update it +upon every git push.

    • +
+
+
+
+
+

Deploying Sphinx documentation to GitHub Pages

+
+

Objectives

+
    +

  • Create a basic workflow which you can take home and adapt for your project.

    • +
+
+
+

GitHub Pages

+
    +

  • Serve websites from a GitHub repository.

    • +

  • It is no problem to serve using your own URL https://myproject.org instead of https://myuser.github.io/myproject.

    • +
+
+
+

GitHub Actions

+
    +

  • Automatically runs code when your repository changes.

    • +

  • We will let it run sphinx-build and make the result available to GitHub Pages.

    • +
+
+
+

Our goal: putting it all together

+
    +

  • Host source code with documentation sources on a public Git repository.

    • +

  • Each time we git push to the repository, a GitHub action triggers to +rebuild the documentation.

    • +

  • The documentation is pushed to a separate branch called ‘gh-pages’.

    • +
+
+
+
+

Exercise - Deploy Sphinx documentation to GitHub Pages

+
+

GH-Pages-1: Deploy Sphinx documentation to GitHub Pages

+

In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages.

+

Step 1: Go to the documentation-example project template +on GitHub and create a copy to your namespace.

+
    +

  • Give it a name, for instance “documentation-example”.

    • +

  • You don’t need to “Include all branches”

    • +

  • Click on “Create a repository”.

    • +
+

Step 2: Browse the new repository.

+
    +

  • It will look very familar to the previous episode.

    • +

  • However, we have moved the documentation part under doc/ (many projects do it this +way). But it is still a Sphinx documentation project.

    • +

  • The source code for your project could then go under src/.

    • +
+

Step 3: Add the GitHub Action to your new Git repository.

+
    +

  • Add a new file at .github/workflows/documentation.yml (either through terminal or web interface), containing:

    • +
+
name: documentation
+
+on: [push, pull_request, workflow_dispatch]
+
+permissions:
+  contents: write
+
+jobs:
+  docs:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+      - name: Install dependencies
+        run: |
+          pip install sphinx sphinx_rtd_theme myst_parser
+      - name: Sphinx build
+        run: |
+          sphinx-build doc _build
+      - name: Deploy to GitHub Pages
+        uses: peaceiris/actions-gh-pages@v3
+        if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }}
+        with:
+          publish_branch: gh-pages
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: _build/
+          force_orphan: true
+
+
+
    +

  • You don’t need to understand all of the above, but you +might spot familiar commands in the run: sections.

    • +

  • After the file has been committed (and pushed), +check the action at https://github.com/USER/documentation-example/actions +(replace USER with your GitHub username).

    • +
+

Step 4: Enable GitHub Pages

+
    +

  • On GitHub go to “Settings” -> “Pages”.

    • +

  • In the “Source” section, choose “Deploy from a branch” in the dropdown menu.

    • +

  • In the “Branch” section choose “gh-pages” and “/root” in the dropdown menus and click +save.

    • +

  • You should now be able to verify the pages deployment in the Actions list).

    • +
+

Step 5: Verify the result

+
    +

  • Your site should now be live on https://USER.github.io/documentation-example/ (replace USER).

    • +
+

Step 6: Verify refreshing the documentation

+
    +

  • Commit some changes to your documentation

    • +

  • Verify that the documentation website refreshes after your changes (can take few seconds or a minute)

    • +
+
+
+
+

Alternatives to GitHub Pages

+
    +

  • GitLab Pages +and GitLab CI can create a very similar workflow.

    • +

  • Read the Docs is the most common alternative to +hosting in GitHub Pages.

    • +

  • Sphinx builds HTML files (this is what static site generators do), and you +can host them anywhere, for example your university’s web space or own web server.

    • +
+
+
+

Migrating your own documentation to Sphinx

+
    +

  • First convert your documentation to Markdown using Pandoc.

    • +

  • Create a file index.rst which lists all other Markdown files and provides the +table of contents.

    • +

  • Add a conf.py file. You can generate a starting point for conf.py and +index.rst with sphinx-quickstart, or you can take the examples in this +lesson as inspiration.

    • +

  • Test building the documentation locally with sphinx-build.

    • +

  • Once this works, follow the above steps to build and deploy to GitHub Pages or some other web space.

    • +
+
+
+

Keypoints

+
    +

  • Sphinx makes simple HTML (and more) files, so it is easy to find a place to host them.

    • +

  • Github Pages + Github Actions provides a convenient way to make +sites and host them on the web.

    • +
+
+
+
+
+

Hosting websites/homepages on GitHub Pages

+
+

Often we don’t need more than a static website

+

You can host your personal homepage or group webpage or project website on +GitHub using GitHub Pages. +GitLab and +Bitbucket +also offer a very similar solution.

+

Unless you need user authentication or a sophisticated database behind your +website, GitHub Pages can be a very nice +alternative to running your own web servers. This is how all +https://coderefinery.org material is hosted.

+
+
+

How to find the website URL

+

Here below, NAMESPACE can either be a username or an organizational account.

+

Personal homepage or organizational homepage

+
    +

  • Generated URL: https://NAMESPACE.github.io

    • +

  • Generated from: https://github.com/NAMESPACE/NAMESPACE.github.io (main branch)

    • +
+

Project website

+
    +

  • Generated URL: https://NAMESPACE.github.io/REPOSITORY

    • +

  • Generated from: https://github.com/NAMESPACE/REPOSITORY (gh-pages branch)

    • +
+
+
+

Exercise - Your own website on GitHub Pages

+
+

GH-Pages-2: Host your own github page

+
    +

  • Deploy own website reusing a template:

    +
      +

    • Follow the steps from GitHub Pages https://pages.github.com/. +The documentation there is very good so there is no need for us to duplicate the screenshots.

      • +

    • Select “Project site”.

      • +

    • Select “Choose a theme”.

      • +

    • Follow the instructions on https://pages.github.com/.

      • +

    • Browse your page on https://USERNAME.github.io/REPOSITORY (adjust “USERNAME” and “REPOSITORY”).

      • +
    +
    • +

  • Make a change to the repository after the webpage has been deployed for the first time.

    • +

  • Please wait few minutes and then verify that the change shows up on the website.

    • +
+
+
+

Real-life examples

+ +
+
+

Note

+
    +

  • You can use HTML directly or another static site generator if you prefer +to not use the default Jekyll.

    • +

  • It is no problem to use a custom domain instead of *.github.io.

    • +
+
+
+
+
+

Summary

+
+

Questions

+
    +

  • What recommendations can we take home?

    • +
+
+
+
+

There is not the one right way: it is always a balance

+

Jupyter notebooks can be good documentation for scripts

+
    +

  • For simple scripts and post-processing, Jupyter notebooks can form a nice +self-documenting pipeline.

    • +

  • They can be a nice way to accompany a paper that analyzed some data.

    • +
+

READMEs or Sphinx?

+
    +

  • For smaller projects READMEs can be absolutely enough.

    • +

  • If the code is closed-source (and hence nobody can see the README), you +probably prefer Sphinx (or similar).

    • +

  • If you need math equations, Sphinx might be a good fit.

    • +
+

How to make sure that code changes come together with documentation changes?

+
    +

  • Make documentation part of your code review.

    • +
+

Read the Docs or GitHub pages or both?

+
    +

  • GitHub pages typically serves one version (one branch). However, it is possible to build +several or all branches as part of a workflow.

    • +

  • Read the Docs can serve several versions (several branches/tags) at the same time.

    • +

  • Some projects use both.

    • +
+

Consider making your development tutorial-driven

+
    +

  • Writing documentation is as important as writing software.

    • +

  • Focus on how you use the software.

    • +

  • If there is no tutorial on it, the feature “doesn’t exist”.

    • +

  • Don’t keep tutorial in sync with code, keep code in sync with tutorial - change the tutorial first.

    • +

  • Read more in this fantastic slide-deck about tutorial-driven development.

    • +
+
+
+
+
+
+

List of exercises

+
+

Full list

+

This is a list of all exercises and solutions in this lesson, mainly +as a reference for helpers and instructors. This list is +automatically generated from all of the other pages in the lesson. +Any single teaching event will probably cover only a subset of these, +depending on their interests.

+
+
+
+

Instructor guide

+
+

Why we teach this lesson

+

Everyone should document their code, even if they’re working alone.

+

These are the main points:

+
    +

  • Code documentation has to be versionnable and branchable

    • +

  • Code documentation should be tracked together with the source code

    • +

  • README is often enough

    • +
+

Please do not skim over the two above points. Please take few minutes to +explain why documentation (sources) should be tracked together with the source +code. Please discuss this aspect with workshop participants and connect it to +reproducibility. This is for me (Radovan) the most important take-home +message.

+

Specific motivations:

+
    +

  • Code documentation becomes quickly unmanageable if not part of the source code.

    • +

  • It helps people to quickly use your code thus reducing the time spent to explain over and again to new users.

    • +

  • It helps people to collaborate.

    • +

  • It improves the design of your code.

    • +
+
+
+

Intended learning outcomes

+

By the end of this lesson, learners should:

+
    +

  • Understand the importance of writing code documentation together with the source code

    • +

  • Know what makes a good documentation

    • +

  • Learn what tools can be used for writing documentation

    • +

  • Be able to motivate a balanced decision: sometimes READMEs are absolutely enough

    • +
+
+
+

Timing

+

As an instructor you should prepare all bullet points but do not go through +each bullet point in detail. Only highlight the main points and rather give +time for a discussion. Leave details for a later lecture for those who want to +find out more. If you go through each bullet point in detail, the motivation +can easily take up 30 minutes and you will run out of time.

+

The lesson does not fit into 1.5 hours if you go through everything. Optimize +for discussions and prepare well to be able to jump over bullet points which +can be left for a later lecture. Some sections can be skipped if needed (see +below). However, we recommend to have a discussion with your learners to make +them aware of what the training material contains.

+
    +

  • Do not insist on practicing Markdown or RST syntax.

    • +

  • The section Rendering (LaTeX) math equations may be optional if your +attendees do not have to deal with equations.

    • +

  • In the GitHub Pages episode, the +goal is not anymore to write code documentation but to show how to build +project website with GitHub. If time is tight, the GitHub pages episode can be +skipped or can be done as demonstration instead of exercise.

    • +
+
+
+

Detailed schedule

+
    +

  • 09:00 - 09:10 Motivation and tools

    +
      +

    • create a wishlist in collaborative notes

      • +
    +
    • +

  • 09:10 - 09:20 Writing good README files

    +
      +

    • brief discussion

      • +
    +
    • +

  • 09:20 - 09:40 Exercises: README-1, README-2, README-3 (choose one or multiple)

    • +

  • 09:40 - 10:00 Sphinx and Markdown: Sphinx-1 as type along

    • +

  • 10:00 - 10:10 Break

    • +

  • 10:10 - 10:40 Exercises, Sphinx-2, Sphinx-3, GH-Pages-1

    • +

  • 10:40 - 11:00 Discussion, GH Pages, Summary

    • +
+
+
+

Place this lesson towards the end of the workshop

+

Reason is that with collaborative Git we can create more interesting +documentation exercises. Currently there are some elements of forking and +pushing and this is only really introduced on day two. We have tried this +lesson on day one and it felt too early and disconnected/abrupt. It works best +after the reproducibility lesson since we then reuse the example and it feels +familiar.

+
+
+

Troubleshooting

+
+

Character encoding issues

+

Can arise when using non-utf8 characters in conf.py. Diagnose this with file -i conf.py +and locale.

+
+
+
+

Live better than reading the website material

+

It is better to demonstrate the commands live and type-along. Ideally connecting +to examples discussed earlier.

+

In online workshops most of the type-along becomes group exercise work where groups +can share screen and discuss.

+
+
+

Field reports

+
+

2022 September

+

We were pressed for time (we started 5-10 minutes late, relative to +the schedule below), so we made most of the first lessons fast. In +the schedule below, note that we had the first 10 minutes for +“Motivation” and “Popular tools”, which we didn’t fully realize so +that put us even further behind. Doing these introduction +parts quickly was hard but was probably worth it since we had plenty +of time in the end. For the “tools”, one person summarized the point +of each section on the page quickly. The README episode was done +quickly, we basically skipped the exercises to get to Sphinx, and this +put us back on schedule.

+

For Sphinx, we did it a lot like you see in the schedule: first +exercise (the basic setup) was type-along, but it was a bit too much +to do in the 10 minutes we had allotted (we typed too fast). But, +people then had a nice long time to make it up and do everything. It +seemed to work well. The GitHub pages deployment could then be done +as a nice, slow demo, and we had plenty of time to ask questions.

+

Overall, I think this was the right track, but we could have practiced +doing the first parts even faster, and warned people that we focus on +the Sphinx exercises.

+
+
+
+
+

Credit and license

+

This material is provided by CodeRefinery under the licenses stated below.

+
+

Website template

+

The website template is maintained by CodeRefinery +and rendered with sphinx-lesson: structured lessons with Sphinx.

+
+
+

Instructional material

+

All CodeRefinery instructional material is made available under the +Creative Commons Attribution license (CC-BY-4.0). +The following is a human-readable summary of (and not a substitute for) +the full legal text of the CC-BY-4.0 license.

+

You are free:

+
    +

  • to Share - copy and redistribute the material in any medium or format

    • +

  • to Adapt - remix, transform, and build upon the material

    • +
+

for any purpose, even commercially. The licensor cannot revoke these freedoms as long as you follow these license terms:

+
    +

  • Attribution - You must give appropriate credit +(mentioning that your work is derived from work that is Copyright +(c) CodeRefinery and, where practical, linking to +https://coderefinery.org, provide +a link to the license, +and indicate if changes were made. You may do so in any +reasonable manner, but not in any way that suggests the licensor +endorses you or your use.

    • +
+

No additional restrictions - You may not apply legal terms or technological +measures that legally restrict others from doing anything the license permits. +With the understanding that:

+
    +

  • You do not have to comply with the license for elements of the material in +the public domain or where your use is permitted by an applicable exception +or limitation.

    • +

  • No warranties are given. The license may not give you all of the +permissions necessary for your intended use. For example, other +rights such as publicity, privacy, or moral rights may limit how +you use the material.

    • +
+
+
+
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/singlehtml/objects.inv b/branch/rantahar-autodoc-to-md/singlehtml/objects.inv new file mode 100644 index 0000000..902c71f Binary files /dev/null and b/branch/rantahar-autodoc-to-md/singlehtml/objects.inv differ diff --git a/branch/rantahar-autodoc-to-md/sphinx/index.html b/branch/rantahar-autodoc-to-md/sphinx/index.html new file mode 100644 index 0000000..191c2f8 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/sphinx/index.html @@ -0,0 +1,590 @@ + + + + + + + Sphinx and Markdown — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Sphinx and Markdown

+
+

Objectives

+
    +

  • Understand how static site generators build websites out of plain +text files.

    • +

  • Create example Sphinx documentation and learn some Markdown along the way.

    • +
+
+

We will take the first steps in creating documentation using Sphinx, and learn some +MyST flavored Markdown syntax along the way.

+
+

This lesson is built with Sphinx

+

Try to compare the source +code +and the result side by side.

+
+

Our goal in this episode is to build HTML pages locally on our computers.

+
+

Before we start, let us verify whether we have the software we need

+

You may need to activate your CodeRefinery conda environment we set up +in the installation instructions. This was covered as part of the +installation instructions, but the most usual command to do this is:

+
$ conda activate coderefinery
+
+
+

Check whether Python is available +(you should see a version; precise version is not so important):

+
$ python --version
+
+Python 3.11.5
+
+
+

Check whether Sphinx is available +(you should see a version; precise version is not so important):

+
$ sphinx-build --version
+
+sphinx-build 5.3.0
+
+
+

Check whether the quickstart tool is available +(you should see a version; precise version is not so important):

+
$ sphinx-quickstart --version
+
+sphinx-quickstart 5.3.0
+
+
+

Check whether MyST parser is available +(you should see no output):

+
$ python -c "import myst_parser"
+
+
+

If the above commands produce an error +(command not found or module not found or ModuleNotFoundError), +please follow our +installation instructions. +But please don’t give up if you don’t have these - the episodes after this one will work even without these +tools.

+
+
+

Exercise: Sphinx quickstart

+
+

Sphinx-1: Generate the basic documentation template

+

Create a directory for the example documentation, step into it, and inside +generate the basic documentation template:

+
$ mkdir doc-example
+$ cd doc-example
+$ sphinx-quickstart
+
+
+

The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release:

+
> Separate source and build directories (y/n) [n]: <hit enter>
+> Project name: <your project name>
+> Author name(s): <your name>
+> Project release []: 0.1
+> Project language [en]: <hit enter>
+
+
+

A couple of files and directories are created:

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

File/directory

Contents

conf.py

Documentation configuration file

index.rst

Main file in Sphinx

_build/

Directory where docs are built (you can decide the name)

_templates/

Your own HTML templates

_static/

Static files (images, styles, etc.) copied to output directory on build

Makefile

Makefile to build documentation using make

make.bat

Makefile to build documentation using make (Windows)

+

Makefile and make.bat (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly.

+

Let’s have a look at the index.rst file, which is the main file of your documentation:

+
.. myproject documentation master file, created by
+   sphinx-quickstart on Sat Sep 23 17:35:26 2023.
+   You can adapt this file completely to your liking, but it should at least
+   contain the root `toctree` directive.
+
+Welcome to myproject's documentation!
+=====================================
+
+.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+
+
+
    +

  • We will not use the Indices and tables section now, so remove it and everything below.

    • +

  • The top four lines, starting with .., are a comment.

    • +

  • The next lines are the table of contents. We can add content below:

    • +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+
+
+

Note that some-feature.md needs to be indented to align with :caption:.

+

We now need to tell Sphinx to use markdown files. To do this, we open +conf.py and replace the line:

+
extensions = []
+
+
+

with this line so that Sphinx can parse Markdown files:

+
extensions = ['myst_parser']
+
+
+

Let’s create the file some-feature.md (in Markdown format) which we have just listed in +index.rst (which uses reStructured Text format).

+
# Some feature
+
+## Subsection
+
+Exciting documentation in here.
+Let's make a list (empty surrounding lines required):
+
+- item 1
+
+  - nested item 1
+  - nested item 2
+
+- item 2
+- item 3
+
+
+

We now build the site:

+
$ ls -1
+
+_static
+_templates
+conf.py
+index.rst
+make.bat
+Makefile
+some-feature.md
+
+$ sphinx-build . _build
+
+... lots of output ...
+build succeeded.
+
+The HTML pages are in _build.
+
+$ ls -1 _build
+
+_sources
+_static
+genindex.html
+index.html
+objects.inv
+search.html
+searchindex.js
+some-feature.html
+
+
+

Now open the file _build/index.html in your browser.

+
    +

  • Linux users, type:

    +
    $ xdg-open _build/index.html
+
    +
    +
    • +

  • macOS users, type:

    +
    $ open _build/index.html
+
    +
    +
    • +

  • Windows users, type:

    +
    $ start _build/index.html
+
    +
    +
    • +

  • If the above does not work: +Enter file:///home/user/doc-example/_build/index.html in your browser (adapting the path to your case).

    • +
+

Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere.

+

Note that you can change the styling by editing conf.py and changing the value html_theme +(for instance you can set it to sphinx_rtd_theme (if you have that Python package installed) +to have the Read the Docs look).

+
+
+
+

Exercise: Adding more Sphinx content

+
+

Sphinx-2: Add more content to your example documentation

+
    +

  1. Add a entry below some-feature.md labeled another-feature.md (or a better name) to the index.rst file.

    2. +

  2. Create a file another-feature.md in the same directory as the index.rst file.

    3. +

  3. Add some content to another-feature.md, rebuild with sphinx-build . _build, and refresh the browser to look at the results.

    4. +

  4. Use the MyST Typography page as help.

    5. +
+

Experiment with the following Markdown syntax:

+
    +

  • *Emphasized text* and **bold text**

    • +

  • Headings:

    • +
+
# Level 1
+
+## Level 2
+
+### Level 3
+
+#### Level 4
+
+
+
    +

  • An image: ![alt text](image.png)

    • +

  • [A link](https://www.example.org)

    • +

  • Numbered lists (numbers adjusted automatically):

    • +
+
1. item 1
+2. item 2
+3. item 3
+1. item 4
+1. item 5
+
+
+
    +

  • Simple tables:

    • +
+
| No.  |  Prime |
+| ---- | ------ |
+| 1    |  No    |
+| 2    |  Yes   |
+| 3    |  Yes   |
+| 4    |  No    |
+
+
+
    +

  • Code blocks:

    • +
+
The following is a Python code block:
+```python
+  def hello():
+      print("Hello world")
+```
+
+And this is a C code block:
+```c
+#include <stdio.h>
+int main()
+{
+    printf("Hello, World!");
+    return 0;
+}
+```
+
+
+
    +

  • You could include an external file (here we assume a file called “example.py” +exists; at the same time we highlight lines 2 and 3):

    • +
+
```{literalinclude} example.py
+:language: python
+:emphasize-lines: 2-3
+```
+
+
+
    +

  • We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the +myst-nb extension to be installed.

    • +
+
+
+
+

Exercise: Sphinx and LaTeX

+
+

Sphinx-3: Rendering (LaTeX) math equations

+

Math equations should work out of the box. In some older versions, you might need +to edit conf.py and add sphinx.ext.mathjax:

+
extensions = ['myst_parser', 'sphinx.ext.mathjax']
+
+
+

Try this (result below):

+
This creates an equation:
+```{math}
+a^2 + b^2 = c^2
+```
+
+This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text.
+
+
+

This creates an equation:

+
+\[a^2 + b^2 = c^2\]
+

This is an in-line equation, \(a^2 + b^2 = c^2\), embedded in text.

+
+
+
+

Exercise: Sphinx autodoc

+
+

(optional) Sphinx-4: Auto-generating documentation from Python docstrings

+
    +

  1. Write some docstrings in functions and/or class definitions of an example python module:

    2. +
+
def multiply(a: float, b: float) -> float:
+    """
+    Multiply two numbers.
+
+    :param a: First number.
+    :param b: Second number.
+    :return: The product of a and b.
+    """
+    return a * b
+
+
+
    +

  1. Add a file api.md in the same folder as index.rst, with the following content:

    2. +
+
# API reference
+
+## example
+
+:::{automodule} example
+:members: 
+:::
+
+
+
    +

  1. In the file conf.py add 3 lines and modify “extensions”:

    2. +
+
# this is a trick to make sphinx find the modules in the parent directory
+import os
+import sys
+sys.path.insert(0, os.path.abspath("."))
+
+extensions = ['myst_parser', "sphinx.ext.autodoc"]
+
+
+
    +

  1. List the api.md file in index.rst.

    2. +

  2. Re-build the documentation and check the “API reference” section.

    3. +
+
+
+
+

Confused about reStructuredText vs. Markdown vs. MyST?

+
    +

  • At the beginning there was reStructuredText and Sphinx was built for reStructuredText.

    • +

  • Independently, Markdown was invented and evolved into a couple of flavors.

    • +

  • Markdown became more and more popular but was limited compared to reStructuredText.

    • +

  • Later, MyST +was invented to be able to write +something that looks like Markdown but in addition can do everything that +reStructuredText can do with extra directives.

    • +
+
+
+

Good to know

+
    +

  • The _build directory is a generated directory +and should not be part of the Git repository. We recommend to add _build +to .gitignore to prevent you from accidentally adding files below +_build to the Git repository.

    • +

  • sphinx-autobuild +provides a local web server that will automatically refresh your view +every time you save a file - which makes writing and testing much easier.

    • +

  • This is useful if you want to check the integrity of all internal and external links:

    +
    $ sphinx-build . -W -b linkcheck _build
+
    +
    +
    • +
+
+
+

References

+ +
+

Keypoints

+
    +

  • Sphinx and Markdown is a powerful duo for writing documentation.

    • +

  • Another option is to use reStructuredText, see the Sphinx documentation +and the quick-reference

    • +

  • In the next episode we will learn how to deploy the documentation to a cloud service and update it +upon every git push.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/summary/index.html b/branch/rantahar-autodoc-to-md/summary/index.html new file mode 100644 index 0000000..b569e91 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/summary/index.html @@ -0,0 +1,192 @@ + + + + + + + Summary — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Summary

+
+

Questions

+
    +

  • What recommendations can we take home?

    • +
+
+
+
+

There is not the one right way: it is always a balance

+

Jupyter notebooks can be good documentation for scripts

+
    +

  • For simple scripts and post-processing, Jupyter notebooks can form a nice +self-documenting pipeline.

    • +

  • They can be a nice way to accompany a paper that analyzed some data.

    • +
+

READMEs or Sphinx?

+
    +

  • For smaller projects READMEs can be absolutely enough.

    • +

  • If the code is closed-source (and hence nobody can see the README), you +probably prefer Sphinx (or similar).

    • +

  • If you need math equations, Sphinx might be a good fit.

    • +
+

How to make sure that code changes come together with documentation changes?

+
    +

  • Make documentation part of your code review.

    • +
+

Read the Docs or GitHub pages or both?

+
    +

  • GitHub pages typically serves one version (one branch). However, it is possible to build +several or all branches as part of a workflow.

    • +

  • Read the Docs can serve several versions (several branches/tags) at the same time.

    • +

  • Some projects use both.

    • +
+

Consider making your development tutorial-driven

+
    +

  • Writing documentation is as important as writing software.

    • +

  • Focus on how you use the software.

    • +

  • If there is no tutorial on it, the feature “doesn’t exist”.

    • +

  • Don’t keep tutorial in sync with code, keep code in sync with tutorial - change the tutorial first.

    • +

  • Read more in this fantastic slide-deck about tutorial-driven development.

    • +
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/tools/index.html b/branch/rantahar-autodoc-to-md/tools/index.html new file mode 100644 index 0000000..721f7a2 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/tools/index.html @@ -0,0 +1,369 @@ + + + + + + + Popular tools and solutions — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ + + + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/wishlist/index.html b/branch/rantahar-autodoc-to-md/wishlist/index.html new file mode 100644 index 0000000..017776a --- /dev/null +++ b/branch/rantahar-autodoc-to-md/wishlist/index.html @@ -0,0 +1,291 @@ + + + + + + + Motivation and wishlist — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Motivation and wishlist

+
+

Motivation

+
+

Motivation-1: Why documenting code?

+

Use the collaborative document:

+
    +

  • Is project documentation important? Why?

    • +

  • How would you describe a useful documentation?

    • +

  • How can you motivate your colleagues to contribute to the documentation?

    • +
+
+ +
+
+

What do we expect from a suitably good documentation?

+
+

Note

+

Documentation comes in different forms - what is documentation?

+
    +

  • Tutorials: learning-oriented, allows the newcomer to get started

    • +

  • How-to guides: goal-oriented, shows how to solve a specific problem

    • +

  • Explanation: understanding-oriented, explains a concept

    • +

  • Reference: information-oriented, describes the machinery

    • +
+

Read more:

+ +
+

There is no one size fits all: often for small projects a README.md or +README.rst can be enough (more about these formats later).

+
+
+

Creating a checklist

+
+

Motivation-2: Create a wishlist

+

Use the collaborative document:

+
    +

  • Let us create a wishlist for how we would like documentation to be.

    • +

  • Below are some of our ideas but please do not look at them yet.

    • +

  • We are sure you will come up with ideas we did not think about.

    • +
+
+ +
+

Documentation checklist

+

Which items to include depends on the number of users apart from yourself.

+
    +

  • Purpose

    • +

  • Authors

    • +

  • License

    • +

  • Recommended citation

    • +

  • Copy-paste-able example to get started

    • +

  • Dependencies and their versions or version ranges

    • +

  • Installation instructions

    • +

  • Tutorials covering key functionality

    • +

  • Reference documentation (e.g. API) covering all functionality

    • +

  • How do you want to be asked questions (mailing list or forum or chat or issue tracker)

    • +

  • Possibly a FAQ section

    • +

  • Contribution guide

    • +
+
+
+

Keypoints

+
    +

  • Documentation is part of the code and should be versionable.

    • +

  • Documentation (sources) should be tracked with the corresponding code in the same repository.

    • +

  • Use standard markup languages such as reStructuredText or Markdown.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/branch/rantahar-autodoc-to-md/writing-readme-files/index.html b/branch/rantahar-autodoc-to-md/writing-readme-files/index.html new file mode 100644 index 0000000..7c62173 --- /dev/null +++ b/branch/rantahar-autodoc-to-md/writing-readme-files/index.html @@ -0,0 +1,259 @@ + + + + + + + Writing good README files — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Writing good README files

+

The README file (often README.md or README.rst) is usually the first thing +users/collaborators see when visiting your GitHub repository.

+

Use it to communicate important information about your project! For many +smaller or mid-size projects, this is enough documentation. It’s not that hard +to make a basic one, and it’s easy to expand as needed.

+
+

Exercise: Have fun testing some README features

+
+

Exercise README-1: Have fun testing some README features you may not have heard about

+
    +

  • Test the effect of adding the following to your GitHub README (read +more):

    +
    > [!NOTE]
+> Highlights information that users should take into account, even when skimming.
+
+> [!IMPORTANT]
+> Crucial information necessary for users to succeed.
+
+> [!WARNING]
+> Critical content demanding immediate user attention due to potential risks.
+
    +
    +
    • +

  • For more detailed descriptions which you don’t want to show by default you +might find this useful (please try it out):

    +
    <details>
+<summary>
+Short summary
+</summary>
+
+Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod
+tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam,
+quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo
+consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse
+cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non
+proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+</details>
+
    +
    +
    • +

  • Would you like to add a badge like this one: please replace with alt text?

    +

    Badge that links to a website (see also https://shields.io/):

    +
    [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)
+
    +
    +

    Badge without link:

    +
    ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)
+
    +
    +
    • +

  • Know about other tips and tricks? Please share them (send a pull request to this lesson).

    • +
+
+
+
+

Exercise: Improve the README for your own project

+
+

Exercise README-2: Draft or improve a README for one of your recent projects

+

Try to draft a brief README or review a README which you have written for one +of your projects.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • Use the checklist which we have discussed earlier.

    • +

  • Think about the user (which can be a future you) of your project, what does this user need to know to use or +contribute to the project? And how do you make your project attractive to use or contribute to?

    • +

  • (Optional): Try the https://hemingwayapp.com/ to analyse your README file and make your writing bold and clear.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Exercise: Discuss the README of a project that you use

+
+

Exercise README-3: Review and discuss a README of a project that you have used

+

In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • When discussing other people’s projects please remember to be respectful and +constructive. The goal of this exercise is not to criticize other projects but +to learn from other projects and to collect the aspects that you enjoyed +finding in a README and to also collect aspects which you have searched for but +which are sometimes missing.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Table of contents in README files

+
    +

  • GitHub automatically generates a table of contents for README.md files.

    • +

  • On GitLab you can generate a TOC in Markdown with:

    +
    [[_TOC_]]
+
    +
    +
    • +

  • With RST you can generate a table of contents (TOC) automatically by adding:

    +
    .. contents:: Table of Contents
+
    +
    +
    • +
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/exercises/index.html b/exercises/index.html new file mode 100644 index 0000000..de3753e --- /dev/null +++ b/exercises/index.html @@ -0,0 +1,762 @@ + + + + + + + List of exercises — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

List of exercises

+
+

Full list

+

This is a list of all exercises and solutions in this lesson, mainly +as a reference for helpers and instructors. This list is +automatically generated from all of the other pages in the lesson. +Any single teaching event will probably cover only a subset of these, +depending on their interests.

+
+

Motivation and wishlist

+

In wishlist.md:

+ +

In wishlist.md:

+ +
+
+

In-code documentation

+

In in-code-documentation.md:

+
+

In-code-1: Comments

+

Let’s take a look at two example comments (comments in Python start with #):

+

Comment A

+
# now we check if temperature is below -50
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Comment B

+
# we regard temperatures below -50 degrees as measurement errors
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Which of these comments is more useful? Can you explain why?

+ +
+
+
+

Writing good README files

+

In writing-readme-files.md:

+
+

Exercise README-1: Have fun testing some README features you may not have heard about

+
    +

  • Test the effect of adding the following to your GitHub README (read +more):

    +
    > [!NOTE]
+> Highlights information that users should take into account, even when skimming.
+
+> [!IMPORTANT]
+> Crucial information necessary for users to succeed.
+
+> [!WARNING]
+> Critical content demanding immediate user attention due to potential risks.
+
    +
    +
    • +

  • For more detailed descriptions which you don’t want to show by default you +might find this useful (please try it out):

    +
    <details>
+<summary>
+Short summary
+</summary>
+
+Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod
+tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam,
+quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo
+consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse
+cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non
+proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+</details>
+
    +
    +
    • +

  • Would you like to add a badge like this one: please replace with alt text?

    +

    Badge that links to a website (see also https://shields.io/):

    +
    [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)
+
    +
    +

    Badge without link:

    +
    ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)
+
    +
    +
    • +

  • Know about other tips and tricks? Please share them (send a pull request to this lesson).

    • +
+
+

In writing-readme-files.md:

+
+

Exercise README-2: Draft or improve a README for one of your recent projects

+

Try to draft a brief README or review a README which you have written for one +of your projects.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • Use the checklist which we have discussed earlier.

    • +

  • Think about the user (which can be a future you) of your project, what does this user need to know to use or +contribute to the project? And how do you make your project attractive to use or contribute to?

    • +

  • (Optional): Try the https://hemingwayapp.com/ to analyse your README file and make your writing bold and clear.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+

In writing-readme-files.md:

+
+

Exercise README-3: Review and discuss a README of a project that you have used

+

In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • When discussing other people’s projects please remember to be respectful and +constructive. The goal of this exercise is not to criticize other projects but +to learn from other projects and to collect the aspects that you enjoyed +finding in a README and to also collect aspects which you have searched for but +which are sometimes missing.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+

Sphinx and Markdown

+

In sphinx.md:

+
+

Sphinx-1: Generate the basic documentation template

+

Create a directory for the example documentation, step into it, and inside +generate the basic documentation template:

+
$ mkdir doc-example
+$ cd doc-example
+$ sphinx-quickstart
+
+
+

The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release:

+
> Separate source and build directories (y/n) [n]: <hit enter>
+> Project name: <your project name>
+> Author name(s): <your name>
+> Project release []: 0.1
+> Project language [en]: <hit enter>
+
+
+

A couple of files and directories are created:

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

File/directory

Contents

conf.py

Documentation configuration file

index.rst

Main file in Sphinx

_build/

Directory where docs are built (you can decide the name)

_templates/

Your own HTML templates

_static/

Static files (images, styles, etc.) copied to output directory on build

Makefile

Makefile to build documentation using make

make.bat

Makefile to build documentation using make (Windows)

+

Makefile and make.bat (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly.

+

Let’s have a look at the index.rst file, which is the main file of your documentation:

+
.. myproject documentation master file, created by
+   sphinx-quickstart on Sat Sep 23 17:35:26 2023.
+   You can adapt this file completely to your liking, but it should at least
+   contain the root `toctree` directive.
+
+Welcome to myproject's documentation!
+=====================================
+
+.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+
+
+
    +

  • We will not use the Indices and tables section now, so remove it and everything below.

    • +

  • The top four lines, starting with .., are a comment.

    • +

  • The next lines are the table of contents. We can add content below:

    • +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+
+
+

Note that some-feature.md needs to be indented to align with :caption:.

+

We now need to tell Sphinx to use markdown files. To do this, we open +conf.py and replace the line:

+
extensions = []
+
+
+

with this line so that Sphinx can parse Markdown files:

+
extensions = ['myst_parser']
+
+
+

Let’s create the file some-feature.md (in Markdown format) which we have just listed in +index.rst (which uses reStructured Text format).

+
# Some feature
+
+## Subsection
+
+Exciting documentation in here.
+Let's make a list (empty surrounding lines required):
+
+- item 1
+
+  - nested item 1
+  - nested item 2
+
+- item 2
+- item 3
+
+
+

We now build the site:

+
$ ls -1
+
+_static
+_templates
+conf.py
+index.rst
+make.bat
+Makefile
+some-feature.md
+
+$ sphinx-build . _build
+
+... lots of output ...
+build succeeded.
+
+The HTML pages are in _build.
+
+$ ls -1 _build
+
+_sources
+_static
+genindex.html
+index.html
+objects.inv
+search.html
+searchindex.js
+some-feature.html
+
+
+

Now open the file _build/index.html in your browser.

+
    +

  • Linux users, type:

    +
    $ xdg-open _build/index.html
+
    +
    +
    • +

  • macOS users, type:

    +
    $ open _build/index.html
+
    +
    +
    • +

  • Windows users, type:

    +
    $ start _build/index.html
+
    +
    +
    • +

  • If the above does not work: +Enter file:///home/user/doc-example/_build/index.html in your browser (adapting the path to your case).

    • +
+

Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere.

+

Note that you can change the styling by editing conf.py and changing the value html_theme +(for instance you can set it to sphinx_rtd_theme (if you have that Python package installed) +to have the Read the Docs look).

+
+

In sphinx.md:

+
+

Sphinx-2: Add more content to your example documentation

+
    +

  1. Add a entry below some-feature.md labeled another-feature.md (or a better name) to the index.rst file.

    2. +

  2. Create a file another-feature.md in the same directory as the index.rst file.

    3. +

  3. Add some content to another-feature.md, rebuild with sphinx-build . _build, and refresh the browser to look at the results.

    4. +

  4. Use the MyST Typography page as help.

    5. +
+

Experiment with the following Markdown syntax:

+
    +

  • *Emphasized text* and **bold text**

    • +

  • Headings:

    • +
+
# Level 1
+
+## Level 2
+
+### Level 3
+
+#### Level 4
+
+
+
    +

  • An image: ![alt text](image.png)

    • +

  • [A link](https://www.example.org)

    • +

  • Numbered lists (numbers adjusted automatically):

    • +
+
1. item 1
+2. item 2
+3. item 3
+1. item 4
+1. item 5
+
+
+
    +

  • Simple tables:

    • +
+
| No.  |  Prime |
+| ---- | ------ |
+| 1    |  No    |
+| 2    |  Yes   |
+| 3    |  Yes   |
+| 4    |  No    |
+
+
+
    +

  • Code blocks:

    • +
+
The following is a Python code block:
+```python
+  def hello():
+      print("Hello world")
+```
+
+And this is a C code block:
+```c
+#include <stdio.h>
+int main()
+{
+    printf("Hello, World!");
+    return 0;
+}
+```
+
+
+
    +

  • You could include an external file (here we assume a file called “example.py” +exists; at the same time we highlight lines 2 and 3):

    • +
+
```{literalinclude} example.py
+:language: python
+:emphasize-lines: 2-3
+```
+
+
+
    +

  • We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the +myst-nb extension to be installed.

    • +
+
+

In sphinx.md:

+
+

Sphinx-3: Rendering (LaTeX) math equations

+

Math equations should work out of the box. In some older versions, you might need +to edit conf.py and add sphinx.ext.mathjax:

+
extensions = ['myst_parser', 'sphinx.ext.mathjax']
+
+
+

Try this (result below):

+
This creates an equation:
+```{math}
+a^2 + b^2 = c^2
+```
+
+This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text.
+
+
+

This creates an equation:

+
+\[a^2 + b^2 = c^2\]
+

This is an in-line equation, \(a^2 + b^2 = c^2\), embedded in text.

+
+

In sphinx.md:

+
+

(optional) Sphinx-4: Auto-generating documentation from Python docstrings

+
    +

  1. Write some docstrings in functions and/or class definitions of an example python module:

    2. +
+
def multiply(a: float, b: float) -> float:
+    """
+    Multiply two numbers.
+
+    :param a: First number.
+    :param b: Second number.
+    :return: The product of a and b.
+    """
+    return a * b
+
+
+
    +

  1. In the file conf.py modify “extensions” and add 3 lines:

    2. +
+
extensions = ['myst_parser', "sphinx.ext.autodoc"]
+
+autodoc2_packages = [
+    "multiply.py"
+]
+
+
+
    +

  1. List apidocs/index in the toctree in index.rst.

    2. +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+   apidocs/index
+
+
+
    +

  1. Re-build the documentation and check the “API reference” section.

    2. +
+
+
+
+

Deploying Sphinx documentation to GitHub Pages

+

In gh_workflow.md:

+
+

GH-Pages-1: Deploy Sphinx documentation to GitHub Pages

+

In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages.

+

Step 1: Go to the documentation-example project template +on GitHub and create a copy to your namespace.

+
    +

  • Give it a name, for instance “documentation-example”.

    • +

  • You don’t need to “Include all branches”

    • +

  • Click on “Create a repository”.

    • +
+

Step 2: Browse the new repository.

+
    +

  • It will look very familar to the previous episode.

    • +

  • However, we have moved the documentation part under doc/ (many projects do it this +way). But it is still a Sphinx documentation project.

    • +

  • The source code for your project could then go under src/.

    • +
+

Step 3: Add the GitHub Action to your new Git repository.

+
    +

  • Add a new file at .github/workflows/documentation.yml (either through terminal or web interface), containing:

    • +
+
name: documentation
+
+on: [push, pull_request, workflow_dispatch]
+
+permissions:
+  contents: write
+
+jobs:
+  docs:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+      - name: Install dependencies
+        run: |
+          pip install sphinx sphinx_rtd_theme myst_parser
+      - name: Sphinx build
+        run: |
+          sphinx-build doc _build
+      - name: Deploy to GitHub Pages
+        uses: peaceiris/actions-gh-pages@v3
+        if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }}
+        with:
+          publish_branch: gh-pages
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: _build/
+          force_orphan: true
+
+
+
    +

  • You don’t need to understand all of the above, but you +might spot familiar commands in the run: sections.

    • +

  • After the file has been committed (and pushed), +check the action at https://github.com/USER/documentation-example/actions +(replace USER with your GitHub username).

    • +
+

Step 4: Enable GitHub Pages

+
    +

  • On GitHub go to “Settings” -> “Pages”.

    • +

  • In the “Source” section, choose “Deploy from a branch” in the dropdown menu.

    • +

  • In the “Branch” section choose “gh-pages” and “/root” in the dropdown menus and click +save.

    • +

  • You should now be able to verify the pages deployment in the Actions list).

    • +
+

Step 5: Verify the result

+
    +

  • Your site should now be live on https://USER.github.io/documentation-example/ (replace USER).

    • +
+

Step 6: Verify refreshing the documentation

+
    +

  • Commit some changes to your documentation

    • +

  • Verify that the documentation website refreshes after your changes (can take few seconds or a minute)

    • +
+
+
+
+

Hosting websites/homepages on GitHub Pages

+

In gh-pages.md:

+
+

GH-Pages-2: Host your own github page

+
    +

  • Deploy own website reusing a template:

    +
      +

    • Follow the steps from GitHub Pages https://pages.github.com/. +The documentation there is very good so there is no need for us to duplicate the screenshots.

      • +

    • Select “Project site”.

      • +

    • Select “Choose a theme”.

      • +

    • Follow the instructions on https://pages.github.com/.

      • +

    • Browse your page on https://USERNAME.github.io/REPOSITORY (adjust “USERNAME” and “REPOSITORY”).

      • +
    +
    • +

  • Make a change to the repository after the webpage has been deployed for the first time.

    • +

  • Please wait few minutes and then verify that the change shows up on the website.

    • +
+
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/genindex/index.html b/genindex/index.html new file mode 100644 index 0000000..8d3a30f --- /dev/null +++ b/genindex/index.html @@ -0,0 +1,146 @@ + + + + + + Index — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ + +

Index

+ +
+ +
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/gh-pages/index.html b/gh-pages/index.html new file mode 100644 index 0000000..ec59a99 --- /dev/null +++ b/gh-pages/index.html @@ -0,0 +1,226 @@ + + + + + + + Hosting websites/homepages on GitHub Pages — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Hosting websites/homepages on GitHub Pages

+
+

Often we don’t need more than a static website

+

You can host your personal homepage or group webpage or project website on +GitHub using GitHub Pages. +GitLab and +Bitbucket +also offer a very similar solution.

+

Unless you need user authentication or a sophisticated database behind your +website, GitHub Pages can be a very nice +alternative to running your own web servers. This is how all +https://coderefinery.org material is hosted.

+
+
+

How to find the website URL

+

Here below, NAMESPACE can either be a username or an organizational account.

+

Personal homepage or organizational homepage

+
    +

  • Generated URL: https://NAMESPACE.github.io

    • +

  • Generated from: https://github.com/NAMESPACE/NAMESPACE.github.io (main branch)

    • +
+

Project website

+
    +

  • Generated URL: https://NAMESPACE.github.io/REPOSITORY

    • +

  • Generated from: https://github.com/NAMESPACE/REPOSITORY (gh-pages branch)

    • +
+
+
+

Exercise - Your own website on GitHub Pages

+
+

GH-Pages-2: Host your own github page

+
    +

  • Deploy own website reusing a template:

    +
      +

    • Follow the steps from GitHub Pages https://pages.github.com/. +The documentation there is very good so there is no need for us to duplicate the screenshots.

      • +

    • Select “Project site”.

      • +

    • Select “Choose a theme”.

      • +

    • Follow the instructions on https://pages.github.com/.

      • +

    • Browse your page on https://USERNAME.github.io/REPOSITORY (adjust “USERNAME” and “REPOSITORY”).

      • +
    +
    • +

  • Make a change to the repository after the webpage has been deployed for the first time.

    • +

  • Please wait few minutes and then verify that the change shows up on the website.

    • +
+
+
+

Real-life examples

+ +
+
+

Note

+
    +

  • You can use HTML directly or another static site generator if you prefer +to not use the default Jekyll.

    • +

  • It is no problem to use a custom domain instead of *.github.io.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/gh_workflow/index.html b/gh_workflow/index.html new file mode 100644 index 0000000..bd23427 --- /dev/null +++ b/gh_workflow/index.html @@ -0,0 +1,298 @@ + + + + + + + Deploying Sphinx documentation to GitHub Pages — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+
    +
    • +
  • Deploying Sphinx documentation to GitHub Pages
    • +
  • + Edit on GitHub +
    • +
+
+
+
+
+ +
+

Deploying Sphinx documentation to GitHub Pages

+
+

Objectives

+
    +

  • Create a basic workflow which you can take home and adapt for your project.

    • +
+
+
+

GitHub Pages

+
    +

  • Serve websites from a GitHub repository.

    • +

  • It is no problem to serve using your own URL https://myproject.org instead of https://myuser.github.io/myproject.

    • +
+
+
+

GitHub Actions

+
    +

  • Automatically runs code when your repository changes.

    • +

  • We will let it run sphinx-build and make the result available to GitHub Pages.

    • +
+
+
+

Our goal: putting it all together

+
    +

  • Host source code with documentation sources on a public Git repository.

    • +

  • Each time we git push to the repository, a GitHub action triggers to +rebuild the documentation.

    • +

  • The documentation is pushed to a separate branch called ‘gh-pages’.

    • +
+
+
+
+

Exercise - Deploy Sphinx documentation to GitHub Pages

+
+

GH-Pages-1: Deploy Sphinx documentation to GitHub Pages

+

In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages.

+

Step 1: Go to the documentation-example project template +on GitHub and create a copy to your namespace.

+
    +

  • Give it a name, for instance “documentation-example”.

    • +

  • You don’t need to “Include all branches”

    • +

  • Click on “Create a repository”.

    • +
+

Step 2: Browse the new repository.

+
    +

  • It will look very familar to the previous episode.

    • +

  • However, we have moved the documentation part under doc/ (many projects do it this +way). But it is still a Sphinx documentation project.

    • +

  • The source code for your project could then go under src/.

    • +
+

Step 3: Add the GitHub Action to your new Git repository.

+
    +

  • Add a new file at .github/workflows/documentation.yml (either through terminal or web interface), containing:

    • +
+
name: documentation
+
+on: [push, pull_request, workflow_dispatch]
+
+permissions:
+  contents: write
+
+jobs:
+  docs:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+      - name: Install dependencies
+        run: |
+          pip install sphinx sphinx_rtd_theme myst_parser
+      - name: Sphinx build
+        run: |
+          sphinx-build doc _build
+      - name: Deploy to GitHub Pages
+        uses: peaceiris/actions-gh-pages@v3
+        if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }}
+        with:
+          publish_branch: gh-pages
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: _build/
+          force_orphan: true
+
+
+
    +

  • You don’t need to understand all of the above, but you +might spot familiar commands in the run: sections.

    • +

  • After the file has been committed (and pushed), +check the action at https://github.com/USER/documentation-example/actions +(replace USER with your GitHub username).

    • +
+

Step 4: Enable GitHub Pages

+
    +

  • On GitHub go to “Settings” -> “Pages”.

    • +

  • In the “Source” section, choose “Deploy from a branch” in the dropdown menu.

    • +

  • In the “Branch” section choose “gh-pages” and “/root” in the dropdown menus and click +save.

    • +

  • You should now be able to verify the pages deployment in the Actions list).

    • +
+

Step 5: Verify the result

+
    +

  • Your site should now be live on https://USER.github.io/documentation-example/ (replace USER).

    • +
+

Step 6: Verify refreshing the documentation

+
    +

  • Commit some changes to your documentation

    • +

  • Verify that the documentation website refreshes after your changes (can take few seconds or a minute)

    • +
+
+
+
+

Alternatives to GitHub Pages

+
    +

  • GitLab Pages +and GitLab CI can create a very similar workflow.

    • +

  • Read the Docs is the most common alternative to +hosting in GitHub Pages.

    • +

  • Sphinx builds HTML files (this is what static site generators do), and you +can host them anywhere, for example your university’s web space or own web server.

    • +
+
+
+

Migrating your own documentation to Sphinx

+
    +

  • First convert your documentation to Markdown using Pandoc.

    • +

  • Create a file index.rst which lists all other Markdown files and provides the +table of contents.

    • +

  • Add a conf.py file. You can generate a starting point for conf.py and +index.rst with sphinx-quickstart, or you can take the examples in this +lesson as inspiration.

    • +

  • Test building the documentation locally with sphinx-build.

    • +

  • Once this works, follow the above steps to build and deploy to GitHub Pages or some other web space.

    • +
+
+
+

Keypoints

+
    +

  • Sphinx makes simple HTML (and more) files, so it is easy to find a place to host them.

    • +

  • Github Pages + Github Actions provides a convenient way to make +sites and host them on the web.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/guide/index.html b/guide/index.html new file mode 100644 index 0000000..75607ba --- /dev/null +++ b/guide/index.html @@ -0,0 +1,287 @@ + + + + + + + Instructor guide — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Instructor guide

+
+

Why we teach this lesson

+

Everyone should document their code, even if they’re working alone.

+

These are the main points:

+
    +

  • Code documentation has to be versionnable and branchable

    • +

  • Code documentation should be tracked together with the source code

    • +

  • README is often enough

    • +
+

Please do not skim over the two above points. Please take few minutes to +explain why documentation (sources) should be tracked together with the source +code. Please discuss this aspect with workshop participants and connect it to +reproducibility. This is for me (Radovan) the most important take-home +message.

+

Specific motivations:

+
    +

  • Code documentation becomes quickly unmanageable if not part of the source code.

    • +

  • It helps people to quickly use your code thus reducing the time spent to explain over and again to new users.

    • +

  • It helps people to collaborate.

    • +

  • It improves the design of your code.

    • +
+
+
+

Intended learning outcomes

+

By the end of this lesson, learners should:

+
    +

  • Understand the importance of writing code documentation together with the source code

    • +

  • Know what makes a good documentation

    • +

  • Learn what tools can be used for writing documentation

    • +

  • Be able to motivate a balanced decision: sometimes READMEs are absolutely enough

    • +
+
+
+

Timing

+

As an instructor you should prepare all bullet points but do not go through +each bullet point in detail. Only highlight the main points and rather give +time for a discussion. Leave details for a later lecture for those who want to +find out more. If you go through each bullet point in detail, the motivation +can easily take up 30 minutes and you will run out of time.

+

The lesson does not fit into 1.5 hours if you go through everything. Optimize +for discussions and prepare well to be able to jump over bullet points which +can be left for a later lecture. Some sections can be skipped if needed (see +below). However, we recommend to have a discussion with your learners to make +them aware of what the training material contains.

+
    +

  • Do not insist on practicing Markdown or RST syntax.

    • +

  • The section Rendering (LaTeX) math equations may be optional if your +attendees do not have to deal with equations.

    • +

  • In the GitHub Pages episode, the +goal is not anymore to write code documentation but to show how to build +project website with GitHub. If time is tight, the GitHub pages episode can be +skipped or can be done as demonstration instead of exercise.

    • +
+
+
+

Detailed schedule

+
    +

  • 09:00 - 09:10 Motivation and tools

    +
      +

    • create a wishlist in collaborative notes

      • +
    +
    • +

  • 09:10 - 09:20 Writing good README files

    +
      +

    • brief discussion

      • +
    +
    • +

  • 09:20 - 09:40 Exercises: README-1, README-2, README-3 (choose one or multiple)

    • +

  • 09:40 - 10:00 Sphinx and Markdown: Sphinx-1 as type along

    • +

  • 10:00 - 10:10 Break

    • +

  • 10:10 - 10:40 Exercises, Sphinx-2, Sphinx-3, GH-Pages-1

    • +

  • 10:40 - 11:00 Discussion, GH Pages, Summary

    • +
+
+
+

Place this lesson towards the end of the workshop

+

Reason is that with collaborative Git we can create more interesting +documentation exercises. Currently there are some elements of forking and +pushing and this is only really introduced on day two. We have tried this +lesson on day one and it felt too early and disconnected/abrupt. It works best +after the reproducibility lesson since we then reuse the example and it feels +familiar.

+
+
+

Troubleshooting

+
+

Character encoding issues

+

Can arise when using non-utf8 characters in conf.py. Diagnose this with file -i conf.py +and locale.

+
+
+
+

Live better than reading the website material

+

It is better to demonstrate the commands live and type-along. Ideally connecting +to examples discussed earlier.

+

In online workshops most of the type-along becomes group exercise work where groups +can share screen and discuss.

+
+
+

Field reports

+
+

2022 September

+

We were pressed for time (we started 5-10 minutes late, relative to +the schedule below), so we made most of the first lessons fast. In +the schedule below, note that we had the first 10 minutes for +“Motivation” and “Popular tools”, which we didn’t fully realize so +that put us even further behind. Doing these introduction +parts quickly was hard but was probably worth it since we had plenty +of time in the end. For the “tools”, one person summarized the point +of each section on the page quickly. The README episode was done +quickly, we basically skipped the exercises to get to Sphinx, and this +put us back on schedule.

+

For Sphinx, we did it a lot like you see in the schedule: first +exercise (the basic setup) was type-along, but it was a bit too much +to do in the 10 minutes we had allotted (we typed too fast). But, +people then had a nice long time to make it up and do everything. It +seemed to work well. The GitHub pages deployment could then be done +as a nice, slow demo, and we had plenty of time to ask questions.

+

Overall, I think this was the right track, but we could have practiced +doing the first parts even faster, and warned people that we focus on +the Sphinx exercises.

+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/in-code-documentation/index.html b/in-code-documentation/index.html new file mode 100644 index 0000000..860daf6 --- /dev/null +++ b/in-code-documentation/index.html @@ -0,0 +1,386 @@ + + + + + + + In-code documentation — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

In-code documentation

+
+

Questions

+
    +

  • What can I do to make my code more easily understandable?

    • +

  • What information should go into comments?

    • +

  • What are docstrings and what information should go into docstrings?

    • +
+
+

In this episode we will learn how to write good documentation inside your code.

+
+

Exercise - Writing good comments

+
+

In-code-1: Comments

+

Let’s take a look at two example comments (comments in Python start with #):

+

Comment A

+
# now we check if temperature is below -50
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Comment B

+
# we regard temperatures below -50 degrees as measurement errors
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Which of these comments is more useful? Can you explain why?

+ +
+
+
+

Sometimes version control is better than a comment

+
+

Examples for code comments where Git is a better solution

+

Keeping zombie code “just in case” (rather use version control):

+
# do not run this code!
+# if temperature > 0:
+#     print("It is warm")
+
+
+

Instead: Remove the code, you can always find it back in a previous version of your code in Git.

+

Emulating version control:

+
# John Doe: threshold changed from 0 to 15 on August 5, 2013
+if temperature > 15:
+    print("It is warm")
+
+
+

Instead: You can get this information from git log or git show or git   annotate or similar.

+
+
+
+

What are “docstrings” and how can they be useful?

+

Here is function fahrenheit_to_celsius which converts temperature in +Fahrenheit to Celsius, implemented in a couple of different languages. +Your language is missing? Please contribute an example.

+

The first set of examples uses regular comments:

+
+
# This function converts a temperature in Fahrenheit to Celsius.
+def fahrenheit_to_celsius(temp_f: float) -> float:
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+
+

The second set uses docstrings or similar concepts. Please compare the two +(above and below):

+
+
def fahrenheit_to_celsius(temp_f: float) -> float:
+    """
+    Converts a temperature in Fahrenheit to Celsius.
+
+    Parameters
+    ----------
+    temp_f : float
+        The temperature in Fahrenheit.
+
+    Returns
+    -------
+    float
+        The temperature in Celsius.
+    """
+
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+

Read more: https://peps.python.org/pep-0257/

+
+

Docstrings can do a bit more than just comments:

+
    +

  • Tools can generate help text automatically from the docstrings.

    • +

  • Tools can generate documentation pages automatically from code.

    • +
+

It is common to write docstrings for functions, classes, and modules.

+

Good docstrings describe:

+
    +

  • What the function does

    • +

  • What goes in (including the type of the input variables)

    • +

  • What goes out (including the return type)

    • +
+

Naming is documentation: +Giving explicit, descriptive names to your code segments (functions, classes, +variables) already provides very useful and important documentation. In +practice you will find that for simple functions it is unnecessary to add a +docstring when the function name and variable names already give enough +information.

+
+
+

Keypoints

+
    +

  • Comments should describe the why for your code not the what.

    • +

  • Writing docstrings can be a good way to write documentation while you type +code since it also makes it possible +to query that information from outside the code or to auto-generate +documentation pages.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/index.html b/index.html new file mode 100644 index 0000000..0f8055e --- /dev/null +++ b/index.html @@ -0,0 +1,229 @@ + + + + + + + How to document your research software — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

How to document your research software

+

In this lesson we will discuss different solutions for implementing and +deploying code documentation.

+

We will start with a discussion about what makes a good README. For many +projects, a README is more than enough.

+

We will then learn how to build documentation with the +documentation generator Sphinx (and compare it +with others) and how to +deploy it to Read the Docs, a service which hosts +open documentation for free.

+

This demonstration will be independent of programming languages.

+

We will also learn how +to deploy a project website or personal homepage to GitHub Pages. +The approach that we will learn will be transferable to +GitLab Pages and +Bitbucket Pages.

+
+

Prerequisites

+
    +

  1. Basic understanding of Git.

    2. +

  2. For the Sphinx part, You need to have +sphinx and sphinx_rtd_theme installed +(they are part of the coderefinery environment).

    3. +

  3. For the GitHub Pages part you need a GitHub account.

    4. +
+
+ + + + + + + + + + + + + + + + + + + + + + + + + + + +

10 min

Motivation and wishlist

10 min

Popular tools and solutions

20 min

In-code documentation

30 min

Writing good README files

30 min

Sphinx and Markdown

20 min

Deploying Sphinx documentation to GitHub Pages

20 min

Hosting websites/homepages on GitHub Pages

5 min

Summary

+
+

The lesson

+ +
+
+

Reference

+ +
+
+

About

+ +
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/lesson.pdf b/lesson.pdf new file mode 100644 index 0000000..126b518 Binary files /dev/null and b/lesson.pdf differ diff --git a/license/index.html b/license/index.html new file mode 100644 index 0000000..47fd6ec --- /dev/null +++ b/license/index.html @@ -0,0 +1,191 @@ + + + + + + + Credit and license — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Credit and license

+

This material is provided by CodeRefinery under the licenses stated below.

+
+

Website template

+

The website template is maintained by CodeRefinery +and rendered with sphinx-lesson: structured lessons with Sphinx.

+
+
+

Instructional material

+

All CodeRefinery instructional material is made available under the +Creative Commons Attribution license (CC-BY-4.0). +The following is a human-readable summary of (and not a substitute for) +the full legal text of the CC-BY-4.0 license.

+

You are free:

+
    +

  • to Share - copy and redistribute the material in any medium or format

    • +

  • to Adapt - remix, transform, and build upon the material

    • +
+

for any purpose, even commercially. The licensor cannot revoke these freedoms as long as you follow these license terms:

+
    +

  • Attribution - You must give appropriate credit +(mentioning that your work is derived from work that is Copyright +(c) CodeRefinery and, where practical, linking to +https://coderefinery.org, provide +a link to the license, +and indicate if changes were made. You may do so in any +reasonable manner, but not in any way that suggests the licensor +endorses you or your use.

    • +
+

No additional restrictions - You may not apply legal terms or technological +measures that legally restrict others from doing anything the license permits. +With the understanding that:

+
    +

  • You do not have to comply with the license for elements of the material in +the public domain or where your use is permitted by an applicable exception +or limitation.

    • +

  • No warranties are given. The license may not give you all of the +permissions necessary for your intended use. For example, other +rights such as publicity, privacy, or moral rights may limit how +you use the material.

    • +
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/objects.inv b/objects.inv new file mode 100644 index 0000000..7744a48 Binary files /dev/null and b/objects.inv differ diff --git a/search/index.html b/search/index.html new file mode 100644 index 0000000..b5a2b36 --- /dev/null +++ b/search/index.html @@ -0,0 +1,160 @@ + + + + + + Search — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+
    +
    • +
  • Search
    • +
  • +
    • +
+
+
+
+
+ + + + +
+ +
+ +
+
+ +
+
+
+
+ + + + + + + + + \ No newline at end of file diff --git a/searchindex.js b/searchindex.js new file mode 100644 index 0000000..4726e5b --- /dev/null +++ b/searchindex.js @@ -0,0 +1 @@ +Search.setIndex({"alltitles": {"(optional) Sphinx-4: Auto-generating documentation from Python docstrings": [[0, "exercise-3"], [7, "exercise-3"]], "2022 September": [[3, "september"]], "About": [[5, null]], "Alternatives to GitHub Pages": [[2, "alternatives-to-github-pages"]], "Before we start, let us verify whether we have the software we need": [[7, "prerequisites-0"]], "Character encoding issues": [[3, "character-encoding-issues"]], "Confused about reStructuredText vs. Markdown vs. MyST?": [[7, "confused-about-restructuredtext-vs-markdown-vs-myst"]], "Creating a checklist": [[10, "creating-a-checklist"]], "Credit and license": [[6, null]], "Deploying Sphinx documentation to GitHub Pages": [[0, "deploying-sphinx-documentation-to-github-pages"], [2, null]], "Detailed schedule": [[3, "detailed-schedule"]], "Documentation checklist": [[10, null]], "Doxygen": [[9, "doxygen"]], "Examples for code comments where Git is a better solution": [[4, null]], "Exercise - Deploy Sphinx documentation to GitHub Pages": [[2, "exercise-deploy-sphinx-documentation-to-github-pages"]], "Exercise - Writing good comments": [[4, "exercise-writing-good-comments"]], "Exercise - Your own website on GitHub Pages": [[1, "exercise-your-own-website-on-github-pages"]], "Exercise README-1: Have fun testing some README features you may not have heard about": [[0, "exercise-0"], [11, "exercise-0"]], "Exercise README-2: Draft or improve a README for one of your recent projects": [[0, "exercise-1"], [11, "exercise-1"]], "Exercise README-3: Review and discuss a README of a project that you have used": [[0, "exercise-2"], [11, "exercise-2"]], "Exercise: Adding more Sphinx content": [[7, "exercise-adding-more-sphinx-content"]], "Exercise: Discuss the README of a project that you use": [[11, "exercise-discuss-the-readme-of-a-project-that-you-use"]], "Exercise: Have fun testing some README features": [[11, "exercise-have-fun-testing-some-readme-features"]], "Exercise: Improve the README for your own project": [[11, "exercise-improve-the-readme-for-your-own-project"]], "Exercise: Sphinx and LaTeX": [[7, "exercise-sphinx-and-latex"]], "Exercise: Sphinx autodoc": [[7, "exercise-sphinx-autodoc"]], "Exercise: Sphinx quickstart": [[7, "exercise-sphinx-quickstart"]], "Field reports": [[3, "field-reports"]], "Full list": [[0, "full-list"]], "GH-Pages-1: Deploy Sphinx documentation to GitHub Pages": [[0, "exercise-0"], [2, "exercise-0"]], "GH-Pages-2: Host your own github page": [[0, "exercise-0"], [1, "exercise-0"]], "GitHub Actions": [[2, "github-actions"]], "GitHub Pages": [[2, "github-pages"]], "Good to know": [[7, "good-to-know"]], "HTML static site generators": [[9, "html-static-site-generators"]], "Hosting websites/homepages on GitHub Pages": [[0, "hosting-websiteshomepages-on-github-pages"], [1, null]], "How to document your research software": [[5, null]], "How to find the website URL": [[1, "how-to-find-the-website-url"]], "In-code documentation": [[0, "in-code-documentation"], [4, null], [9, "in-code-documentation"]], "In-code-1: Comments": [[0, "exercise-0"], [4, "exercise-0"]], "Instructional material": [[6, "instructional-material"]], "Instructor guide": [[3, null]], "Intended learning outcomes": [[3, "intended-learning-outcomes"]], "Keypoints": [[2, "keypoints-0"], [4, "keypoints-0"], [7, "keypoints-0"], [9, "keypoints-0"], [10, "keypoints-0"]], "LaTeX/PDF": [[9, "latex-pdf"]], "List of exercises": [[0, null]], "Live better than reading the website material": [[3, "live-better-than-reading-the-website-material"]], "Markup": [[0, "instructor-note-0"], [10, "instructor-note-0"]], "Migrating your own documentation to Sphinx": [[2, "migrating-your-own-documentation-to-sphinx"]], "Motivation": [[10, "motivation"]], "Motivation and wishlist": [[0, "motivation-and-wishlist"], [10, null]], "Motivation-1: Why documenting code?": [[10, "discussion-0"]], "Motivation-2: Create a wishlist": [[10, "discussion-1"]], "Objectives": [[2, "objectives-0"], [7, "objectives-0"], [9, "objectives-0"]], "Often we don\u2019t need more than a static website": [[1, "often-we-don-t-need-more-than-a-static-website"]], "Other tools": [[9, "other-tools"]], "Our goal: putting it all together": [[2, "our-goal-putting-it-all-together"]], "Our motivation (but let us brainstorm first)": [[0, "solution-0"], [10, "solution-0"]], "Our wishlist (but let us brainstorm first)": [[0, "solution-1"], [10, "solution-1"]], "Place this lesson towards the end of the workshop": [[3, "place-this-lesson-towards-the-end-of-the-workshop"]], "Popular tools and solutions": [[9, null]], "Prerequisites": [[5, "prerequisites-0"]], "Questions": [[4, "questions-0"], [8, "questions-0"], [9, "questions-0"]], "README files": [[9, "readme-files"]], 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+ margin: 1em 0 1em 0; + padding: 0.4em; +} + +/* -- domain module index --------------------------------------------------- */ + +table.modindextable td { + padding: 2px; + border-collapse: collapse; +} + +/* -- general body styles --------------------------------------------------- */ + +div.body { + min-width: 360px; + max-width: 800px; +} + +div.body p, div.body dd, div.body li, div.body blockquote { + -moz-hyphens: auto; + -ms-hyphens: auto; + -webkit-hyphens: auto; + hyphens: auto; +} + +a.headerlink { + visibility: hidden; +} + +a:visited { + color: #551A8B; +} + +h1:hover > a.headerlink, +h2:hover > a.headerlink, +h3:hover > a.headerlink, +h4:hover > a.headerlink, +h5:hover > a.headerlink, +h6:hover > a.headerlink, +dt:hover > a.headerlink, +caption:hover > a.headerlink, +p.caption:hover > a.headerlink, +div.code-block-caption:hover > a.headerlink { + visibility: visible; +} + +div.body p.caption { + text-align: inherit; +} + +div.body td { + text-align: left; +} + +.first { + margin-top: 0 !important; +} + +p.rubric { + margin-top: 30px; + font-weight: bold; +} + +img.align-left, figure.align-left, .figure.align-left, object.align-left { + clear: left; + float: left; + margin-right: 1em; +} + +img.align-right, figure.align-right, .figure.align-right, object.align-right { + clear: right; + float: right; + margin-left: 1em; +} + +img.align-center, figure.align-center, .figure.align-center, object.align-center { + display: block; + margin-left: auto; + margin-right: auto; +} + +img.align-default, figure.align-default, .figure.align-default { + display: block; + margin-left: auto; + margin-right: auto; +} + +.align-left { + text-align: left; +} + +.align-center { + text-align: center; +} + +.align-default { + text-align: center; +} + +.align-right { + text-align: right; +} + +/* -- sidebars -------------------------------------------------------------- */ + +div.sidebar, +aside.sidebar { + margin: 0 0 0.5em 1em; + border: 1px solid #ddb; + padding: 7px; + background-color: #ffe; + width: 40%; + float: right; + clear: right; + overflow-x: auto; +} + +p.sidebar-title { + font-weight: bold; +} + +nav.contents, +aside.topic, +div.admonition, div.topic, blockquote { + clear: left; +} + +/* -- topics ---------------------------------------------------------------- */ + +nav.contents, +aside.topic, +div.topic { + border: 1px solid #ccc; + padding: 7px; + margin: 10px 0 10px 0; +} + +p.topic-title { + font-size: 1.1em; + font-weight: bold; + margin-top: 10px; +} + +/* -- admonitions ----------------------------------------------------------- */ + +div.admonition { + margin-top: 10px; + margin-bottom: 10px; + padding: 7px; +} + +div.admonition dt { + font-weight: bold; +} + +p.admonition-title { + margin: 0px 10px 5px 0px; + font-weight: bold; +} + +div.body p.centered { + text-align: center; + margin-top: 25px; +} + +/* -- content of sidebars/topics/admonitions -------------------------------- */ + +div.sidebar > :last-child, +aside.sidebar > :last-child, +nav.contents > :last-child, +aside.topic > :last-child, +div.topic > :last-child, +div.admonition > :last-child { + margin-bottom: 0; +} + +div.sidebar::after, +aside.sidebar::after, +nav.contents::after, +aside.topic::after, +div.topic::after, +div.admonition::after, +blockquote::after { + display: block; + content: ''; + clear: both; +} + +/* -- tables ---------------------------------------------------------------- */ + +table.docutils { + margin-top: 10px; + margin-bottom: 10px; + border: 0; + border-collapse: collapse; +} + +table.align-center { + margin-left: auto; + margin-right: auto; +} + +table.align-default { + margin-left: auto; + margin-right: auto; +} + +table caption span.caption-number { + font-style: italic; +} + +table caption span.caption-text { +} + +table.docutils td, table.docutils th { + padding: 1px 8px 1px 5px; + border-top: 0; + border-left: 0; + border-right: 0; + border-bottom: 1px solid #aaa; +} + +th { + text-align: left; + padding-right: 5px; +} + +table.citation { + border-left: solid 1px gray; + margin-left: 1px; +} + +table.citation td { + border-bottom: none; +} + +th > :first-child, +td > :first-child { + margin-top: 0px; +} + +th > :last-child, +td > :last-child { + margin-bottom: 0px; +} + +/* -- figures --------------------------------------------------------------- */ + +div.figure, figure { + margin: 0.5em; + padding: 0.5em; +} + +div.figure p.caption, figcaption { + padding: 0.3em; +} + +div.figure p.caption span.caption-number, +figcaption span.caption-number { + font-style: italic; +} + +div.figure p.caption span.caption-text, +figcaption span.caption-text { +} + +/* -- field list styles ----------------------------------------------------- */ + +table.field-list td, table.field-list th { + border: 0 !important; +} + +.field-list ul { + margin: 0; + padding-left: 1em; +} + +.field-list p { + margin: 0; +} + +.field-name { + -moz-hyphens: manual; + -ms-hyphens: manual; + -webkit-hyphens: manual; + hyphens: manual; +} + +/* -- hlist styles ---------------------------------------------------------- */ + +table.hlist { + margin: 1em 0; +} + +table.hlist td { + vertical-align: top; +} + +/* -- object description styles --------------------------------------------- */ + +.sig { + font-family: 'Consolas', 'Menlo', 'DejaVu Sans Mono', 'Bitstream Vera Sans Mono', monospace; +} + +.sig-name, code.descname { + background-color: transparent; + font-weight: bold; +} + +.sig-name { + font-size: 1.1em; +} + +code.descname { + font-size: 1.2em; +} + +.sig-prename, code.descclassname { + background-color: transparent; +} + +.optional { + font-size: 1.3em; +} + +.sig-paren { + font-size: larger; +} + +.sig-param.n { + font-style: italic; +} + +/* C++ specific styling */ + +.sig-inline.c-texpr, +.sig-inline.cpp-texpr { + font-family: unset; +} + +.sig.c .k, .sig.c .kt, +.sig.cpp .k, .sig.cpp .kt { + color: #0033B3; +} + +.sig.c .m, +.sig.cpp .m { + color: #1750EB; +} + +.sig.c .s, .sig.c .sc, +.sig.cpp .s, .sig.cpp .sc { + color: #067D17; +} + + +/* -- other body styles ----------------------------------------------------- */ + +ol.arabic { + list-style: decimal; +} + +ol.loweralpha { + list-style: lower-alpha; +} + +ol.upperalpha { + list-style: upper-alpha; +} + +ol.lowerroman { + list-style: lower-roman; +} + +ol.upperroman { + list-style: upper-roman; +} + +:not(li) > ol > li:first-child > :first-child, +:not(li) > ul > li:first-child > :first-child { + margin-top: 0px; +} + +:not(li) > ol > li:last-child > :last-child, +:not(li) > ul > li:last-child > :last-child { + margin-bottom: 0px; +} + +ol.simple ol p, +ol.simple ul p, +ul.simple ol p, +ul.simple ul p { + margin-top: 0; +} + +ol.simple > li:not(:first-child) > p, +ul.simple > li:not(:first-child) > p { + margin-top: 0; +} + +ol.simple p, +ul.simple p { + margin-bottom: 0; +} + +aside.footnote > span, +div.citation > span { + float: left; +} +aside.footnote > span:last-of-type, +div.citation > span:last-of-type { + padding-right: 0.5em; +} +aside.footnote > p { + margin-left: 2em; +} +div.citation > p { + margin-left: 4em; +} +aside.footnote > p:last-of-type, +div.citation > p:last-of-type { + margin-bottom: 0em; +} +aside.footnote > p:last-of-type:after, +div.citation > p:last-of-type:after { + content: ""; + clear: both; +} + +dl.field-list { + display: grid; + grid-template-columns: fit-content(30%) auto; +} + +dl.field-list > dt { + font-weight: bold; + word-break: break-word; + padding-left: 0.5em; + padding-right: 5px; +} + +dl.field-list > dd { + padding-left: 0.5em; + margin-top: 0em; + margin-left: 0em; + margin-bottom: 0em; +} + +dl { + margin-bottom: 15px; +} + +dd > :first-child { + margin-top: 0px; +} + +dd ul, dd table { + margin-bottom: 10px; +} + +dd { + margin-top: 3px; + margin-bottom: 10px; + margin-left: 30px; +} + +.sig dd { + margin-top: 0px; + margin-bottom: 0px; +} + +.sig dl { + margin-top: 0px; + margin-bottom: 0px; +} + +dl > dd:last-child, +dl > dd:last-child > :last-child { + margin-bottom: 0; +} + +dt:target, span.highlighted { + background-color: #fbe54e; +} + +rect.highlighted { + fill: #fbe54e; +} + +dl.glossary dt { + font-weight: bold; + font-size: 1.1em; +} + +.versionmodified { + font-style: italic; +} + +.system-message { + background-color: #fda; + padding: 5px; + border: 3px solid red; +} + +.footnote:target { + background-color: #ffa; +} + +.line-block { + display: block; + margin-top: 1em; + margin-bottom: 1em; +} + +.line-block .line-block { + margin-top: 0; + margin-bottom: 0; + margin-left: 1.5em; +} + +.guilabel, .menuselection { + font-family: sans-serif; +} + +.accelerator { + text-decoration: underline; +} + +.classifier { + font-style: oblique; +} + +.classifier:before { + font-style: normal; + margin: 0 0.5em; + content: ":"; + display: inline-block; +} + +abbr, acronym { + border-bottom: dotted 1px; + cursor: help; +} + +.translated { + background-color: rgba(207, 255, 207, 0.2) +} + +.untranslated { + background-color: rgba(255, 207, 207, 0.2) +} + +/* -- code displays --------------------------------------------------------- */ + +pre { + overflow: auto; + overflow-y: hidden; /* fixes display issues on Chrome browsers */ +} + +pre, div[class*="highlight-"] { + clear: both; +} + +span.pre { + -moz-hyphens: none; + -ms-hyphens: none; + -webkit-hyphens: none; + hyphens: none; + white-space: nowrap; +} + +div[class*="highlight-"] { + margin: 1em 0; +} + +td.linenos pre { + border: 0; + background-color: transparent; + color: #aaa; +} + +table.highlighttable { + display: block; +} + +table.highlighttable tbody { + display: block; +} + +table.highlighttable tr { + display: flex; +} + +table.highlighttable td { + margin: 0; + padding: 0; +} + +table.highlighttable td.linenos { + padding-right: 0.5em; +} + +table.highlighttable td.code { + flex: 1; + overflow: hidden; +} + +.highlight .hll { + display: block; +} + +div.highlight pre, +table.highlighttable pre { + margin: 0; +} + +div.code-block-caption + div { + margin-top: 0; +} + +div.code-block-caption { + margin-top: 1em; + padding: 2px 5px; + font-size: small; +} + +div.code-block-caption code { + background-color: transparent; +} + +table.highlighttable td.linenos, +span.linenos, +div.highlight span.gp { /* gp: Generic.Prompt */ + user-select: none; + -webkit-user-select: text; /* Safari fallback only */ + -webkit-user-select: none; /* Chrome/Safari */ + -moz-user-select: none; /* Firefox */ + -ms-user-select: none; /* IE10+ */ +} + +div.code-block-caption span.caption-number { + padding: 0.1em 0.3em; + font-style: italic; +} + +div.code-block-caption span.caption-text { +} + +div.literal-block-wrapper { + margin: 1em 0; +} + +code.xref, a code { + background-color: transparent; + font-weight: bold; +} + +h1 code, h2 code, h3 code, h4 code, h5 code, h6 code { + background-color: transparent; +} + +.viewcode-link { + float: right; +} + +.viewcode-back { + float: right; + font-family: sans-serif; +} + +div.viewcode-block:target { + margin: -1px -10px; + padding: 0 10px; +} + +/* -- math display ---------------------------------------------------------- */ + +img.math { + vertical-align: middle; +} + +div.body div.math p { + text-align: center; +} + +span.eqno { + float: right; +} + +span.eqno a.headerlink { + position: absolute; + z-index: 1; +} + +div.math:hover a.headerlink { + visibility: visible; +} + +/* -- printout stylesheet --------------------------------------------------- */ + +@media print { + div.document, + div.documentwrapper, + div.bodywrapper { + margin: 0 !important; + width: 100%; + } + + div.sphinxsidebar, + div.related, + div.footer, + #top-link { + display: none; + } +} \ No newline at end of file diff --git a/singlehtml/_static/check-solid.svg b/singlehtml/_static/check-solid.svg new file mode 100644 index 0000000..92fad4b --- /dev/null +++ b/singlehtml/_static/check-solid.svg @@ -0,0 +1,4 @@ + + + + diff --git a/singlehtml/_static/clipboard.min.js b/singlehtml/_static/clipboard.min.js new file mode 100644 index 0000000..54b3c46 --- /dev/null +++ b/singlehtml/_static/clipboard.min.js @@ -0,0 +1,7 @@ +/*! + * clipboard.js v2.0.8 + * https://clipboardjs.com/ + * + * Licensed MIT © Zeno Rocha + */ +!function(t,e){"object"==typeof exports&&"object"==typeof module?module.exports=e():"function"==typeof define&&define.amd?define([],e):"object"==typeof exports?exports.ClipboardJS=e():t.ClipboardJS=e()}(this,function(){return n={686:function(t,e,n){"use strict";n.d(e,{default:function(){return o}});var e=n(279),i=n.n(e),e=n(370),u=n.n(e),e=n(817),c=n.n(e);function a(t){try{return document.execCommand(t)}catch(t){return}}var f=function(t){t=c()(t);return a("cut"),t};var l=function(t){var e,n,o,r=1 + + + + diff --git a/singlehtml/_static/copybutton.css b/singlehtml/_static/copybutton.css new file mode 100644 index 0000000..40eafe5 --- /dev/null +++ b/singlehtml/_static/copybutton.css @@ -0,0 +1,93 @@ +/* Copy buttons */ +button.copybtn { + position: absolute; + display: flex; + top: .3em; + right: .3em; + width: 1.7em; + height: 1.7em; + opacity: 0; + transition: opacity 0.3s, border .3s, background-color .3s; + user-select: none; + padding: 0; + border: none; + outline: none; + border-radius: 0.4em; + /* The colors that GitHub uses */ + border: #1b1f2426 1px solid; + background-color: #f6f8fa; + color: #57606a; +} + +button.copybtn.success { + border-color: #22863a; + color: #22863a; +} + +button.copybtn svg { + stroke: currentColor; + width: 1.5em; + height: 1.5em; + padding: 0.1em; +} + +div.highlight { + position: relative; +} + +.highlight:hover button.copybtn { + opacity: 1; +} + +.highlight button.copybtn:hover { + background-color: rgb(235, 235, 235); +} + +.highlight button.copybtn:active { + background-color: rgb(187, 187, 187); +} + +/** + * A minimal CSS-only tooltip copied from: + * https://codepen.io/mildrenben/pen/rVBrpK + * + * To use, write HTML like the following: + * + *

Short

+ */ + .o-tooltip--left { + position: relative; + } + + .o-tooltip--left:after { + opacity: 0; + visibility: hidden; + position: absolute; + content: attr(data-tooltip); + padding: .2em; + font-size: .8em; + left: -.2em; + background: grey; + color: white; + white-space: nowrap; + z-index: 2; + border-radius: 2px; + transform: translateX(-102%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); +} + +.o-tooltip--left:hover:after { + display: block; + opacity: 1; + visibility: visible; + transform: translateX(-100%) translateY(0); + transition: opacity 0.2s cubic-bezier(0.64, 0.09, 0.08, 1), transform 0.2s cubic-bezier(0.64, 0.09, 0.08, 1); + transition-delay: .5s; +} + +/* By default the copy button shouldn't show up when printing a page */ +@media print { + button.copybtn { + display: none; + } +} diff --git a/singlehtml/_static/copybutton.js b/singlehtml/_static/copybutton.js new file mode 100644 index 0000000..f3ecd03 --- /dev/null +++ b/singlehtml/_static/copybutton.js @@ -0,0 +1,241 @@ +// Localization support +const messages = { + 'en': { + 'copy': 'Copy', + 'copy_to_clipboard': 'Copy to clipboard', + 'copy_success': 'Copied!', + 'copy_failure': 'Failed to copy', + }, + 'es' : { + 'copy': 'Copiar', + 'copy_to_clipboard': 'Copiar al portapapeles', + 'copy_success': '¡Copiado!', + 'copy_failure': 'Error al copiar', + }, + 'de' : { + 'copy': 'Kopieren', + 'copy_to_clipboard': 'In die Zwischenablage kopieren', + 'copy_success': 'Kopiert!', + 'copy_failure': 'Fehler beim Kopieren', + }, + 'fr' : { + 'copy': 'Copier', + 'copy_to_clipboard': 'Copié dans le presse-papier', + 'copy_success': 'Copié !', + 'copy_failure': 'Échec de la copie', + }, + 'ru': { + 'copy': 'Скопировать', + 'copy_to_clipboard': 'Скопировать в буфер', + 'copy_success': 'Скопировано!', + 'copy_failure': 'Не удалось скопировать', + }, + 'zh-CN': { + 'copy': '复制', + 'copy_to_clipboard': '复制到剪贴板', + 'copy_success': '复制成功!', + 'copy_failure': '复制失败', + }, + 'it' : { + 'copy': 'Copiare', + 'copy_to_clipboard': 'Copiato negli appunti', + 'copy_success': 'Copiato!', + 'copy_failure': 'Errore durante la copia', + } +} + +let locale = 'en' +if( document.documentElement.lang !== undefined + && messages[document.documentElement.lang] !== undefined ) { + locale = document.documentElement.lang +} + +let doc_url_root = DOCUMENTATION_OPTIONS.URL_ROOT; +if (doc_url_root == '#') { + doc_url_root = ''; +} + +/** + * SVG files for our copy buttons + */ +let iconCheck = ` + ${messages[locale]['copy_success']} + + +` + +// If the user specified their own SVG use that, otherwise use the default +let iconCopy = ``; +if (!iconCopy) { + iconCopy = ` + ${messages[locale]['copy_to_clipboard']} + + + +` +} + +/** + * Set up copy/paste for code blocks + */ + +const runWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} + +const codeCellId = index => `codecell${index}` + +// Clears selected text since ClipboardJS will select the text when copying +const clearSelection = () => { + if (window.getSelection) { + window.getSelection().removeAllRanges() + } else if (document.selection) { + document.selection.empty() + } +} + +// Changes tooltip text for two seconds, then changes it back +const temporarilyChangeTooltip = (el, oldText, newText) => { + el.setAttribute('data-tooltip', newText) + el.classList.add('success') + setTimeout(() => el.setAttribute('data-tooltip', oldText), 2000) + setTimeout(() => el.classList.remove('success'), 2000) +} + +// Changes the copy button icon for two seconds, then changes it back +const temporarilyChangeIcon = (el) => { + el.innerHTML = iconCheck; + setTimeout(() => {el.innerHTML = iconCopy}, 2000) +} + +const addCopyButtonToCodeCells = () => { + // If ClipboardJS hasn't loaded, wait a bit and try again. This + // happens because we load ClipboardJS asynchronously. + if (window.ClipboardJS === undefined) { + setTimeout(addCopyButtonToCodeCells, 250) + return + } + + // Add copybuttons to all of our code cells + const COPYBUTTON_SELECTOR = 'div.highlight pre'; + const codeCells = document.querySelectorAll(COPYBUTTON_SELECTOR) + codeCells.forEach((codeCell, index) => { + const id = codeCellId(index) + codeCell.setAttribute('id', id) + + const clipboardButton = id => + `` + codeCell.insertAdjacentHTML('afterend', clipboardButton(id)) + }) + +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + promptFound = regexp.test(line) + lineGotPrompt.push(promptFound) + if (removePrompts && promptFound) { + outputLines.push(match[2]) + } else { + outputLines.push(line) + } + gotLineCont = line.endsWith(lineContinuationChar) & useLineCont + if (line.includes(hereDocDelim) & useHereDoc) + gotHereDoc = !gotHereDoc + } else if (!onlyCopyPromptLines) { + outputLines.push(line) + } else if (copyEmptyLines && line.trim() === '') { + outputLines.push(line) + } + } + + // If no lines with the prompt were found then just use original lines + if (lineGotPrompt.some(v => v === true)) { + textContent = outputLines.join('\n'); + } + + // Remove a trailing newline to avoid auto-running when pasting + if (textContent.endsWith("\n")) { + textContent = textContent.slice(0, -1) + } + return textContent +} + + +var copyTargetText = (trigger) => { + var target = document.querySelector(trigger.attributes['data-clipboard-target'].value); + + // get filtered text + let exclude = '.linenos, .gp'; + + let text = filterText(target, exclude); + return formatCopyText(text, '', false, true, true, true, '', '') +} + + // Initialize with a callback so we can modify the text before copy + const clipboard = new ClipboardJS('.copybtn', {text: copyTargetText}) + + // Update UI with error/success messages + clipboard.on('success', event => { + clearSelection() + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_success']) + temporarilyChangeIcon(event.trigger) + }) + + clipboard.on('error', event => { + temporarilyChangeTooltip(event.trigger, messages[locale]['copy'], messages[locale]['copy_failure']) + }) +} + +runWhenDOMLoaded(addCopyButtonToCodeCells) \ No newline at end of file diff --git a/singlehtml/_static/copybutton_funcs.js b/singlehtml/_static/copybutton_funcs.js new file mode 100644 index 0000000..dbe1aaa --- /dev/null +++ b/singlehtml/_static/copybutton_funcs.js @@ -0,0 +1,73 @@ +function escapeRegExp(string) { + return string.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'); // $& means the whole matched string +} + +/** + * Removes excluded text from a Node. + * + * @param {Node} target Node to filter. + * @param {string} exclude CSS selector of nodes to exclude. + * @returns {DOMString} Text from `target` with text removed. + */ +export function filterText(target, exclude) { + const clone = target.cloneNode(true); // clone as to not modify the live DOM + if (exclude) { + // remove excluded nodes + clone.querySelectorAll(exclude).forEach(node => node.remove()); + } + return clone.innerText; +} + +// Callback when a copy button is clicked. Will be passed the node that was clicked +// should then grab the text and replace pieces of text that shouldn't be used in output +export function formatCopyText(textContent, copybuttonPromptText, isRegexp = false, onlyCopyPromptLines = true, removePrompts = true, copyEmptyLines = true, lineContinuationChar = "", hereDocDelim = "") { + var regexp; + var match; + + // Do we check for line continuation characters and "HERE-documents"? + var useLineCont = !!lineContinuationChar + var useHereDoc = !!hereDocDelim + + // create regexp to capture prompt and remaining line + if (isRegexp) { + regexp = new RegExp('^(' + copybuttonPromptText + ')(.*)') + } else { + regexp = new RegExp('^(' + escapeRegExp(copybuttonPromptText) + ')(.*)') + } + + const outputLines = []; + var promptFound = false; + var gotLineCont = false; + var gotHereDoc = false; + const lineGotPrompt = []; + for (const line of textContent.split('\n')) { + match = line.match(regexp) + if (match || gotLineCont || gotHereDoc) { + 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+ return this; // for chaining... + } +})(jQuery); + +// NO good way to do this!. Copy a hack from here +// https://stackoverflow.com/questions/901115/how-can-i-get-query-string-values-in-javascript +// https://stackoverflow.com/a/2880929 +var urlParams; +(window.onpopstate = function () { + var match, + pl = /\+/g, // Regex for replacing addition symbol with a space + search = /([^&=]+)=?([^&]*)/g, + decode = function (s) { return decodeURIComponent(s.replace(pl, " ")); }, + query = window.location.search.substring(1); + urlParams = {}; + while (match = search.exec(query)) + urlParams[decode(match[1])] = decode(match[2]); +})(); + +// Select heading levels +var maxHeading = urlParams['h'] +if (maxHeading === undefined) maxHeading = 2 +var headingLevels = []; +for (h=2 ; h (sections.length-1) ) { + // if we would scroll past bottom, or above top, do nothing + return; + } + + console.log('xxxxxx'); + var targetSection = sections[targetPos]; + console.log(targetSection, typeof(targetSection)); + + // Return targetSection top and height + var secProperties = section_top_and_height(targetSection); 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Pulled from the Jupyter / nbsphinx CSS */ +div.cell_output table { + border: none; + border-collapse: collapse; + border-spacing: 0; + color: black; + font-size: 1em; + table-layout: fixed; +} + +div.cell_output thead { + border-bottom: 1px solid black; + vertical-align: bottom; +} + +div.cell_output tr, +div.cell_output th, +div.cell_output td { + text-align: right; + vertical-align: middle; + padding: 0.5em 0.5em; + line-height: normal; + white-space: normal; + max-width: none; + border: none; +} + +div.cell_output th { + font-weight: bold; +} + +div.cell_output tbody tr:nth-child(odd) { + background: #f5f5f5; +} + +div.cell_output tbody tr:hover { + background: rgba(66, 165, 245, 0.2); +} + +/** source code line numbers **/ +span.linenos { + opacity: 0.5; +} + +/* Inline text from `paste` operation */ + +span.pasted-text { + font-weight: bold; +} + +span.pasted-inline img { + max-height: 2em; +} + +tbody span.pasted-inline img { + max-height: none; +} + +/* Font colors for translated ANSI escape sequences +Color values are copied from Jupyter Notebook +https://github.com/jupyter/notebook/blob/52581f8eda9b319eb0390ac77fe5903c38f81e3e/notebook/static/notebook/less/ansicolors.less#L14-L21 +Background colors from +https://nbsphinx.readthedocs.io/en/latest/code-cells.html#ANSI-Colors +*/ +div.highlight .-Color-Bold { + font-weight: bold; +} + +div.highlight .-Color[class*=-Black] { + color: #3E424D +} + +div.highlight .-Color[class*=-Red] { + color: #E75C58 +} + +div.highlight .-Color[class*=-Green] { + color: #00A250 +} + +div.highlight .-Color[class*=-Yellow] { + color: #DDB62B +} + +div.highlight .-Color[class*=-Blue] { + color: #208FFB +} + +div.highlight .-Color[class*=-Magenta] { + color: #D160C4 +} + +div.highlight .-Color[class*=-Cyan] { + color: #60C6C8 +} + +div.highlight .-Color[class*=-White] { + color: #C5C1B4 +} + +div.highlight .-Color[class*=-BGBlack] { + background-color: #3E424D +} + +div.highlight .-Color[class*=-BGRed] { + background-color: #E75C58 +} + +div.highlight .-Color[class*=-BGGreen] { + background-color: #00A250 +} + +div.highlight .-Color[class*=-BGYellow] { + background-color: #DDB62B +} + +div.highlight .-Color[class*=-BGBlue] { + background-color: #208FFB +} + +div.highlight .-Color[class*=-BGMagenta] { + background-color: #D160C4 +} + +div.highlight .-Color[class*=-BGCyan] { + background-color: #60C6C8 +} + +div.highlight .-Color[class*=-BGWhite] { + background-color: #C5C1B4 +} + +/* Font colors for 8-bit ANSI */ + +div.highlight .-Color[class*=-C0] { + color: #000000 +} + +div.highlight .-Color[class*=-BGC0] { + background-color: #000000 +} + +div.highlight .-Color[class*=-C1] { + color: #800000 +} + +div.highlight .-Color[class*=-BGC1] { + background-color: #800000 +} + +div.highlight .-Color[class*=-C2] { + color: #008000 +} + +div.highlight .-Color[class*=-BGC2] { + background-color: #008000 +} + +div.highlight .-Color[class*=-C3] { + color: #808000 +} + +div.highlight .-Color[class*=-BGC3] { + background-color: #808000 +} + +div.highlight .-Color[class*=-C4] { + color: #000080 +} + +div.highlight .-Color[class*=-BGC4] { + background-color: #000080 +} + +div.highlight .-Color[class*=-C5] { + color: #800080 +} + +div.highlight .-Color[class*=-BGC5] { + background-color: #800080 +} + +div.highlight .-Color[class*=-C6] { + color: #008080 +} + +div.highlight .-Color[class*=-BGC6] { + background-color: #008080 +} + +div.highlight .-Color[class*=-C7] { + color: #C0C0C0 +} + +div.highlight .-Color[class*=-BGC7] { + background-color: #C0C0C0 +} + +div.highlight .-Color[class*=-C8] { + color: #808080 +} + +div.highlight .-Color[class*=-BGC8] { + background-color: #808080 +} + +div.highlight .-Color[class*=-C9] { + color: #FF0000 +} + +div.highlight .-Color[class*=-BGC9] { + background-color: #FF0000 +} + +div.highlight .-Color[class*=-C10] { + color: #00FF00 +} + +div.highlight .-Color[class*=-BGC10] { + background-color: #00FF00 +} + +div.highlight .-Color[class*=-C11] { + color: #FFFF00 +} + +div.highlight .-Color[class*=-BGC11] { + background-color: #FFFF00 +} + +div.highlight .-Color[class*=-C12] { + color: #0000FF +} + +div.highlight .-Color[class*=-BGC12] { + background-color: #0000FF +} + +div.highlight .-Color[class*=-C13] { + color: #FF00FF +} + +div.highlight .-Color[class*=-BGC13] { + background-color: #FF00FF +} + +div.highlight .-Color[class*=-C14] { + color: #00FFFF +} + +div.highlight .-Color[class*=-BGC14] { + background-color: #00FFFF +} + +div.highlight .-Color[class*=-C15] { + color: #FFFFFF +} + +div.highlight .-Color[class*=-BGC15] { + background-color: #FFFFFF +} + +div.highlight .-Color[class*=-C16] { + color: #000000 +} + +div.highlight .-Color[class*=-BGC16] { + background-color: #000000 +} + +div.highlight .-Color[class*=-C17] { + color: #00005F +} + +div.highlight .-Color[class*=-BGC17] { + background-color: #00005F +} + +div.highlight .-Color[class*=-C18] { + color: #000087 +} + +div.highlight .-Color[class*=-BGC18] { + background-color: #000087 +} + +div.highlight .-Color[class*=-C19] { + color: #0000AF +} + +div.highlight .-Color[class*=-BGC19] { + background-color: #0000AF +} + +div.highlight .-Color[class*=-C20] { + color: #0000D7 +} + +div.highlight .-Color[class*=-BGC20] { + background-color: #0000D7 +} + +div.highlight .-Color[class*=-C21] { + color: #0000FF +} + +div.highlight .-Color[class*=-BGC21] { + background-color: #0000FF +} + +div.highlight .-Color[class*=-C22] { + color: #005F00 +} + +div.highlight .-Color[class*=-BGC22] { + background-color: #005F00 +} + +div.highlight .-Color[class*=-C23] { + color: #005F5F +} + +div.highlight .-Color[class*=-BGC23] { + background-color: #005F5F +} + +div.highlight .-Color[class*=-C24] { + color: #005F87 +} + +div.highlight .-Color[class*=-BGC24] { + background-color: #005F87 +} + +div.highlight .-Color[class*=-C25] { + color: #005FAF +} + +div.highlight .-Color[class*=-BGC25] { + background-color: #005FAF +} + +div.highlight .-Color[class*=-C26] { + color: #005FD7 +} + +div.highlight .-Color[class*=-BGC26] { + background-color: #005FD7 +} + +div.highlight .-Color[class*=-C27] { + color: #005FFF +} + +div.highlight .-Color[class*=-BGC27] { + background-color: #005FFF +} + +div.highlight .-Color[class*=-C28] { + color: #008700 +} + +div.highlight .-Color[class*=-BGC28] { + background-color: #008700 +} + +div.highlight .-Color[class*=-C29] { + color: #00875F +} + +div.highlight .-Color[class*=-BGC29] { + background-color: #00875F +} + +div.highlight .-Color[class*=-C30] { + color: #008787 +} + +div.highlight .-Color[class*=-BGC30] { + background-color: #008787 +} + +div.highlight .-Color[class*=-C31] { + color: #0087AF +} + +div.highlight .-Color[class*=-BGC31] { + background-color: #0087AF +} + +div.highlight .-Color[class*=-C32] { + color: #0087D7 +} + +div.highlight .-Color[class*=-BGC32] { + background-color: #0087D7 +} + +div.highlight .-Color[class*=-C33] { + color: #0087FF +} + +div.highlight .-Color[class*=-BGC33] { + background-color: #0087FF +} + +div.highlight .-Color[class*=-C34] { + color: #00AF00 +} + +div.highlight .-Color[class*=-BGC34] { + background-color: #00AF00 +} + +div.highlight .-Color[class*=-C35] { + color: #00AF5F +} + +div.highlight .-Color[class*=-BGC35] { + background-color: #00AF5F +} + +div.highlight .-Color[class*=-C36] { + color: #00AF87 +} + +div.highlight .-Color[class*=-BGC36] { + background-color: #00AF87 +} + +div.highlight .-Color[class*=-C37] { + color: #00AFAF +} + +div.highlight .-Color[class*=-BGC37] { + background-color: #00AFAF +} + +div.highlight .-Color[class*=-C38] { + color: #00AFD7 +} + +div.highlight .-Color[class*=-BGC38] { + background-color: #00AFD7 +} + +div.highlight .-Color[class*=-C39] { + color: #00AFFF +} + +div.highlight .-Color[class*=-BGC39] { + background-color: #00AFFF +} + +div.highlight .-Color[class*=-C40] { + color: #00D700 +} + +div.highlight .-Color[class*=-BGC40] { + background-color: #00D700 +} + +div.highlight .-Color[class*=-C41] { + color: #00D75F +} + +div.highlight .-Color[class*=-BGC41] { + background-color: #00D75F +} + +div.highlight .-Color[class*=-C42] { + color: #00D787 +} + +div.highlight .-Color[class*=-BGC42] { + background-color: #00D787 +} + +div.highlight .-Color[class*=-C43] { + color: #00D7AF +} + +div.highlight .-Color[class*=-BGC43] { + background-color: #00D7AF +} + +div.highlight .-Color[class*=-C44] { + color: #00D7D7 +} + +div.highlight .-Color[class*=-BGC44] { + background-color: #00D7D7 +} + +div.highlight .-Color[class*=-C45] { + color: #00D7FF +} + +div.highlight .-Color[class*=-BGC45] { + background-color: #00D7FF +} + +div.highlight .-Color[class*=-C46] { + color: #00FF00 +} + +div.highlight .-Color[class*=-BGC46] { + background-color: #00FF00 +} + +div.highlight .-Color[class*=-C47] { + color: #00FF5F +} + +div.highlight .-Color[class*=-BGC47] { + background-color: #00FF5F +} + +div.highlight .-Color[class*=-C48] { + color: #00FF87 +} + +div.highlight .-Color[class*=-BGC48] { + background-color: #00FF87 +} + +div.highlight .-Color[class*=-C49] { + color: #00FFAF +} + +div.highlight .-Color[class*=-BGC49] { + background-color: #00FFAF +} + +div.highlight .-Color[class*=-C50] { + color: #00FFD7 +} + +div.highlight .-Color[class*=-BGC50] { + background-color: #00FFD7 +} + +div.highlight .-Color[class*=-C51] { + color: #00FFFF +} + +div.highlight .-Color[class*=-BGC51] { + background-color: #00FFFF +} + +div.highlight .-Color[class*=-C52] { + color: #5F0000 +} + +div.highlight .-Color[class*=-BGC52] { + background-color: #5F0000 +} + +div.highlight .-Color[class*=-C53] { + color: #5F005F +} + +div.highlight .-Color[class*=-BGC53] { + background-color: #5F005F +} + +div.highlight .-Color[class*=-C54] { + color: #5F0087 +} + +div.highlight .-Color[class*=-BGC54] { + background-color: #5F0087 +} + +div.highlight .-Color[class*=-C55] { + color: #5F00AF +} + +div.highlight .-Color[class*=-BGC55] { + background-color: #5F00AF +} + +div.highlight .-Color[class*=-C56] { + color: #5F00D7 +} + +div.highlight .-Color[class*=-BGC56] { + background-color: #5F00D7 +} + +div.highlight .-Color[class*=-C57] { + color: #5F00FF +} + +div.highlight .-Color[class*=-BGC57] { + background-color: #5F00FF +} + +div.highlight .-Color[class*=-C58] { + color: #5F5F00 +} + +div.highlight .-Color[class*=-BGC58] { + background-color: #5F5F00 +} + +div.highlight .-Color[class*=-C59] { + color: #5F5F5F +} + +div.highlight .-Color[class*=-BGC59] { + background-color: #5F5F5F +} + +div.highlight .-Color[class*=-C60] { + color: #5F5F87 +} + +div.highlight .-Color[class*=-BGC60] { + background-color: #5F5F87 +} + +div.highlight .-Color[class*=-C61] { + color: #5F5FAF +} + +div.highlight .-Color[class*=-BGC61] { + background-color: #5F5FAF +} + +div.highlight .-Color[class*=-C62] { + color: #5F5FD7 +} + +div.highlight .-Color[class*=-BGC62] { + background-color: #5F5FD7 +} + +div.highlight .-Color[class*=-C63] { + color: #5F5FFF +} + +div.highlight .-Color[class*=-BGC63] { + background-color: #5F5FFF +} + +div.highlight .-Color[class*=-C64] { + color: #5F8700 +} + +div.highlight .-Color[class*=-BGC64] { + background-color: #5F8700 +} + +div.highlight .-Color[class*=-C65] { + color: #5F875F +} + +div.highlight .-Color[class*=-BGC65] { + background-color: #5F875F +} + +div.highlight .-Color[class*=-C66] { + color: #5F8787 +} + +div.highlight .-Color[class*=-BGC66] { + background-color: #5F8787 +} + +div.highlight .-Color[class*=-C67] { + color: #5F87AF +} + +div.highlight .-Color[class*=-BGC67] { + background-color: #5F87AF +} + +div.highlight .-Color[class*=-C68] { + color: #5F87D7 +} + +div.highlight .-Color[class*=-BGC68] { + background-color: #5F87D7 +} + +div.highlight .-Color[class*=-C69] { + color: #5F87FF +} + +div.highlight .-Color[class*=-BGC69] { + background-color: #5F87FF +} + +div.highlight .-Color[class*=-C70] { + color: #5FAF00 +} + +div.highlight .-Color[class*=-BGC70] { + background-color: #5FAF00 +} + +div.highlight .-Color[class*=-C71] { + color: #5FAF5F +} + +div.highlight .-Color[class*=-BGC71] { + background-color: #5FAF5F +} + +div.highlight .-Color[class*=-C72] { + color: #5FAF87 +} + +div.highlight .-Color[class*=-BGC72] { + background-color: #5FAF87 +} + +div.highlight .-Color[class*=-C73] { + color: #5FAFAF +} + +div.highlight .-Color[class*=-BGC73] { + background-color: #5FAFAF +} + +div.highlight .-Color[class*=-C74] { + color: #5FAFD7 +} + +div.highlight .-Color[class*=-BGC74] { + background-color: #5FAFD7 +} + +div.highlight .-Color[class*=-C75] { + color: #5FAFFF +} + +div.highlight .-Color[class*=-BGC75] { + background-color: #5FAFFF +} + +div.highlight .-Color[class*=-C76] { + color: #5FD700 +} + +div.highlight .-Color[class*=-BGC76] { + background-color: #5FD700 +} + +div.highlight .-Color[class*=-C77] { + color: #5FD75F +} + +div.highlight .-Color[class*=-BGC77] { + background-color: #5FD75F +} + +div.highlight .-Color[class*=-C78] { + color: #5FD787 +} + +div.highlight .-Color[class*=-BGC78] { + background-color: #5FD787 +} + +div.highlight .-Color[class*=-C79] { + color: #5FD7AF +} + +div.highlight .-Color[class*=-BGC79] { + background-color: #5FD7AF +} + +div.highlight .-Color[class*=-C80] { + color: #5FD7D7 +} + +div.highlight .-Color[class*=-BGC80] { + background-color: #5FD7D7 +} + +div.highlight .-Color[class*=-C81] { + color: #5FD7FF +} + +div.highlight .-Color[class*=-BGC81] { + background-color: #5FD7FF +} + +div.highlight .-Color[class*=-C82] { + color: #5FFF00 +} + +div.highlight .-Color[class*=-BGC82] { + background-color: #5FFF00 +} + +div.highlight .-Color[class*=-C83] { + color: #5FFF5F +} + +div.highlight .-Color[class*=-BGC83] { + background-color: #5FFF5F +} + +div.highlight .-Color[class*=-C84] { + color: #5FFF87 +} + +div.highlight .-Color[class*=-BGC84] { + background-color: #5FFF87 +} + +div.highlight .-Color[class*=-C85] { + color: #5FFFAF +} + +div.highlight .-Color[class*=-BGC85] { + background-color: #5FFFAF +} + +div.highlight .-Color[class*=-C86] { + color: #5FFFD7 +} + +div.highlight .-Color[class*=-BGC86] { + background-color: #5FFFD7 +} + +div.highlight .-Color[class*=-C87] { + color: #5FFFFF +} + +div.highlight .-Color[class*=-BGC87] { + background-color: #5FFFFF +} + +div.highlight .-Color[class*=-C88] { + color: #870000 +} + +div.highlight .-Color[class*=-BGC88] { + background-color: #870000 +} + +div.highlight .-Color[class*=-C89] { + color: #87005F +} + +div.highlight .-Color[class*=-BGC89] { + background-color: #87005F +} + +div.highlight .-Color[class*=-C90] { + color: #870087 +} + +div.highlight .-Color[class*=-BGC90] { + background-color: #870087 +} + +div.highlight .-Color[class*=-C91] { + color: #8700AF +} + +div.highlight .-Color[class*=-BGC91] { + background-color: #8700AF +} + +div.highlight .-Color[class*=-C92] { + color: #8700D7 +} + +div.highlight .-Color[class*=-BGC92] { + background-color: #8700D7 +} + +div.highlight .-Color[class*=-C93] { + color: #8700FF +} + +div.highlight .-Color[class*=-BGC93] { + background-color: #8700FF +} + +div.highlight .-Color[class*=-C94] { + color: #875F00 +} + +div.highlight .-Color[class*=-BGC94] { + background-color: #875F00 +} + +div.highlight .-Color[class*=-C95] { + color: #875F5F +} + +div.highlight .-Color[class*=-BGC95] { + background-color: #875F5F +} + +div.highlight .-Color[class*=-C96] { + color: #875F87 +} + +div.highlight .-Color[class*=-BGC96] { + background-color: #875F87 +} + +div.highlight .-Color[class*=-C97] { + color: #875FAF +} + +div.highlight .-Color[class*=-BGC97] { + background-color: #875FAF +} + +div.highlight .-Color[class*=-C98] { + color: #875FD7 +} + +div.highlight .-Color[class*=-BGC98] { + background-color: #875FD7 +} + +div.highlight .-Color[class*=-C99] { + color: #875FFF +} + +div.highlight .-Color[class*=-BGC99] { + background-color: #875FFF +} + +div.highlight .-Color[class*=-C100] { + color: #878700 +} + +div.highlight .-Color[class*=-BGC100] { + background-color: #878700 +} + +div.highlight .-Color[class*=-C101] { + color: #87875F +} + +div.highlight .-Color[class*=-BGC101] { + background-color: #87875F +} + +div.highlight .-Color[class*=-C102] { + color: #878787 +} + +div.highlight .-Color[class*=-BGC102] { + background-color: #878787 +} + +div.highlight .-Color[class*=-C103] { + color: #8787AF +} + +div.highlight .-Color[class*=-BGC103] { + background-color: #8787AF +} + +div.highlight .-Color[class*=-C104] { + color: #8787D7 +} + +div.highlight .-Color[class*=-BGC104] { + background-color: #8787D7 +} + +div.highlight .-Color[class*=-C105] { + color: #8787FF +} + +div.highlight .-Color[class*=-BGC105] { + background-color: #8787FF +} + +div.highlight .-Color[class*=-C106] { + color: #87AF00 +} + +div.highlight .-Color[class*=-BGC106] { + background-color: #87AF00 +} + +div.highlight .-Color[class*=-C107] { + color: #87AF5F +} + +div.highlight .-Color[class*=-BGC107] { + background-color: #87AF5F +} + +div.highlight .-Color[class*=-C108] { + color: #87AF87 +} + +div.highlight .-Color[class*=-BGC108] { + background-color: #87AF87 +} + +div.highlight .-Color[class*=-C109] { + color: #87AFAF +} + +div.highlight .-Color[class*=-BGC109] { + background-color: #87AFAF +} + +div.highlight .-Color[class*=-C110] { + color: #87AFD7 +} + +div.highlight .-Color[class*=-BGC110] { + background-color: #87AFD7 +} + +div.highlight .-Color[class*=-C111] { + color: #87AFFF +} + +div.highlight .-Color[class*=-BGC111] { + background-color: #87AFFF +} + +div.highlight .-Color[class*=-C112] { + color: #87D700 +} + +div.highlight .-Color[class*=-BGC112] { + background-color: #87D700 +} + +div.highlight .-Color[class*=-C113] { + color: #87D75F +} + +div.highlight .-Color[class*=-BGC113] { + background-color: #87D75F +} + +div.highlight .-Color[class*=-C114] { + color: #87D787 +} + +div.highlight .-Color[class*=-BGC114] { + background-color: #87D787 +} + +div.highlight .-Color[class*=-C115] { + color: #87D7AF +} + +div.highlight .-Color[class*=-BGC115] { + background-color: #87D7AF +} + +div.highlight .-Color[class*=-C116] { + color: #87D7D7 +} + +div.highlight .-Color[class*=-BGC116] { + background-color: #87D7D7 +} + +div.highlight .-Color[class*=-C117] { + color: #87D7FF +} + +div.highlight .-Color[class*=-BGC117] { + background-color: #87D7FF +} + +div.highlight .-Color[class*=-C118] { + color: #87FF00 +} + +div.highlight .-Color[class*=-BGC118] { + background-color: #87FF00 +} + +div.highlight .-Color[class*=-C119] { + color: #87FF5F +} + +div.highlight .-Color[class*=-BGC119] { + background-color: #87FF5F +} + +div.highlight .-Color[class*=-C120] { + color: #87FF87 +} + +div.highlight .-Color[class*=-BGC120] { + background-color: #87FF87 +} + +div.highlight .-Color[class*=-C121] { + color: #87FFAF +} + +div.highlight .-Color[class*=-BGC121] { + background-color: #87FFAF +} + +div.highlight .-Color[class*=-C122] { + color: #87FFD7 +} + +div.highlight .-Color[class*=-BGC122] { + background-color: #87FFD7 +} + +div.highlight .-Color[class*=-C123] { + color: #87FFFF +} + +div.highlight .-Color[class*=-BGC123] { + background-color: #87FFFF +} + +div.highlight .-Color[class*=-C124] { + color: #AF0000 +} + +div.highlight .-Color[class*=-BGC124] { + background-color: #AF0000 +} + +div.highlight .-Color[class*=-C125] { + color: #AF005F +} + +div.highlight .-Color[class*=-BGC125] { + background-color: #AF005F +} + +div.highlight .-Color[class*=-C126] { + color: #AF0087 +} + +div.highlight .-Color[class*=-BGC126] { + background-color: #AF0087 +} + +div.highlight .-Color[class*=-C127] { + color: #AF00AF +} + +div.highlight .-Color[class*=-BGC127] { + background-color: #AF00AF +} + +div.highlight .-Color[class*=-C128] { + color: #AF00D7 +} + +div.highlight .-Color[class*=-BGC128] { + background-color: #AF00D7 +} + +div.highlight .-Color[class*=-C129] { + color: #AF00FF +} + +div.highlight .-Color[class*=-BGC129] { + background-color: #AF00FF +} + +div.highlight .-Color[class*=-C130] { + color: #AF5F00 +} + +div.highlight .-Color[class*=-BGC130] { + background-color: #AF5F00 +} + +div.highlight .-Color[class*=-C131] { + color: #AF5F5F +} + +div.highlight .-Color[class*=-BGC131] { + background-color: #AF5F5F +} + +div.highlight .-Color[class*=-C132] { + color: #AF5F87 +} + +div.highlight .-Color[class*=-BGC132] { + background-color: #AF5F87 +} + +div.highlight .-Color[class*=-C133] { + color: #AF5FAF +} + +div.highlight .-Color[class*=-BGC133] { + background-color: #AF5FAF +} + +div.highlight .-Color[class*=-C134] { + color: #AF5FD7 +} + +div.highlight .-Color[class*=-BGC134] { + background-color: #AF5FD7 +} + +div.highlight .-Color[class*=-C135] { + color: #AF5FFF +} + +div.highlight .-Color[class*=-BGC135] { + background-color: #AF5FFF +} + +div.highlight .-Color[class*=-C136] { + color: #AF8700 +} + +div.highlight .-Color[class*=-BGC136] { + background-color: #AF8700 +} + +div.highlight .-Color[class*=-C137] { + color: #AF875F +} + +div.highlight .-Color[class*=-BGC137] { + background-color: #AF875F +} + +div.highlight .-Color[class*=-C138] { + color: #AF8787 +} + +div.highlight .-Color[class*=-BGC138] { + background-color: #AF8787 +} + +div.highlight .-Color[class*=-C139] { + color: #AF87AF +} + +div.highlight .-Color[class*=-BGC139] { + background-color: #AF87AF +} + +div.highlight .-Color[class*=-C140] { + color: #AF87D7 +} + +div.highlight .-Color[class*=-BGC140] { + background-color: #AF87D7 +} + +div.highlight .-Color[class*=-C141] { + color: #AF87FF +} + +div.highlight .-Color[class*=-BGC141] { + background-color: #AF87FF +} + +div.highlight .-Color[class*=-C142] { + color: #AFAF00 +} + +div.highlight .-Color[class*=-BGC142] { + background-color: #AFAF00 +} + +div.highlight .-Color[class*=-C143] { + color: #AFAF5F +} + +div.highlight .-Color[class*=-BGC143] { + background-color: #AFAF5F +} + +div.highlight .-Color[class*=-C144] { + color: #AFAF87 +} + +div.highlight .-Color[class*=-BGC144] { + background-color: #AFAF87 +} + +div.highlight .-Color[class*=-C145] { + color: #AFAFAF +} + +div.highlight .-Color[class*=-BGC145] { + background-color: #AFAFAF +} + +div.highlight .-Color[class*=-C146] { + color: #AFAFD7 +} + +div.highlight .-Color[class*=-BGC146] { + background-color: #AFAFD7 +} + +div.highlight .-Color[class*=-C147] { + color: #AFAFFF +} + +div.highlight .-Color[class*=-BGC147] { + background-color: #AFAFFF +} + +div.highlight .-Color[class*=-C148] { + color: #AFD700 +} + +div.highlight .-Color[class*=-BGC148] { + background-color: #AFD700 +} + +div.highlight .-Color[class*=-C149] { + color: #AFD75F +} + +div.highlight .-Color[class*=-BGC149] { + background-color: #AFD75F +} + +div.highlight .-Color[class*=-C150] { + color: #AFD787 +} + +div.highlight .-Color[class*=-BGC150] { + background-color: #AFD787 +} + +div.highlight .-Color[class*=-C151] { + color: #AFD7AF +} + +div.highlight .-Color[class*=-BGC151] { + background-color: #AFD7AF +} + +div.highlight .-Color[class*=-C152] { + color: #AFD7D7 +} + +div.highlight .-Color[class*=-BGC152] { + background-color: #AFD7D7 +} + +div.highlight .-Color[class*=-C153] { + color: #AFD7FF +} + +div.highlight .-Color[class*=-BGC153] { + background-color: #AFD7FF +} + +div.highlight .-Color[class*=-C154] { + color: #AFFF00 +} + +div.highlight .-Color[class*=-BGC154] { + background-color: #AFFF00 +} + +div.highlight .-Color[class*=-C155] { + color: #AFFF5F +} + +div.highlight .-Color[class*=-BGC155] { + background-color: #AFFF5F +} + +div.highlight .-Color[class*=-C156] { + color: #AFFF87 +} + +div.highlight .-Color[class*=-BGC156] { + background-color: #AFFF87 +} + +div.highlight .-Color[class*=-C157] { + color: #AFFFAF +} + +div.highlight .-Color[class*=-BGC157] { + background-color: #AFFFAF +} + +div.highlight .-Color[class*=-C158] { + color: #AFFFD7 +} + +div.highlight .-Color[class*=-BGC158] { + background-color: #AFFFD7 +} + +div.highlight .-Color[class*=-C159] { + color: #AFFFFF +} + +div.highlight .-Color[class*=-BGC159] { + background-color: #AFFFFF +} + +div.highlight .-Color[class*=-C160] { + color: #D70000 +} + +div.highlight .-Color[class*=-BGC160] { + background-color: #D70000 +} + +div.highlight .-Color[class*=-C161] { + color: #D7005F +} + +div.highlight .-Color[class*=-BGC161] { + background-color: #D7005F +} + +div.highlight .-Color[class*=-C162] { + color: #D70087 +} + +div.highlight .-Color[class*=-BGC162] { + background-color: #D70087 +} + +div.highlight .-Color[class*=-C163] { + color: #D700AF +} + +div.highlight .-Color[class*=-BGC163] { + background-color: #D700AF +} + +div.highlight .-Color[class*=-C164] { + color: #D700D7 +} + +div.highlight .-Color[class*=-BGC164] { + background-color: #D700D7 +} + +div.highlight .-Color[class*=-C165] { + color: #D700FF +} + +div.highlight .-Color[class*=-BGC165] { + background-color: #D700FF +} + +div.highlight .-Color[class*=-C166] { + color: #D75F00 +} + +div.highlight .-Color[class*=-BGC166] { + background-color: #D75F00 +} + +div.highlight .-Color[class*=-C167] { + color: #D75F5F +} + +div.highlight .-Color[class*=-BGC167] { + background-color: #D75F5F +} + +div.highlight .-Color[class*=-C168] { + color: #D75F87 +} + +div.highlight .-Color[class*=-BGC168] { + background-color: #D75F87 +} + +div.highlight .-Color[class*=-C169] { + color: #D75FAF +} + +div.highlight .-Color[class*=-BGC169] { + background-color: #D75FAF +} + +div.highlight .-Color[class*=-C170] { + color: #D75FD7 +} + +div.highlight .-Color[class*=-BGC170] { + background-color: #D75FD7 +} + +div.highlight .-Color[class*=-C171] { + color: #D75FFF +} + +div.highlight .-Color[class*=-BGC171] { + background-color: #D75FFF +} + +div.highlight .-Color[class*=-C172] { + color: #D78700 +} + +div.highlight .-Color[class*=-BGC172] { + background-color: #D78700 +} + +div.highlight .-Color[class*=-C173] { + color: #D7875F +} + +div.highlight .-Color[class*=-BGC173] { + background-color: #D7875F +} + +div.highlight .-Color[class*=-C174] { + color: #D78787 +} + +div.highlight .-Color[class*=-BGC174] { + background-color: #D78787 +} + +div.highlight .-Color[class*=-C175] { + color: #D787AF +} + +div.highlight .-Color[class*=-BGC175] { + background-color: #D787AF +} + +div.highlight .-Color[class*=-C176] { + color: #D787D7 +} + +div.highlight .-Color[class*=-BGC176] { + background-color: #D787D7 +} + +div.highlight .-Color[class*=-C177] { + color: #D787FF +} + +div.highlight .-Color[class*=-BGC177] { + background-color: #D787FF +} + +div.highlight .-Color[class*=-C178] { + color: #D7AF00 +} + +div.highlight .-Color[class*=-BGC178] { + background-color: #D7AF00 +} + +div.highlight .-Color[class*=-C179] { + color: #D7AF5F +} + +div.highlight .-Color[class*=-BGC179] { + background-color: #D7AF5F +} + +div.highlight .-Color[class*=-C180] { + color: #D7AF87 +} + +div.highlight .-Color[class*=-BGC180] { + background-color: #D7AF87 +} + +div.highlight .-Color[class*=-C181] { + color: #D7AFAF +} + +div.highlight .-Color[class*=-BGC181] { + background-color: #D7AFAF +} + +div.highlight .-Color[class*=-C182] { + color: #D7AFD7 +} + +div.highlight .-Color[class*=-BGC182] { + background-color: #D7AFD7 +} + +div.highlight .-Color[class*=-C183] { + color: #D7AFFF +} + +div.highlight .-Color[class*=-BGC183] { + background-color: #D7AFFF +} + +div.highlight .-Color[class*=-C184] { + color: #D7D700 +} + +div.highlight .-Color[class*=-BGC184] { + background-color: #D7D700 +} + +div.highlight .-Color[class*=-C185] { + color: #D7D75F +} + +div.highlight .-Color[class*=-BGC185] { + background-color: #D7D75F +} + +div.highlight .-Color[class*=-C186] { + color: #D7D787 +} + +div.highlight .-Color[class*=-BGC186] { + background-color: #D7D787 +} + +div.highlight .-Color[class*=-C187] { + color: #D7D7AF +} + +div.highlight .-Color[class*=-BGC187] { + background-color: #D7D7AF +} + +div.highlight .-Color[class*=-C188] { + color: #D7D7D7 +} + +div.highlight .-Color[class*=-BGC188] { + background-color: #D7D7D7 +} + +div.highlight .-Color[class*=-C189] { + color: #D7D7FF +} + +div.highlight .-Color[class*=-BGC189] { + background-color: #D7D7FF +} + +div.highlight .-Color[class*=-C190] { + color: #D7FF00 +} + +div.highlight .-Color[class*=-BGC190] { + background-color: #D7FF00 +} + +div.highlight .-Color[class*=-C191] { + color: #D7FF5F +} + +div.highlight .-Color[class*=-BGC191] { + background-color: #D7FF5F +} + +div.highlight .-Color[class*=-C192] { + color: #D7FF87 +} + +div.highlight .-Color[class*=-BGC192] { + background-color: #D7FF87 +} + +div.highlight .-Color[class*=-C193] { + color: #D7FFAF +} + +div.highlight .-Color[class*=-BGC193] { + background-color: #D7FFAF +} + +div.highlight .-Color[class*=-C194] { + color: #D7FFD7 +} + +div.highlight .-Color[class*=-BGC194] { + background-color: #D7FFD7 +} + +div.highlight .-Color[class*=-C195] { + color: #D7FFFF +} + +div.highlight .-Color[class*=-BGC195] { + background-color: #D7FFFF +} + +div.highlight .-Color[class*=-C196] { + color: #FF0000 +} + +div.highlight .-Color[class*=-BGC196] { + background-color: #FF0000 +} + +div.highlight .-Color[class*=-C197] { + color: #FF005F +} + +div.highlight .-Color[class*=-BGC197] { + background-color: #FF005F +} + +div.highlight .-Color[class*=-C198] { + color: #FF0087 +} + +div.highlight .-Color[class*=-BGC198] { + background-color: #FF0087 +} + +div.highlight .-Color[class*=-C199] { + color: #FF00AF +} + +div.highlight .-Color[class*=-BGC199] { + background-color: #FF00AF +} + +div.highlight .-Color[class*=-C200] { + color: #FF00D7 +} + +div.highlight .-Color[class*=-BGC200] { + background-color: #FF00D7 +} + +div.highlight .-Color[class*=-C201] { + color: #FF00FF +} + +div.highlight .-Color[class*=-BGC201] { + background-color: #FF00FF +} + +div.highlight .-Color[class*=-C202] { + color: #FF5F00 +} + +div.highlight .-Color[class*=-BGC202] { + background-color: #FF5F00 +} + +div.highlight .-Color[class*=-C203] { + color: #FF5F5F +} + +div.highlight .-Color[class*=-BGC203] { + background-color: #FF5F5F +} + +div.highlight .-Color[class*=-C204] { + color: #FF5F87 +} + +div.highlight .-Color[class*=-BGC204] { + background-color: #FF5F87 +} + +div.highlight .-Color[class*=-C205] { + color: #FF5FAF +} + +div.highlight .-Color[class*=-BGC205] { + background-color: #FF5FAF +} + +div.highlight .-Color[class*=-C206] { + color: #FF5FD7 +} + +div.highlight .-Color[class*=-BGC206] { + background-color: #FF5FD7 +} + +div.highlight .-Color[class*=-C207] { + color: #FF5FFF +} + +div.highlight .-Color[class*=-BGC207] { + background-color: #FF5FFF +} + +div.highlight .-Color[class*=-C208] { + color: #FF8700 +} + +div.highlight .-Color[class*=-BGC208] { + background-color: #FF8700 +} + +div.highlight .-Color[class*=-C209] { + color: #FF875F +} + +div.highlight .-Color[class*=-BGC209] { + background-color: #FF875F +} + +div.highlight .-Color[class*=-C210] { + color: #FF8787 +} + +div.highlight .-Color[class*=-BGC210] { + background-color: #FF8787 +} + +div.highlight .-Color[class*=-C211] { + color: #FF87AF +} + +div.highlight .-Color[class*=-BGC211] { + background-color: #FF87AF +} + +div.highlight .-Color[class*=-C212] { + color: #FF87D7 +} + +div.highlight .-Color[class*=-BGC212] { + background-color: #FF87D7 +} + +div.highlight .-Color[class*=-C213] { + color: #FF87FF +} + +div.highlight .-Color[class*=-BGC213] { + background-color: #FF87FF +} + +div.highlight .-Color[class*=-C214] { + color: #FFAF00 +} + +div.highlight .-Color[class*=-BGC214] { + background-color: #FFAF00 +} + +div.highlight .-Color[class*=-C215] { + color: #FFAF5F +} + +div.highlight .-Color[class*=-BGC215] { + background-color: #FFAF5F +} + +div.highlight .-Color[class*=-C216] { + color: #FFAF87 +} + +div.highlight .-Color[class*=-BGC216] { + background-color: #FFAF87 +} + +div.highlight .-Color[class*=-C217] { + color: #FFAFAF +} + +div.highlight .-Color[class*=-BGC217] { + background-color: #FFAFAF +} + +div.highlight .-Color[class*=-C218] { + color: #FFAFD7 +} + +div.highlight .-Color[class*=-BGC218] { + background-color: #FFAFD7 +} + +div.highlight .-Color[class*=-C219] { + color: #FFAFFF +} + +div.highlight .-Color[class*=-BGC219] { + background-color: #FFAFFF +} + +div.highlight .-Color[class*=-C220] { + color: #FFD700 +} + +div.highlight .-Color[class*=-BGC220] { + background-color: #FFD700 +} + +div.highlight .-Color[class*=-C221] { + color: #FFD75F +} + +div.highlight .-Color[class*=-BGC221] { + background-color: #FFD75F +} + +div.highlight .-Color[class*=-C222] { + color: #FFD787 +} + +div.highlight .-Color[class*=-BGC222] { + background-color: #FFD787 +} + +div.highlight .-Color[class*=-C223] { + color: #FFD7AF +} + +div.highlight .-Color[class*=-BGC223] { + background-color: #FFD7AF +} + +div.highlight .-Color[class*=-C224] { + color: #FFD7D7 +} + +div.highlight .-Color[class*=-BGC224] { + background-color: #FFD7D7 +} + +div.highlight .-Color[class*=-C225] { + color: #FFD7FF +} + +div.highlight .-Color[class*=-BGC225] { + background-color: #FFD7FF +} + +div.highlight .-Color[class*=-C226] { + color: #FFFF00 +} + +div.highlight .-Color[class*=-BGC226] { + background-color: #FFFF00 +} + +div.highlight .-Color[class*=-C227] { + color: #FFFF5F +} + +div.highlight .-Color[class*=-BGC227] { + background-color: #FFFF5F +} + +div.highlight .-Color[class*=-C228] { + color: #FFFF87 +} + +div.highlight .-Color[class*=-BGC228] { + background-color: #FFFF87 +} + +div.highlight .-Color[class*=-C229] { + color: #FFFFAF +} + +div.highlight .-Color[class*=-BGC229] { + background-color: #FFFFAF +} + +div.highlight .-Color[class*=-C230] { + color: #FFFFD7 +} + +div.highlight .-Color[class*=-BGC230] { + background-color: #FFFFD7 +} + +div.highlight .-Color[class*=-C231] { + color: #FFFFFF +} + +div.highlight .-Color[class*=-BGC231] { + background-color: #FFFFFF +} + +div.highlight .-Color[class*=-C232] { + color: #080808 +} + +div.highlight .-Color[class*=-BGC232] { + background-color: #080808 +} + +div.highlight .-Color[class*=-C233] { + color: #121212 +} + +div.highlight .-Color[class*=-BGC233] { + background-color: #121212 +} + +div.highlight .-Color[class*=-C234] { + color: #1C1C1C +} + +div.highlight .-Color[class*=-BGC234] { + background-color: #1C1C1C +} + +div.highlight .-Color[class*=-C235] { + color: #262626 +} + +div.highlight .-Color[class*=-BGC235] { + background-color: #262626 +} + +div.highlight .-Color[class*=-C236] { + color: #303030 +} + +div.highlight .-Color[class*=-BGC236] { + background-color: #303030 +} + +div.highlight .-Color[class*=-C237] { + color: #3A3A3A +} + +div.highlight .-Color[class*=-BGC237] { + background-color: #3A3A3A +} + +div.highlight .-Color[class*=-C238] { + color: #444444 +} + +div.highlight .-Color[class*=-BGC238] { + background-color: #444444 +} + +div.highlight .-Color[class*=-C239] { + color: #4E4E4E +} + +div.highlight .-Color[class*=-BGC239] { + background-color: #4E4E4E +} + +div.highlight .-Color[class*=-C240] { + color: #585858 +} + +div.highlight .-Color[class*=-BGC240] { + background-color: #585858 +} + +div.highlight .-Color[class*=-C241] { + color: #626262 +} + +div.highlight .-Color[class*=-BGC241] { + background-color: #626262 +} + +div.highlight .-Color[class*=-C242] { + color: #6C6C6C +} + +div.highlight .-Color[class*=-BGC242] { + background-color: #6C6C6C +} + +div.highlight .-Color[class*=-C243] { + color: #767676 +} + +div.highlight .-Color[class*=-BGC243] { + background-color: #767676 +} + +div.highlight .-Color[class*=-C244] { + color: #808080 +} + +div.highlight .-Color[class*=-BGC244] { + background-color: #808080 +} + +div.highlight .-Color[class*=-C245] { + color: #8A8A8A +} + +div.highlight .-Color[class*=-BGC245] { + background-color: #8A8A8A +} + +div.highlight .-Color[class*=-C246] { + color: #949494 +} + +div.highlight .-Color[class*=-BGC246] { + background-color: #949494 +} + +div.highlight .-Color[class*=-C247] { + color: #9E9E9E +} + +div.highlight .-Color[class*=-BGC247] { + background-color: #9E9E9E +} + +div.highlight .-Color[class*=-C248] { + color: #A8A8A8 +} + +div.highlight .-Color[class*=-BGC248] { + background-color: #A8A8A8 +} + +div.highlight .-Color[class*=-C249] { + color: #B2B2B2 +} + +div.highlight .-Color[class*=-BGC249] { + background-color: #B2B2B2 +} + +div.highlight .-Color[class*=-C250] { + color: #BCBCBC +} + +div.highlight .-Color[class*=-BGC250] { + background-color: #BCBCBC +} + +div.highlight .-Color[class*=-C251] { + color: #C6C6C6 +} + +div.highlight .-Color[class*=-BGC251] { + background-color: #C6C6C6 +} + +div.highlight .-Color[class*=-C252] { + color: #D0D0D0 +} + +div.highlight .-Color[class*=-BGC252] { + background-color: #D0D0D0 +} + +div.highlight .-Color[class*=-C253] { + color: #DADADA +} + +div.highlight .-Color[class*=-BGC253] { + background-color: #DADADA +} + +div.highlight .-Color[class*=-C254] { + color: #E4E4E4 +} + +div.highlight .-Color[class*=-BGC254] { + background-color: #E4E4E4 +} + +div.highlight 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(typeof Scorer === "undefined") { + var Scorer = { + // Implement the following function to further tweak the score for each result + // The function takes a result array [docname, title, anchor, descr, score, filename] + // and returns the new score. + /* + score: result => { + const [docname, title, anchor, descr, score, filename] = result + return score + }, + */ + + // query matches the full name of an object + objNameMatch: 11, + // or matches in the last dotted part of the object name + objPartialMatch: 6, + // Additive scores depending on the priority of the object + objPrio: { + 0: 15, // used to be importantResults + 1: 5, // used to be objectResults + 2: -5, // used to be unimportantResults + }, + // Used when the priority is not in the mapping. + objPrioDefault: 0, + + // query found in title + title: 15, + partialTitle: 7, + // query found in terms + term: 5, + partialTerm: 2, + }; +} + +const _removeChildren = (element) => { + while (element && element.lastChild) element.removeChild(element.lastChild); +}; + +/** + * See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Guide/Regular_Expressions#escaping + */ +const _escapeRegExp = (string) => + string.replace(/[.*+\-?^${}()|[\]\\]/g, "\\$&"); // $& means the whole matched string + +const _displayItem = (item, searchTerms, highlightTerms) => { + const docBuilder = DOCUMENTATION_OPTIONS.BUILDER; + const docFileSuffix = DOCUMENTATION_OPTIONS.FILE_SUFFIX; + const docLinkSuffix = DOCUMENTATION_OPTIONS.LINK_SUFFIX; + const showSearchSummary = DOCUMENTATION_OPTIONS.SHOW_SEARCH_SUMMARY; + const contentRoot = document.documentElement.dataset.content_root; + + const [docName, title, anchor, descr, score, _filename] = item; + + let listItem = document.createElement("li"); + let requestUrl; + let linkUrl; + if (docBuilder === "dirhtml") { + // dirhtml builder + let dirname = docName + "/"; + if (dirname.match(/\/index\/$/)) + dirname = dirname.substring(0, dirname.length - 6); + else if (dirname === "index/") dirname = ""; + requestUrl = contentRoot + dirname; + linkUrl = requestUrl; + } else { + // normal html builders + requestUrl = contentRoot + docName + docFileSuffix; + linkUrl = docName + docLinkSuffix; + } + let linkEl = listItem.appendChild(document.createElement("a")); + linkEl.href = linkUrl + anchor; + linkEl.dataset.score = score; + linkEl.innerHTML = title; + if (descr) { + listItem.appendChild(document.createElement("span")).innerHTML = + " (" + descr + ")"; + // highlight search terms in the description + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + } + else if (showSearchSummary) + fetch(requestUrl) + .then((responseData) => responseData.text()) + .then((data) => { + if (data) + listItem.appendChild( + Search.makeSearchSummary(data, searchTerms, anchor) + ); + // highlight search terms in the summary + if (SPHINX_HIGHLIGHT_ENABLED) // set in sphinx_highlight.js + highlightTerms.forEach((term) => _highlightText(listItem, term, "highlighted")); + }); + Search.output.appendChild(listItem); +}; +const _finishSearch = (resultCount) => { + Search.stopPulse(); + Search.title.innerText = _("Search Results"); + if (!resultCount) + Search.status.innerText = Documentation.gettext( + "Your search did not match any documents. Please make sure that all words are spelled correctly and that you've selected enough categories." + ); + else + Search.status.innerText = _( + "Search finished, found ${resultCount} page(s) matching the search query." + ).replace('${resultCount}', resultCount); +}; +const _displayNextItem = ( + results, + resultCount, + searchTerms, + highlightTerms, +) => { + // results left, load the summary and display it + // this is intended to be dynamic (don't sub resultsCount) + if (results.length) { + _displayItem(results.pop(), searchTerms, highlightTerms); + setTimeout( + () => _displayNextItem(results, resultCount, searchTerms, highlightTerms), + 5 + ); + } + // search finished, update title and status message + else _finishSearch(resultCount); +}; +// Helper function used by query() to order search results. +// Each input is an array of [docname, title, anchor, descr, score, filename]. +// Order the results by score (in opposite order of appearance, since the +// `_displayNextItem` function uses pop() to retrieve items) and then alphabetically. +const _orderResultsByScoreThenName = (a, b) => { + const leftScore = a[4]; + const rightScore = b[4]; + if (leftScore === rightScore) { + // same score: sort alphabetically + const leftTitle = a[1].toLowerCase(); + const rightTitle = b[1].toLowerCase(); + if (leftTitle === rightTitle) return 0; + return leftTitle > rightTitle ? -1 : 1; // inverted is intentional + } + return leftScore > rightScore ? 1 : -1; +}; + +/** + * Default splitQuery function. Can be overridden in ``sphinx.search`` with a + * custom function per language. + * + * The regular expression works by splitting the string on consecutive characters + * that are not Unicode letters, numbers, underscores, or emoji characters. + * This is the same as ``\W+`` in Python, preserving the surrogate pair area. + */ +if (typeof splitQuery === "undefined") { + var splitQuery = (query) => query + .split(/[^\p{Letter}\p{Number}_\p{Emoji_Presentation}]+/gu) + .filter(term => term) // remove remaining empty strings +} + +/** + * Search Module + */ +const Search = { + _index: null, + _queued_query: null, + _pulse_status: -1, + + htmlToText: (htmlString, anchor) => { + const htmlElement = new DOMParser().parseFromString(htmlString, 'text/html'); + for (const removalQuery of [".headerlink", "script", "style"]) { + htmlElement.querySelectorAll(removalQuery).forEach((el) => { el.remove() }); + } + if (anchor) { + const anchorContent = htmlElement.querySelector(`[role="main"] ${anchor}`); + if (anchorContent) return anchorContent.textContent; + + console.warn( + `Anchored content block not found. Sphinx search tries to obtain it via DOM query '[role=main] ${anchor}'. Check your theme or template.` + ); + } + + // if anchor not specified or not found, fall back to main content + const docContent = htmlElement.querySelector('[role="main"]'); + if (docContent) return docContent.textContent; + + console.warn( + "Content block not found. Sphinx search tries to obtain it via DOM query '[role=main]'. Check your theme or template." + ); + return ""; + }, + + init: () => { + const query = new URLSearchParams(window.location.search).get("q"); + document + .querySelectorAll('input[name="q"]') + .forEach((el) => (el.value = query)); + if (query) Search.performSearch(query); + }, + + loadIndex: (url) => + (document.body.appendChild(document.createElement("script")).src = url), + + setIndex: (index) => { + Search._index = index; + if (Search._queued_query !== null) { + const query = Search._queued_query; + Search._queued_query = null; + Search.query(query); + } + }, + + hasIndex: () => Search._index !== null, + + deferQuery: (query) => (Search._queued_query = query), + + stopPulse: () => (Search._pulse_status = -1), + + startPulse: () => { + if (Search._pulse_status >= 0) return; + + const pulse = () => { + Search._pulse_status = (Search._pulse_status + 1) % 4; + Search.dots.innerText = ".".repeat(Search._pulse_status); + if (Search._pulse_status >= 0) window.setTimeout(pulse, 500); + }; + pulse(); + }, + + /** + * perform a search for something (or wait until index is loaded) + */ + performSearch: (query) => { + // create the required interface elements + const searchText = document.createElement("h2"); + searchText.textContent = _("Searching"); + const searchSummary = document.createElement("p"); + searchSummary.classList.add("search-summary"); + searchSummary.innerText = ""; + const searchList = document.createElement("ul"); + searchList.classList.add("search"); + + const out = document.getElementById("search-results"); + Search.title = out.appendChild(searchText); + Search.dots = Search.title.appendChild(document.createElement("span")); + Search.status = out.appendChild(searchSummary); + Search.output = out.appendChild(searchList); + + const searchProgress = document.getElementById("search-progress"); + // Some themes don't use the search progress node + if (searchProgress) { + searchProgress.innerText = _("Preparing search..."); + } + Search.startPulse(); + + // index already loaded, the browser was quick! + if (Search.hasIndex()) Search.query(query); + else Search.deferQuery(query); + }, + + _parseQuery: (query) => { + // stem the search terms and add them to the correct list + const stemmer = new Stemmer(); + const searchTerms = new Set(); + const excludedTerms = new Set(); + const highlightTerms = new Set(); + const objectTerms = new Set(splitQuery(query.toLowerCase().trim())); + splitQuery(query.trim()).forEach((queryTerm) => { + const queryTermLower = queryTerm.toLowerCase(); + + // maybe skip this "word" + // stopwords array is from language_data.js + if ( + stopwords.indexOf(queryTermLower) !== -1 || + queryTerm.match(/^\d+$/) + ) + return; + + // stem the word + let word = stemmer.stemWord(queryTermLower); + // select the correct list + if (word[0] === "-") excludedTerms.add(word.substr(1)); + else { + searchTerms.add(word); + highlightTerms.add(queryTermLower); + } + }); + + if (SPHINX_HIGHLIGHT_ENABLED) { // set in sphinx_highlight.js + localStorage.setItem("sphinx_highlight_terms", [...highlightTerms].join(" ")) + } + + // console.debug("SEARCH: searching for:"); + // console.info("required: ", [...searchTerms]); + // console.info("excluded: ", [...excludedTerms]); + + return [query, searchTerms, excludedTerms, highlightTerms, objectTerms]; + }, + + /** + * execute search (requires search index to be loaded) + */ + _performSearch: (query, searchTerms, excludedTerms, highlightTerms, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + const allTitles = Search._index.alltitles; + const indexEntries = Search._index.indexentries; + + // Collect multiple result groups to be sorted separately and then ordered. + // Each is an array of [docname, title, anchor, descr, score, filename]. + const normalResults = []; + const nonMainIndexResults = []; + + _removeChildren(document.getElementById("search-progress")); + + const queryLower = query.toLowerCase().trim(); + for (const [title, foundTitles] of Object.entries(allTitles)) { + if (title.toLowerCase().trim().includes(queryLower) && (queryLower.length >= title.length/2)) { + for (const [file, id] of foundTitles) { + const score = Math.round(Scorer.title * queryLower.length / title.length); + const boost = titles[file] === title ? 1 : 0; // add a boost for document titles + normalResults.push([ + docNames[file], + titles[file] !== title ? `${titles[file]} > ${title}` : title, + id !== null ? "#" + id : "", + null, + score + boost, + filenames[file], + ]); + } + } + } + + // search for explicit entries in index directives + for (const [entry, foundEntries] of Object.entries(indexEntries)) { + if (entry.includes(queryLower) && (queryLower.length >= entry.length/2)) { + for (const [file, id, isMain] of foundEntries) { + const score = Math.round(100 * queryLower.length / entry.length); + const result = [ + docNames[file], + titles[file], + id ? "#" + id : "", + null, + score, + filenames[file], + ]; + if (isMain) { + normalResults.push(result); + } else { + nonMainIndexResults.push(result); + } + } + } + } + + // lookup as object + objectTerms.forEach((term) => + normalResults.push(...Search.performObjectSearch(term, objectTerms)) + ); + + // lookup as search terms in fulltext + normalResults.push(...Search.performTermsSearch(searchTerms, excludedTerms)); + + // let the scorer override scores with a custom scoring function + if (Scorer.score) { + normalResults.forEach((item) => (item[4] = Scorer.score(item))); + nonMainIndexResults.forEach((item) => (item[4] = Scorer.score(item))); + } + + // Sort each group of results by score and then alphabetically by name. + normalResults.sort(_orderResultsByScoreThenName); + nonMainIndexResults.sort(_orderResultsByScoreThenName); + + // Combine the result groups in (reverse) order. + // Non-main index entries are typically arbitrary cross-references, + // so display them after other results. + let results = [...nonMainIndexResults, ...normalResults]; + + // remove duplicate search results + // note the reversing of results, so that in the case of duplicates, the highest-scoring entry is kept + let seen = new Set(); + results = results.reverse().reduce((acc, result) => { + let resultStr = result.slice(0, 4).concat([result[5]]).map(v => String(v)).join(','); + if (!seen.has(resultStr)) { + acc.push(result); + seen.add(resultStr); + } + return acc; + }, []); + + return results.reverse(); + }, + + query: (query) => { + const [searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms] = Search._parseQuery(query); + const results = Search._performSearch(searchQuery, searchTerms, excludedTerms, highlightTerms, objectTerms); + + // for debugging + //Search.lastresults = results.slice(); // a copy + // console.info("search results:", Search.lastresults); + + // print the results + _displayNextItem(results, results.length, searchTerms, highlightTerms); + }, + + /** + * search for object names + */ + performObjectSearch: (object, objectTerms) => { + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const objects = Search._index.objects; + const objNames = Search._index.objnames; + const titles = Search._index.titles; + + const results = []; + + const objectSearchCallback = (prefix, match) => { + const name = match[4] + const fullname = (prefix ? prefix + "." : "") + name; + const fullnameLower = fullname.toLowerCase(); + if (fullnameLower.indexOf(object) < 0) return; + + let score = 0; + const parts = fullnameLower.split("."); + + // check for different match types: exact matches of full name or + // "last name" (i.e. last dotted part) + if (fullnameLower === object || parts.slice(-1)[0] === object) + score += Scorer.objNameMatch; + else if (parts.slice(-1)[0].indexOf(object) > -1) + score += Scorer.objPartialMatch; // matches in last name + + const objName = objNames[match[1]][2]; + const title = titles[match[0]]; + + // If more than one term searched for, we require other words to be + // found in the name/title/description + const otherTerms = new Set(objectTerms); + otherTerms.delete(object); + if (otherTerms.size > 0) { + const haystack = `${prefix} ${name} ${objName} ${title}`.toLowerCase(); + if ( + [...otherTerms].some((otherTerm) => haystack.indexOf(otherTerm) < 0) + ) + return; + } + + let anchor = match[3]; + if (anchor === "") anchor = fullname; + else if (anchor === "-") anchor = objNames[match[1]][1] + "-" + fullname; + + const descr = objName + _(", in ") + title; + + // add custom score for some objects according to scorer + if (Scorer.objPrio.hasOwnProperty(match[2])) + score += Scorer.objPrio[match[2]]; + else score += Scorer.objPrioDefault; + + results.push([ + docNames[match[0]], + fullname, + "#" + anchor, + descr, + score, + filenames[match[0]], + ]); + }; + Object.keys(objects).forEach((prefix) => + objects[prefix].forEach((array) => + objectSearchCallback(prefix, array) + ) + ); + return results; + }, + + /** + * search for full-text terms in the index + */ + performTermsSearch: (searchTerms, excludedTerms) => { + // prepare search + const terms = Search._index.terms; + const titleTerms = Search._index.titleterms; + const filenames = Search._index.filenames; + const docNames = Search._index.docnames; + const titles = Search._index.titles; + + const scoreMap = new Map(); + const fileMap = new Map(); + + // perform the search on the required terms + searchTerms.forEach((word) => { + const files = []; + const arr = [ + { files: terms[word], score: Scorer.term }, + { files: titleTerms[word], score: Scorer.title }, + ]; + // add support for partial matches + if (word.length > 2) { + const escapedWord = _escapeRegExp(word); + if (!terms.hasOwnProperty(word)) { + Object.keys(terms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: terms[term], score: Scorer.partialTerm }); + }); + } + if (!titleTerms.hasOwnProperty(word)) { + Object.keys(titleTerms).forEach((term) => { + if (term.match(escapedWord)) + arr.push({ files: titleTerms[term], score: Scorer.partialTitle }); + }); + } + } + + // no match but word was a required one + if (arr.every((record) => record.files === undefined)) return; + + // found search word in contents + arr.forEach((record) => { + if (record.files === undefined) return; + + let recordFiles = record.files; + if (recordFiles.length === undefined) recordFiles = [recordFiles]; + files.push(...recordFiles); + + // set score for the word in each file + recordFiles.forEach((file) => { + if (!scoreMap.has(file)) scoreMap.set(file, {}); + scoreMap.get(file)[word] = record.score; + }); + }); + + // create the mapping + files.forEach((file) => { + if (!fileMap.has(file)) fileMap.set(file, [word]); + else if (fileMap.get(file).indexOf(word) === -1) fileMap.get(file).push(word); + }); + }); + + // now check if the files don't contain excluded terms + const results = []; + for (const [file, wordList] of fileMap) { + // check if all requirements are matched + + // as search terms with length < 3 are discarded + const filteredTermCount = [...searchTerms].filter( + (term) => term.length > 2 + ).length; + if ( + wordList.length !== searchTerms.size && + wordList.length !== filteredTermCount + ) + continue; + + // ensure that none of the excluded terms is in the search result + if ( + [...excludedTerms].some( + (term) => + terms[term] === file || + titleTerms[term] === file || + (terms[term] || []).includes(file) || + (titleTerms[term] || []).includes(file) + ) + ) + break; + + // select one (max) score for the file. + const score = Math.max(...wordList.map((w) => scoreMap.get(file)[w])); + // add result to the result list + results.push([ + docNames[file], + titles[file], + "", + null, + score, + filenames[file], + ]); + } + return results; + }, + + /** + * helper function to return a node containing the + * search summary for a given text. keywords is a list + * of stemmed words. + */ + makeSearchSummary: (htmlText, keywords, anchor) => { + const text = Search.htmlToText(htmlText, anchor); + if (text === "") return null; + + const textLower = text.toLowerCase(); + const actualStartPosition = [...keywords] + .map((k) => textLower.indexOf(k.toLowerCase())) + .filter((i) => i > -1) + .slice(-1)[0]; + const startWithContext = Math.max(actualStartPosition - 120, 0); + + const top = startWithContext === 0 ? "" : "..."; + const tail = startWithContext + 240 < text.length ? "..." : ""; + + let summary = document.createElement("p"); + summary.classList.add("context"); + summary.textContent = top + text.substr(startWithContext, 240).trim() + tail; + + return summary; + }, +}; + +_ready(Search.init); diff --git a/singlehtml/_static/sphinx_highlight.js b/singlehtml/_static/sphinx_highlight.js new file mode 100644 index 0000000..8a96c69 --- /dev/null +++ b/singlehtml/_static/sphinx_highlight.js @@ -0,0 +1,154 @@ +/* Highlighting utilities for Sphinx HTML documentation. */ +"use strict"; + +const SPHINX_HIGHLIGHT_ENABLED = true + +/** + * highlight a given string on a node by wrapping it in + * span elements with the given class name. + */ +const _highlight = (node, addItems, text, className) => { + if (node.nodeType === Node.TEXT_NODE) { + const val = node.nodeValue; + const parent = node.parentNode; + const pos = val.toLowerCase().indexOf(text); + if ( + pos >= 0 && + !parent.classList.contains(className) && + !parent.classList.contains("nohighlight") + ) { + let span; + + const closestNode = parent.closest("body, svg, foreignObject"); + const isInSVG = closestNode && closestNode.matches("svg"); + if (isInSVG) { + span = document.createElementNS("http://www.w3.org/2000/svg", "tspan"); + } else { + span = document.createElement("span"); + span.classList.add(className); + } + + span.appendChild(document.createTextNode(val.substr(pos, text.length))); + const rest = document.createTextNode(val.substr(pos + text.length)); + parent.insertBefore( + span, + parent.insertBefore( + rest, + node.nextSibling + ) + ); + node.nodeValue = val.substr(0, pos); + /* There may be more occurrences of search term in this node. So call this + * function recursively on the remaining fragment. + */ + _highlight(rest, addItems, text, className); + + if (isInSVG) { + const rect = document.createElementNS( + "http://www.w3.org/2000/svg", + "rect" + ); + const bbox = parent.getBBox(); + rect.x.baseVal.value = bbox.x; + rect.y.baseVal.value = bbox.y; + rect.width.baseVal.value = bbox.width; + rect.height.baseVal.value = bbox.height; + rect.setAttribute("class", className); + addItems.push({ parent: parent, target: rect }); + } + } + } else if (node.matches && !node.matches("button, select, textarea")) { + node.childNodes.forEach((el) => _highlight(el, addItems, text, className)); + } +}; +const _highlightText = (thisNode, text, className) => { + let addItems = []; + _highlight(thisNode, addItems, text, className); + addItems.forEach((obj) => + obj.parent.insertAdjacentElement("beforebegin", obj.target) + ); +}; + +/** + * Small JavaScript module for the documentation. + */ +const SphinxHighlight = { + + /** + * highlight the search words provided in localstorage in the text + */ + highlightSearchWords: () => { + if (!SPHINX_HIGHLIGHT_ENABLED) return; // bail if no highlight + + // get and clear terms from localstorage + const url = new URL(window.location); + const highlight = + localStorage.getItem("sphinx_highlight_terms") + || url.searchParams.get("highlight") + || ""; + localStorage.removeItem("sphinx_highlight_terms") + url.searchParams.delete("highlight"); + window.history.replaceState({}, "", url); + + // get individual terms from highlight string + const terms = highlight.toLowerCase().split(/\s+/).filter(x => x); + if (terms.length === 0) return; // nothing to do + + // There should never be more than one element matching "div.body" + const divBody = document.querySelectorAll("div.body"); + const body = divBody.length ? divBody[0] : document.querySelector("body"); + window.setTimeout(() => { + terms.forEach((term) => _highlightText(body, term, "highlighted")); + }, 10); + + const searchBox = document.getElementById("searchbox"); + if (searchBox === null) return; + searchBox.appendChild( + document + .createRange() + .createContextualFragment( + '

' + + '' + + _("Hide Search Matches") + + "

" + ) + ); + }, + + /** + * helper function to hide the search marks again + */ + hideSearchWords: () => { + document + .querySelectorAll("#searchbox .highlight-link") + .forEach((el) => el.remove()); + document + .querySelectorAll("span.highlighted") + .forEach((el) => el.classList.remove("highlighted")); + localStorage.removeItem("sphinx_highlight_terms") + }, + + initEscapeListener: () => { + // only install a listener if it is really needed + if (!DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS) return; + + document.addEventListener("keydown", (event) => { + // bail for input elements + if (BLACKLISTED_KEY_CONTROL_ELEMENTS.has(document.activeElement.tagName)) return; + // bail with special keys + if (event.shiftKey || event.altKey || event.ctrlKey || event.metaKey) return; + if (DOCUMENTATION_OPTIONS.ENABLE_SEARCH_SHORTCUTS && (event.key === "Escape")) { + SphinxHighlight.hideSearchWords(); + event.preventDefault(); + } + }); + }, +}; + +_ready(() => { + /* Do not call highlightSearchWords() when we are on the search page. + * It will highlight words from the *previous* search query. + */ + if (typeof Search === "undefined") SphinxHighlight.highlightSearchWords(); + SphinxHighlight.initEscapeListener(); +}); diff --git a/singlehtml/_static/sphinx_lesson.css b/singlehtml/_static/sphinx_lesson.css new file mode 100644 index 0000000..14b20c6 --- /dev/null +++ b/singlehtml/_static/sphinx_lesson.css @@ -0,0 +1,51 @@ +/* sphinx_lesson.css */ + +body.wy-body-for-nav img.with-border { + border: 2px solid; +} + +.rst-content .admonition-no-content { + padding-bottom: 0px; +} + +.rst-content .demo > .admonition-title::before { + content: "\01F440"; /* Eyes */ } +.rst-content .type-along > .admonition-title::before { + content: "\02328\0FE0F"; /* Keyboard */ } +.rst-content .exercise > .admonition-title::before { + content: "\0270D\0FE0F"; /* Hand */ } +.rst-content .solution > .admonition-title::before { + content: "\02714\0FE0E"; /* Check mark */ } +.rst-content .homework > .admonition-title::before { + content: "\01F4DD"; /* Memo */ } +.rst-content .discussion > .admonition-title::before { + content: "\01F4AC"; /* Speech balloon */ } +.rst-content .questions > .admonition-title::before { + content: "\02753\0FE0E"; /* Question mark */ } +.rst-content .prerequisites > .admonition-title::before { + content: "\02699"; /* Gear */ } +.rst-content .seealso > .admonition-title::before { + content: "\027A1\0FE0E"; /* Question mark */ } + + +/* instructor-note */ +.rst-content .instructor-note { + background: #e7e7e7; +} +.rst-content .instructor-note > .admonition-title { + background: #6a6a6a; +} +.rst-content .instructor-note > .admonition-title::before { + content: ""; +} + + +/* sphinx_toggle_button, make the font white */ +.rst-content .toggle.admonition button.toggle-button { + color: white; +} + +/* sphinx-togglebutton, remove underflow when toggled to hidden mode */ +.rst-content .admonition.toggle-hidden { + padding-bottom: 0px; +} diff --git a/singlehtml/_static/sphinx_rtd_theme_ext_color_contrast.css b/singlehtml/_static/sphinx_rtd_theme_ext_color_contrast.css new file mode 100644 index 0000000..e68feb8 --- /dev/null +++ b/singlehtml/_static/sphinx_rtd_theme_ext_color_contrast.css @@ -0,0 +1,47 @@ +/* The following are for web accessibility of sphinx_rtd_theme: they + * solve some of the most frequent contrast issues. Remove when this + * solved: + * https://github.com/readthedocs/sphinx_rtd_theme/issues/971 + */ +/* background: #fcfcfc, note boxes #E7F2FA */ +a { color: #2573A7; } /* original #2980B9, #1F5C84; */ +body { color: #242424; } /* original #404040, #383838 */ +.wy-side-nav-search>a, .wy-side-nav-search .wy-dropdown>a { + color: #ffffff; +} /* original #fcfcfc */ +footer { color: #737373; } /* original gray=#808080*/ +footer span.commit code, footer span.commit .rst-content tt, .rst-content footer span.commit tt { + color: #737373; +} /* original gray=#808080*/ +.rst-content tt.literal, .rst-content tt.literal, .rst-content code.literal { + color: #AB2314; +} +/* Sidebar background */ +.wy-side-nav-search { background-color: #277CB4;} + +/* Same, but for pygments */ +.highlight .ch { color: #3E7A89; } /* #! line */ +.highlight .c1 { color: #3E7A89; } /* also comments */ +.highlight .nv { color: #AD3ECC; } /* variable */ +.highlight .gp { color: #B45608; } /* prompt character, $*/ +.highlight .si { color: #3975B1; } /* ${} variable text */ +.highlight .nc { color: #0C78A7; } + +/* Sphinx admonitions */ +/* warning */ +.wy-alert.wy-alert-warning .wy-alert-title, .rst-content .wy-alert-warning.note .wy-alert-title, .rst-content .attention .wy-alert-title, .rst-content .caution .wy-alert-title, .rst-content .wy-alert-warning.danger .wy-alert-title, .rst-content .wy-alert-warning.error .wy-alert-title, .rst-content .wy-alert-warning.hint .wy-alert-title, .rst-content .wy-alert-warning.important .wy-alert-title, .rst-content .wy-alert-warning.tip .wy-alert-title, .rst-content .warning .wy-alert-title, .rst-content .wy-alert-warning.seealso .wy-alert-title, .rst-content .admonition-todo .wy-alert-title, .rst-content .wy-alert-warning.admonition .wy-alert-title, .wy-alert.wy-alert-warning .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-warning .admonition-title, .rst-content .wy-alert-warning.note .admonition-title, .rst-content .attention .admonition-title, .rst-content .caution .admonition-title, .rst-content .wy-alert-warning.danger .admonition-title, .rst-content .wy-alert-warning.error .admonition-title, .rst-content .wy-alert-warning.hint .admonition-title, .rst-content .wy-alert-warning.important .admonition-title, .rst-content .wy-alert-warning.tip .admonition-title, .rst-content .warning .admonition-title, .rst-content .wy-alert-warning.seealso .admonition-title, .rst-content .admonition-todo .admonition-title, .rst-content .wy-alert-warning.admonition .admonition-title { + background: #B15E16; } +/* important */ +.wy-alert.wy-alert-success .wy-alert-title, .rst-content .wy-alert-success.note .wy-alert-title, .rst-content .wy-alert-success.attention .wy-alert-title, .rst-content .wy-alert-success.caution .wy-alert-title, .rst-content .wy-alert-success.danger .wy-alert-title, .rst-content .wy-alert-success.error .wy-alert-title, .rst-content .hint .wy-alert-title, .rst-content .important .wy-alert-title, .rst-content .tip .wy-alert-title, .rst-content .wy-alert-success.warning .wy-alert-title, .rst-content .wy-alert-success.seealso .wy-alert-title, .rst-content .wy-alert-success.admonition-todo .wy-alert-title, .rst-content .wy-alert-success.admonition .wy-alert-title, .wy-alert.wy-alert-success .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-success .admonition-title, .rst-content .wy-alert-success.note .admonition-title, .rst-content .wy-alert-success.attention .admonition-title, .rst-content .wy-alert-success.caution .admonition-title, .rst-content .wy-alert-success.danger .admonition-title, .rst-content .wy-alert-success.error .admonition-title, .rst-content .hint .admonition-title, .rst-content .important .admonition-title, .rst-content .tip .admonition-title, .rst-content .wy-alert-success.warning .admonition-title, .rst-content .wy-alert-success.seealso .admonition-title, .rst-content .wy-alert-success.admonition-todo .admonition-title, .rst-content .wy-alert-success.admonition .admonition-title { + background: #12826C; } +/* seealso, note, etc */ +.wy-alert.wy-alert-info .wy-alert-title, .rst-content .note .wy-alert-title, .rst-content .wy-alert-info.attention .wy-alert-title, .rst-content .wy-alert-info.caution .wy-alert-title, .rst-content .wy-alert-info.danger .wy-alert-title, .rst-content .wy-alert-info.error .wy-alert-title, .rst-content .wy-alert-info.hint .wy-alert-title, .rst-content .wy-alert-info.important .wy-alert-title, .rst-content .wy-alert-info.tip .wy-alert-title, .rst-content .wy-alert-info.warning .wy-alert-title, .rst-content .seealso .wy-alert-title, .rst-content .wy-alert-info.admonition-todo .wy-alert-title, .rst-content .wy-alert-info.admonition .wy-alert-title, .wy-alert.wy-alert-info .rst-content .admonition-title, .rst-content .wy-alert.wy-alert-info .admonition-title, .rst-content .note .admonition-title, .rst-content .wy-alert-info.attention .admonition-title, .rst-content .wy-alert-info.caution .admonition-title, .rst-content .wy-alert-info.danger .admonition-title, .rst-content .wy-alert-info.error .admonition-title, .rst-content .wy-alert-info.hint .admonition-title, .rst-content .wy-alert-info.important .admonition-title, .rst-content .wy-alert-info.tip .admonition-title, .rst-content .wy-alert-info.warning .admonition-title, .rst-content .seealso .admonition-title, .rst-content .wy-alert-info.admonition-todo .admonition-title, .rst-content .wy-alert-info.admonition .admonition-title { + background: #277CB4; } +/* error, danger */ +.rst-content .danger .admonition-title, .rst-content .danger .wy-alert-title, .rst-content .error .admonition-title, .rst-content .error .wy-alert-title, .rst-content .wy-alert-danger.admonition-todo .admonition-title, .rst-content .wy-alert-danger.admonition-todo .wy-alert-title, .rst-content .wy-alert-danger.admonition .admonition-title, .rst-content .wy-alert-danger.admonition .wy-alert-title, .rst-content .wy-alert-danger.attention .admonition-title, .rst-content .wy-alert-danger.attention .wy-alert-title, .rst-content .wy-alert-danger.caution .admonition-title, .rst-content .wy-alert-danger.caution .wy-alert-title, .rst-content .wy-alert-danger.hint .admonition-title, .rst-content .wy-alert-danger.hint .wy-alert-title, .rst-content .wy-alert-danger.important .admonition-title, .rst-content .wy-alert-danger.important .wy-alert-title, .rst-content .wy-alert-danger.note .admonition-title, .rst-content .wy-alert-danger.note .wy-alert-title, .rst-content .wy-alert-danger.seealso .admonition-title, .rst-content .wy-alert-danger.seealso .wy-alert-title, .rst-content .wy-alert-danger.tip .admonition-title, .rst-content .wy-alert-danger.tip .wy-alert-title, .rst-content .wy-alert-danger.warning .admonition-title, .rst-content .wy-alert-danger.warning .wy-alert-title, .rst-content .wy-alert.wy-alert-danger .admonition-title, .wy-alert.wy-alert-danger .rst-content .admonition-title, .wy-alert.wy-alert-danger .wy-alert-title { + background: #e31704; +} + +/* Generic admonition titles */ +.wy-alert-title, .rst-content .admonition-title { + background: #277CB4; } diff --git a/singlehtml/_static/tabs.css b/singlehtml/_static/tabs.css new file mode 100644 index 0000000..957ba60 --- /dev/null +++ b/singlehtml/_static/tabs.css @@ -0,0 +1,89 @@ +.sphinx-tabs { + margin-bottom: 1rem; +} + +[role="tablist"] { + border-bottom: 1px solid #a0b3bf; +} + +.sphinx-tabs-tab { + position: relative; + font-family: Lato,'Helvetica Neue',Arial,Helvetica,sans-serif; + color: #1D5C87; + line-height: 24px; + margin: 0; + font-size: 16px; + font-weight: 400; + background-color: rgba(255, 255, 255, 0); + border-radius: 5px 5px 0 0; + border: 0; + padding: 1rem 1.5rem; + margin-bottom: 0; +} + +.sphinx-tabs-tab[aria-selected="true"] { + font-weight: 700; + border: 1px solid #a0b3bf; + border-bottom: 1px solid white; + margin: -1px; + background-color: white; +} + +.sphinx-tabs-tab:focus { + z-index: 1; + outline-offset: 1px; +} + +.sphinx-tabs-panel { + position: relative; + padding: 1rem; + border: 1px solid #a0b3bf; + margin: 0px -1px -1px -1px; + border-radius: 0 0 5px 5px; + border-top: 0; + background: white; +} + +.sphinx-tabs-panel.code-tab { + padding: 0.4rem; +} + +.sphinx-tab img { + margin-bottom: 24 px; +} + +/* Dark theme preference styling */ + +@media (prefers-color-scheme: dark) { + body[data-theme="auto"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); + } + + body[data-theme="auto"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); + } + + body[data-theme="auto"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 1px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); + } +} + +/* Explicit dark theme styling */ + +body[data-theme="dark"] .sphinx-tabs-panel { + color: white; + background-color: rgb(50, 50, 50); +} + +body[data-theme="dark"] .sphinx-tabs-tab { + color: white; + background-color: rgba(255, 255, 255, 0.05); +} + +body[data-theme="dark"] .sphinx-tabs-tab[aria-selected="true"] { + border-bottom: 2px solid rgb(50, 50, 50); + background-color: rgb(50, 50, 50); +} diff --git a/singlehtml/_static/tabs.js b/singlehtml/_static/tabs.js new file mode 100644 index 0000000..48dc303 --- /dev/null +++ b/singlehtml/_static/tabs.js @@ -0,0 +1,145 @@ +try { + var session = window.sessionStorage || {}; +} catch (e) { + var session = {}; +} + +window.addEventListener("DOMContentLoaded", () => { + const allTabs = document.querySelectorAll('.sphinx-tabs-tab'); + const tabLists = document.querySelectorAll('[role="tablist"]'); + + allTabs.forEach(tab => { + tab.addEventListener("click", changeTabs); + }); + + tabLists.forEach(tabList => { + tabList.addEventListener("keydown", keyTabs); + }); + + // Restore group tab selection from session + const lastSelected = session.getItem('sphinx-tabs-last-selected'); + if (lastSelected != null) selectNamedTabs(lastSelected); +}); + +/** + * Key focus left and right between sibling elements using arrows + * @param {Node} e the element in focus when key was pressed + */ +function keyTabs(e) { + const tab = e.target; + let nextTab = null; + if (e.keyCode === 39 || e.keyCode === 37) { + tab.setAttribute("tabindex", -1); + // Move right + if (e.keyCode === 39) { + nextTab = tab.nextElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.firstElementChild; + } + // Move left + } else if (e.keyCode === 37) { + nextTab = tab.previousElementSibling; + if (nextTab === null) { + nextTab = tab.parentNode.lastElementChild; + } + } + } + + if (nextTab !== null) { + nextTab.setAttribute("tabindex", 0); + nextTab.focus(); + } +} + +/** + * Select or deselect clicked tab. If a group tab + * is selected, also select tab in other tabLists. + * @param {Node} e the element that was clicked + */ +function changeTabs(e) { + // Use this instead of the element that was clicked, in case it's a child + const notSelected = this.getAttribute("aria-selected") === "false"; + const positionBefore = this.parentNode.getBoundingClientRect().top; + const notClosable = !this.parentNode.classList.contains("closeable"); + + deselectTabList(this); + + if (notSelected || notClosable) { + selectTab(this); + const name = this.getAttribute("name"); + selectNamedTabs(name, this.id); + + if (this.classList.contains("group-tab")) { + // Persist during session + session.setItem('sphinx-tabs-last-selected', name); + } + } + + const positionAfter = this.parentNode.getBoundingClientRect().top; + const positionDelta = positionAfter - positionBefore; + // Scroll to offset content resizing + window.scrollTo(0, window.scrollY + positionDelta); +} + +/** + * Select tab and show associated panel. + * @param {Node} tab tab to select + */ +function selectTab(tab) { + tab.setAttribute("aria-selected", true); + + // Show the associated panel + document + .getElementById(tab.getAttribute("aria-controls")) + .removeAttribute("hidden"); +} + +/** + * Hide the panels associated with all tabs within the + * tablist containing this tab. + * @param {Node} tab a tab within the tablist to deselect + */ +function deselectTabList(tab) { + const parent = tab.parentNode; + const grandparent = parent.parentNode; + + Array.from(parent.children) + .forEach(t => t.setAttribute("aria-selected", false)); + + Array.from(grandparent.children) + .slice(1) // Skip tablist + .forEach(panel => panel.setAttribute("hidden", true)); +} + +/** + * Select grouped tabs with the same name, but no the tab + * with the given id. + * @param {Node} name name of grouped tab to be selected + * @param {Node} clickedId id of clicked tab + */ +function selectNamedTabs(name, clickedId=null) { + const groupedTabs = document.querySelectorAll(`.sphinx-tabs-tab[name="${name}"]`); + const tabLists = Array.from(groupedTabs).map(tab => tab.parentNode); + + tabLists + .forEach(tabList => { + // Don't want to change the tabList containing the clicked tab + const clickedTab = tabList.querySelector(`[id="${clickedId}"]`); + if (clickedTab === null ) { + // Select first tab with matching name + const tab = tabList.querySelector(`.sphinx-tabs-tab[name="${name}"]`); + deselectTabList(tab); + selectTab(tab); + } + }) +} + +if (typeof exports === 'undefined') { + exports = {}; +} + +exports.keyTabs = keyTabs; +exports.changeTabs = changeTabs; +exports.selectTab = selectTab; +exports.deselectTabList = deselectTabList; +exports.selectNamedTabs = selectNamedTabs; diff --git a/singlehtml/_static/term_role_formatting.css b/singlehtml/_static/term_role_formatting.css new file mode 100644 index 0000000..0b66095 --- /dev/null +++ b/singlehtml/_static/term_role_formatting.css @@ -0,0 +1,4 @@ +/* Make terms bold */ +a.reference span.std-term { + font-weight: bold; +} diff --git a/singlehtml/_static/togglebutton.css b/singlehtml/_static/togglebutton.css new file mode 100644 index 0000000..54a6787 --- /dev/null +++ b/singlehtml/_static/togglebutton.css @@ -0,0 +1,160 @@ +/** + * Admonition-based toggles + */ + +/* Visibility of the target */ +.admonition.toggle .admonition-title ~ * { + transition: opacity .3s, height .3s; +} + +/* Toggle buttons inside admonitions so we see the title */ +.admonition.toggle { + position: relative; +} + +/* Titles should cut off earlier to avoid overlapping w/ button */ +.admonition.toggle .admonition-title { + padding-right: 25%; + cursor: pointer; +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:hover { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 1%); +} + +/* Hovering will cause a slight shift in color to make it feel interactive */ +.admonition.toggle .admonition-title:active { + box-shadow: inset 0 0 0px 20px rgb(0 0 0 / 3%); +} + +/* Remove extra whitespace below the admonition title when hidden */ +.admonition.toggle-hidden { + padding-bottom: 0; +} + +.admonition.toggle-hidden .admonition-title { + margin-bottom: 0; +} + +/* hides all the content of a page until de-toggled */ +.admonition.toggle-hidden .admonition-title ~ * { + height: 0; + margin: 0; + opacity: 0; + visibility: hidden; +} + +/* General button style and position*/ +button.toggle-button { + /** + * Background and shape. By default there's no background + * but users can style as they wish + */ + background: none; + border: none; + outline: none; + + /* Positioning just inside the admonition title */ + position: absolute; + right: 0.5em; + padding: 0px; + border: none; + outline: none; +} + +/* Display the toggle hint on wide screens */ +@media (min-width: 768px) { + button.toggle-button.toggle-button-hidden:before { + content: attr(data-toggle-hint); /* This will be filled in by JS */ + font-size: .8em; + align-self: center; + } +} + +/* Icon behavior */ +.tb-icon { + transition: transform .2s ease-out; + height: 1.5em; + width: 1.5em; + stroke: currentColor; /* So that we inherit the color of other text */ +} + +/* The icon should point right when closed, down when open. */ +/* Open */ +.admonition.toggle button .tb-icon { + transform: rotate(90deg); +} + +/* Closed */ +.admonition.toggle button.toggle-button-hidden .tb-icon { + transform: rotate(0deg); +} + +/* With details toggles, we don't rotate the icon so it points right */ +details.toggle-details .tb-icon { + height: 1.4em; + width: 1.4em; + margin-top: 0.1em; /* To center the button vertically */ +} + + +/** + * Details-based toggles. + * In this case, we wrap elements with `.toggle` in a details block. + */ + +/* Details blocks */ +details.toggle-details { + margin: 1em 0; +} + + +details.toggle-details summary { + display: flex; + align-items: center; + cursor: pointer; + list-style: none; + border-radius: .2em; + border-left: 3px solid #1976d2; + background-color: rgb(204 204 204 / 10%); + padding: 0.2em 0.7em 0.3em 0.5em; /* Less padding on left because the SVG has left margin */ + font-size: 0.9em; +} + +details.toggle-details summary:hover { + background-color: rgb(204 204 204 / 20%); +} + +details.toggle-details summary:active { + background: rgb(204 204 204 / 28%); +} + +.toggle-details__summary-text { + margin-left: 0.2em; +} + +details.toggle-details[open] summary { + margin-bottom: .5em; +} + +details.toggle-details[open] summary .tb-icon { + transform: rotate(90deg); +} + +details.toggle-details[open] summary ~ * { + animation: toggle-fade-in .3s ease-out; +} + +@keyframes toggle-fade-in { + from {opacity: 0%;} + to {opacity: 100%;} +} + +/* Print rules - we hide all toggle button elements at print */ +@media print { + /* Always hide the summary so the button doesn't show up */ + details.toggle-details summary { + display: none; + } +} \ No newline at end of file diff --git a/singlehtml/_static/togglebutton.js b/singlehtml/_static/togglebutton.js new file mode 100644 index 0000000..215a7ee --- /dev/null +++ b/singlehtml/_static/togglebutton.js @@ -0,0 +1,187 @@ +/** + * Add Toggle Buttons to elements + */ + +let toggleChevron = ` + + + +`; + +var initToggleItems = () => { + var itemsToToggle = document.querySelectorAll(togglebuttonSelector); + console.log(`[togglebutton]: Adding toggle buttons to ${itemsToToggle.length} items`) + // Add the button to each admonition and hook up a callback to toggle visibility + itemsToToggle.forEach((item, index) => { + if (item.classList.contains("admonition")) { + // If it's an admonition block, then we'll add a button inside + // Generate unique IDs for this item + var toggleID = `toggle-${index}`; + var buttonID = `button-${toggleID}`; + + item.setAttribute('id', toggleID); + if (!item.classList.contains("toggle")){ + item.classList.add("toggle"); + } + // This is the button that will be added to each item to trigger the toggle + var collapseButton = ` + `; + + title = item.querySelector(".admonition-title") + title.insertAdjacentHTML("beforeend", collapseButton); + thisButton = document.getElementById(buttonID); + + // Add click handlers for the button + admonition title (if admonition) + admonitionTitle = document.querySelector(`#${toggleID} > .admonition-title`) + if (admonitionTitle) { + // If an admonition, then make the whole title block clickable + admonitionTitle.addEventListener('click', toggleClickHandler); + admonitionTitle.dataset.target = toggleID + admonitionTitle.dataset.button = buttonID + } else { + // If not an admonition then we'll listen for the button click + thisButton.addEventListener('click', toggleClickHandler); + } + + // Now hide the item for this toggle button unless explicitly noted to show + if (!item.classList.contains("toggle-shown")) { + toggleHidden(thisButton); + } + } else { + // If not an admonition, wrap the block in a
block + // Define the structure of the details block and insert it as a sibling + var detailsBlock = ` +
+ + ${toggleChevron} + ${toggleHintShow} + +
`; + item.insertAdjacentHTML("beforebegin", detailsBlock); + + // Now move the toggle-able content inside of the details block + details = item.previousElementSibling + details.appendChild(item) + item.classList.add("toggle-details__container") + + // Set up a click trigger to change the text as needed + details.addEventListener('click', (click) => { + let parent = click.target.parentElement; + if (parent.tagName.toLowerCase() == "details") { + summary = parent.querySelector("summary"); + details = parent; + } else { + summary = parent; + details = parent.parentElement; + } + // Update the inner text for the proper hint + if (details.open) { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintShow; + } else { + summary.querySelector("span.toggle-details__summary-text").innerText = toggleHintHide; + } + + }); + + // If we have a toggle-shown class, open details block should be open + if (item.classList.contains("toggle-shown")) { + details.click(); + } + } + }) +}; + +// This should simply add / remove the collapsed class and change the button text +var toggleHidden = (button) => { + target = button.dataset['target'] + var itemToToggle = document.getElementById(target); + if (itemToToggle.classList.contains("toggle-hidden")) { + itemToToggle.classList.remove("toggle-hidden"); + button.classList.remove("toggle-button-hidden"); + } else { + itemToToggle.classList.add("toggle-hidden"); + button.classList.add("toggle-button-hidden"); + } +} + +var toggleClickHandler = (click) => { + // Be cause the admonition title is clickable and extends to the whole admonition + // We only look for a click event on this title to trigger the toggle. + + if (click.target.classList.contains("admonition-title")) { + button = click.target.querySelector(".toggle-button"); + } else if (click.target.classList.contains("tb-icon")) { + // We've clicked the icon and need to search up one parent for the button + button = click.target.parentElement; + } else if (click.target.tagName == "polyline") { + // We've clicked the SVG elements inside the button, need to up 2 layers + button = click.target.parentElement.parentElement; + } else if (click.target.classList.contains("toggle-button")) { + // We've clicked the button itself and so don't need to do anything + button = click.target; + } else { + console.log(`[togglebutton]: Couldn't find button for ${click.target}`) + } + target = document.getElementById(button.dataset['button']); + toggleHidden(target); +} + +// If we want to blanket-add toggle classes to certain cells +var addToggleToSelector = () => { + const selector = ""; + if (selector.length > 0) { + document.querySelectorAll(selector).forEach((item) => { + item.classList.add("toggle"); + }) + } +} + +// Helper function to run when the DOM is finished +const sphinxToggleRunWhenDOMLoaded = cb => { + if (document.readyState != 'loading') { + cb() + } else if (document.addEventListener) { + document.addEventListener('DOMContentLoaded', cb) + } else { + document.attachEvent('onreadystatechange', function() { + if (document.readyState == 'complete') cb() + }) + } +} +sphinxToggleRunWhenDOMLoaded(addToggleToSelector) +sphinxToggleRunWhenDOMLoaded(initToggleItems) + +/** Toggle details blocks to be open when printing */ +if (toggleOpenOnPrint == "true") { + window.addEventListener("beforeprint", () => { + // Open the details + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.dataset["togglestatus"] = el.open; + el.open = true; + }); + + // Open the admonitions + document.querySelectorAll(".admonition.toggle.toggle-hidden").forEach((el) => { + console.log(el); + el.querySelector("button.toggle-button").click(); + el.dataset["toggle_after_print"] = "true"; + }); + }); + window.addEventListener("afterprint", () => { + // Re-close the details that were closed + document.querySelectorAll("details.toggle-details").forEach((el) => { + el.open = el.dataset["togglestatus"] == "true"; + delete el.dataset["togglestatus"]; + }); + + // Re-close the admonition toggle buttons + document.querySelectorAll(".admonition.toggle").forEach((el) => { + if (el.dataset["toggle_after_print"] == "true") { + el.querySelector("button.toggle-button").click(); + delete el.dataset["toggle_after_print"]; + } + }); + }); +} diff --git a/singlehtml/index.html b/singlehtml/index.html new file mode 100644 index 0000000..fcab47d --- /dev/null +++ b/singlehtml/index.html @@ -0,0 +1,1778 @@ + + + + + + + How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+
    +
    • +
  • How to document your research software documentation
    • +
  • + Edit on GitHub +
    • +
+
+
+
+
+ +
+

How to document your research software

+

In this lesson we will discuss different solutions for implementing and +deploying code documentation.

+

We will start with a discussion about what makes a good README. For many +projects, a README is more than enough.

+

We will then learn how to build documentation with the +documentation generator Sphinx (and compare it +with others) and how to +deploy it to Read the Docs, a service which hosts +open documentation for free.

+

This demonstration will be independent of programming languages.

+

We will also learn how +to deploy a project website or personal homepage to GitHub Pages. +The approach that we will learn will be transferable to +GitLab Pages and +Bitbucket Pages.

+
+

Prerequisites

+
    +

  1. Basic understanding of Git.

    2. +

  2. For the Sphinx part, You need to have +sphinx and sphinx_rtd_theme installed +(they are part of the coderefinery environment).

    3. +

  3. For the GitHub Pages part you need a GitHub account.

    4. +
+
+ + + + + + + + + + + + + + + + + + + + + + + + + + + +

10 min

Motivation and wishlist

10 min

Popular tools and solutions

20 min

In-code documentation

30 min

Writing good README files

30 min

Sphinx and Markdown

20 min

Deploying Sphinx documentation to GitHub Pages

20 min

Hosting websites/homepages on GitHub Pages

5 min

Summary

+
+
+

Motivation and wishlist

+
+

Motivation

+
+

Motivation-1: Why documenting code?

+

Use the collaborative document:

+
    +

  • Is project documentation important? Why?

    • +

  • How would you describe a useful documentation?

    • +

  • How can you motivate your colleagues to contribute to the documentation?

    • +
+
+ +
+
+

What do we expect from a suitably good documentation?

+
+

Note

+

Documentation comes in different forms - what is documentation?

+
    +

  • Tutorials: learning-oriented, allows the newcomer to get started

    • +

  • How-to guides: goal-oriented, shows how to solve a specific problem

    • +

  • Explanation: understanding-oriented, explains a concept

    • +

  • Reference: information-oriented, describes the machinery

    • +
+

Read more:

+ +
+

There is no one size fits all: often for small projects a README.md or +README.rst can be enough (more about these formats later).

+
+
+

Creating a checklist

+
+

Motivation-2: Create a wishlist

+

Use the collaborative document:

+
    +

  • Let us create a wishlist for how we would like documentation to be.

    • +

  • Below are some of our ideas but please do not look at them yet.

    • +

  • We are sure you will come up with ideas we did not think about.

    • +
+
+ +
+

Documentation checklist

+

Which items to include depends on the number of users apart from yourself.

+
    +

  • Purpose

    • +

  • Authors

    • +

  • License

    • +

  • Recommended citation

    • +

  • Copy-paste-able example to get started

    • +

  • Dependencies and their versions or version ranges

    • +

  • Installation instructions

    • +

  • Tutorials covering key functionality

    • +

  • Reference documentation (e.g. API) covering all functionality

    • +

  • How do you want to be asked questions (mailing list or forum or chat or issue tracker)

    • +

  • Possibly a FAQ section

    • +

  • Contribution guide

    • +
+
+
+

Keypoints

+
    +

  • Documentation is part of the code and should be versionable.

    • +

  • Documentation (sources) should be tracked with the corresponding code in the same repository.

    • +

  • Use standard markup languages such as reStructuredText or Markdown.

    • +
+
+
+
+ +
+

In-code documentation

+
+

Questions

+
    +

  • What can I do to make my code more easily understandable?

    • +

  • What information should go into comments?

    • +

  • What are docstrings and what information should go into docstrings?

    • +
+
+

In this episode we will learn how to write good documentation inside your code.

+
+

Exercise - Writing good comments

+
+

In-code-1: Comments

+

Let’s take a look at two example comments (comments in Python start with #):

+

Comment A

+
# now we check if temperature is below -50
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Comment B

+
# we regard temperatures below -50 degrees as measurement errors
+if temperature < -50:
+    print("ERROR: temperature is too low")
+
+
+

Which of these comments is more useful? Can you explain why?

+ +
+
+
+

Sometimes version control is better than a comment

+
+

Examples for code comments where Git is a better solution

+

Keeping zombie code “just in case” (rather use version control):

+
# do not run this code!
+# if temperature > 0:
+#     print("It is warm")
+
+
+

Instead: Remove the code, you can always find it back in a previous version of your code in Git.

+

Emulating version control:

+
# John Doe: threshold changed from 0 to 15 on August 5, 2013
+if temperature > 15:
+    print("It is warm")
+
+
+

Instead: You can get this information from git log or git show or git   annotate or similar.

+
+
+
+

What are “docstrings” and how can they be useful?

+

Here is function fahrenheit_to_celsius which converts temperature in +Fahrenheit to Celsius, implemented in a couple of different languages. +Your language is missing? Please contribute an example.

+

The first set of examples uses regular comments:

+
+
# This function converts a temperature in Fahrenheit to Celsius.
+def fahrenheit_to_celsius(temp_f: float) -> float:
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+
+

The second set uses docstrings or similar concepts. Please compare the two +(above and below):

+
+
def fahrenheit_to_celsius(temp_f: float) -> float:
+    """
+    Converts a temperature in Fahrenheit to Celsius.
+
+    Parameters
+    ----------
+    temp_f : float
+        The temperature in Fahrenheit.
+
+    Returns
+    -------
+    float
+        The temperature in Celsius.
+    """
+
+    temp_c = (temp_f - 32.0) * (5.0/9.0)
+    return temp_c
+
+
+

Read more: https://peps.python.org/pep-0257/

+
+

Docstrings can do a bit more than just comments:

+
    +

  • Tools can generate help text automatically from the docstrings.

    • +

  • Tools can generate documentation pages automatically from code.

    • +
+

It is common to write docstrings for functions, classes, and modules.

+

Good docstrings describe:

+
    +

  • What the function does

    • +

  • What goes in (including the type of the input variables)

    • +

  • What goes out (including the return type)

    • +
+

Naming is documentation: +Giving explicit, descriptive names to your code segments (functions, classes, +variables) already provides very useful and important documentation. In +practice you will find that for simple functions it is unnecessary to add a +docstring when the function name and variable names already give enough +information.

+
+
+

Keypoints

+
    +

  • Comments should describe the why for your code not the what.

    • +

  • Writing docstrings can be a good way to write documentation while you type +code since it also makes it possible +to query that information from outside the code or to auto-generate +documentation pages.

    • +
+
+
+
+
+

Writing good README files

+

The README file (often README.md or README.rst) is usually the first thing +users/collaborators see when visiting your GitHub repository.

+

Use it to communicate important information about your project! For many +smaller or mid-size projects, this is enough documentation. It’s not that hard +to make a basic one, and it’s easy to expand as needed.

+
+

Exercise: Have fun testing some README features

+
+

Exercise README-1: Have fun testing some README features you may not have heard about

+
    +

  • Test the effect of adding the following to your GitHub README (read +more):

    +
    > [!NOTE]
+> Highlights information that users should take into account, even when skimming.
+
+> [!IMPORTANT]
+> Crucial information necessary for users to succeed.
+
+> [!WARNING]
+> Critical content demanding immediate user attention due to potential risks.
+
    +
    +
    • +

  • For more detailed descriptions which you don’t want to show by default you +might find this useful (please try it out):

    +
    <details>
+<summary>
+Short summary
+</summary>
+
+Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod
+tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam,
+quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo
+consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse
+cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non
+proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+</details>
+
    +
    +
    • +

  • Would you like to add a badge like this one: please replace with alt text?

    +

    Badge that links to a website (see also https://shields.io/):

    +
    [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)
+
    +
    +

    Badge without link:

    +
    ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)
+
    +
    +
    • +

  • Know about other tips and tricks? Please share them (send a pull request to this lesson).

    • +
+
+
+
+

Exercise: Improve the README for your own project

+
+

Exercise README-2: Draft or improve a README for one of your recent projects

+

Try to draft a brief README or review a README which you have written for one +of your projects.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • Use the checklist which we have discussed earlier.

    • +

  • Think about the user (which can be a future you) of your project, what does this user need to know to use or +contribute to the project? And how do you make your project attractive to use or contribute to?

    • +

  • (Optional): Try the https://hemingwayapp.com/ to analyse your README file and make your writing bold and clear.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Exercise: Discuss the README of a project that you use

+
+

Exercise README-3: Review and discuss a README of a project that you have used

+

In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • When discussing other people’s projects please remember to be respectful and +constructive. The goal of this exercise is not to criticize other projects but +to learn from other projects and to collect the aspects that you enjoyed +finding in a README and to also collect aspects which you have searched for but +which are sometimes missing.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Table of contents in README files

+
    +

  • GitHub automatically generates a table of contents for README.md files.

    • +

  • On GitLab you can generate a TOC in Markdown with:

    +
    [[_TOC_]]
+
    +
    +
    • +

  • With RST you can generate a table of contents (TOC) automatically by adding:

    +
    .. contents:: Table of Contents
+
    +
    +
    • +
+
+
+
+

Sphinx and Markdown

+
+

Objectives

+
    +

  • Understand how static site generators build websites out of plain +text files.

    • +

  • Create example Sphinx documentation and learn some Markdown along the way.

    • +
+
+

We will take the first steps in creating documentation using Sphinx, and learn some +MyST flavored Markdown syntax along the way.

+
+

This lesson is built with Sphinx

+

Try to compare the source +code +and the result side by side.

+
+

Our goal in this episode is to build HTML pages locally on our computers.

+
+

Before we start, let us verify whether we have the software we need

+

You may need to activate your CodeRefinery conda environment we set up +in the installation instructions. This was covered as part of the +installation instructions, but the most usual command to do this is:

+
$ conda activate coderefinery
+
+
+

Check whether Python is available +(you should see a version; precise version is not so important):

+
$ python --version
+
+Python 3.11.5
+
+
+

Check whether Sphinx is available +(you should see a version; precise version is not so important):

+
$ sphinx-build --version
+
+sphinx-build 5.3.0
+
+
+

Check whether the quickstart tool is available +(you should see a version; precise version is not so important):

+
$ sphinx-quickstart --version
+
+sphinx-quickstart 5.3.0
+
+
+

Check whether MyST parser is available +(you should see no output):

+
$ python -c "import myst_parser"
+
+
+

If the above commands produce an error +(command not found or module not found or ModuleNotFoundError), +please follow our +installation instructions. +But please don’t give up if you don’t have these - the episodes after this one will work even without these +tools.

+
+
+

Exercise: Sphinx quickstart

+
+

Sphinx-1: Generate the basic documentation template

+

Create a directory for the example documentation, step into it, and inside +generate the basic documentation template:

+
$ mkdir doc-example
+$ cd doc-example
+$ sphinx-quickstart
+
+
+

The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release:

+
> Separate source and build directories (y/n) [n]: <hit enter>
+> Project name: <your project name>
+> Author name(s): <your name>
+> Project release []: 0.1
+> Project language [en]: <hit enter>
+
+
+

A couple of files and directories are created:

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

File/directory

Contents

conf.py

Documentation configuration file

index.rst

Main file in Sphinx

_build/

Directory where docs are built (you can decide the name)

_templates/

Your own HTML templates

_static/

Static files (images, styles, etc.) copied to output directory on build

Makefile

Makefile to build documentation using make

make.bat

Makefile to build documentation using make (Windows)

+

Makefile and make.bat (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly.

+

Let’s have a look at the index.rst file, which is the main file of your documentation:

+
.. myproject documentation master file, created by
+   sphinx-quickstart on Sat Sep 23 17:35:26 2023.
+   You can adapt this file completely to your liking, but it should at least
+   contain the root `toctree` directive.
+
+Welcome to myproject's documentation!
+=====================================
+
+.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+
+
+
    +

  • We will not use the Indices and tables section now, so remove it and everything below.

    • +

  • The top four lines, starting with .., are a comment.

    • +

  • The next lines are the table of contents. We can add content below:

    • +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+
+
+

Note that some-feature.md needs to be indented to align with :caption:.

+

We now need to tell Sphinx to use markdown files. To do this, we open +conf.py and replace the line:

+
extensions = []
+
+
+

with this line so that Sphinx can parse Markdown files:

+
extensions = ['myst_parser']
+
+
+

Let’s create the file some-feature.md (in Markdown format) which we have just listed in +index.rst (which uses reStructured Text format).

+
# Some feature
+
+## Subsection
+
+Exciting documentation in here.
+Let's make a list (empty surrounding lines required):
+
+- item 1
+
+  - nested item 1
+  - nested item 2
+
+- item 2
+- item 3
+
+
+

We now build the site:

+
$ ls -1
+
+_static
+_templates
+conf.py
+index.rst
+make.bat
+Makefile
+some-feature.md
+
+$ sphinx-build . _build
+
+... lots of output ...
+build succeeded.
+
+The HTML pages are in _build.
+
+$ ls -1 _build
+
+_sources
+_static
+genindex.html
+index.html
+objects.inv
+search.html
+searchindex.js
+some-feature.html
+
+
+

Now open the file _build/index.html in your browser.

+
    +

  • Linux users, type:

    +
    $ xdg-open _build/index.html
+
    +
    +
    • +

  • macOS users, type:

    +
    $ open _build/index.html
+
    +
    +
    • +

  • Windows users, type:

    +
    $ start _build/index.html
+
    +
    +
    • +

  • If the above does not work: +Enter file:///home/user/doc-example/_build/index.html in your browser (adapting the path to your case).

    • +
+

Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere.

+

Note that you can change the styling by editing conf.py and changing the value html_theme +(for instance you can set it to sphinx_rtd_theme (if you have that Python package installed) +to have the Read the Docs look).

+
+
+
+

Exercise: Adding more Sphinx content

+
+

Sphinx-2: Add more content to your example documentation

+
    +

  1. Add a entry below some-feature.md labeled another-feature.md (or a better name) to the index.rst file.

    2. +

  2. Create a file another-feature.md in the same directory as the index.rst file.

    3. +

  3. Add some content to another-feature.md, rebuild with sphinx-build . _build, and refresh the browser to look at the results.

    4. +

  4. Use the MyST Typography page as help.

    5. +
+

Experiment with the following Markdown syntax:

+
    +

  • *Emphasized text* and **bold text**

    • +

  • Headings:

    • +
+
# Level 1
+
+## Level 2
+
+### Level 3
+
+#### Level 4
+
+
+
    +

  • An image: ![alt text](image.png)

    • +

  • [A link](https://www.example.org)

    • +

  • Numbered lists (numbers adjusted automatically):

    • +
+
1. item 1
+2. item 2
+3. item 3
+1. item 4
+1. item 5
+
+
+
    +

  • Simple tables:

    • +
+
| No.  |  Prime |
+| ---- | ------ |
+| 1    |  No    |
+| 2    |  Yes   |
+| 3    |  Yes   |
+| 4    |  No    |
+
+
+
    +

  • Code blocks:

    • +
+
The following is a Python code block:
+```python
+  def hello():
+      print("Hello world")
+```
+
+And this is a C code block:
+```c
+#include <stdio.h>
+int main()
+{
+    printf("Hello, World!");
+    return 0;
+}
+```
+
+
+
    +

  • You could include an external file (here we assume a file called “example.py” +exists; at the same time we highlight lines 2 and 3):

    • +
+
```{literalinclude} example.py
+:language: python
+:emphasize-lines: 2-3
+```
+
+
+
    +

  • We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the +myst-nb extension to be installed.

    • +
+
+
+
+

Exercise: Sphinx and LaTeX

+
+

Sphinx-3: Rendering (LaTeX) math equations

+

Math equations should work out of the box. In some older versions, you might need +to edit conf.py and add sphinx.ext.mathjax:

+
extensions = ['myst_parser', 'sphinx.ext.mathjax']
+
+
+

Try this (result below):

+
This creates an equation:
+```{math}
+a^2 + b^2 = c^2
+```
+
+This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text.
+
+
+

This creates an equation:

+
+\[a^2 + b^2 = c^2\]
+

This is an in-line equation, \(a^2 + b^2 = c^2\), embedded in text.

+
+
+
+

Exercise: Sphinx autodoc

+
+

(optional) Sphinx-4: Auto-generating documentation from Python docstrings

+
    +

  1. Write some docstrings in functions and/or class definitions of an example python module:

    2. +
+
def multiply(a: float, b: float) -> float:
+    """
+    Multiply two numbers.
+
+    :param a: First number.
+    :param b: Second number.
+    :return: The product of a and b.
+    """
+    return a * b
+
+
+
    +

  1. In the file conf.py modify “extensions” and add 3 lines:

    2. +
+
extensions = ['myst_parser', "sphinx.ext.autodoc"]
+
+autodoc2_packages = [
+    "multiply.py"
+]
+
+
+
    +

  1. List apidocs/index in the toctree in index.rst.

    2. +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+   apidocs/index
+
+
+
    +

  1. Re-build the documentation and check the “API reference” section.

    2. +
+
+
+
+

Confused about reStructuredText vs. Markdown vs. MyST?

+
    +

  • At the beginning there was reStructuredText and Sphinx was built for reStructuredText.

    • +

  • Independently, Markdown was invented and evolved into a couple of flavors.

    • +

  • Markdown became more and more popular but was limited compared to reStructuredText.

    • +

  • Later, MyST +was invented to be able to write +something that looks like Markdown but in addition can do everything that +reStructuredText can do with extra directives.

    • +
+
+
+

Good to know

+
    +

  • The _build directory is a generated directory +and should not be part of the Git repository. We recommend to add _build +to .gitignore to prevent you from accidentally adding files below +_build to the Git repository.

    • +

  • sphinx-autobuild +provides a local web server that will automatically refresh your view +every time you save a file - which makes writing and testing much easier.

    • +

  • This is useful if you want to check the integrity of all internal and external links:

    +
    $ sphinx-build . -W -b linkcheck _build
+
    +
    +
    • +
+
+
+

References

+ +
+

Keypoints

+
    +

  • Sphinx and Markdown is a powerful duo for writing documentation.

    • +

  • Another option is to use reStructuredText, see the Sphinx documentation +and the quick-reference

    • +

  • In the next episode we will learn how to deploy the documentation to a cloud service and update it +upon every git push.

    • +
+
+
+
+
+

Deploying Sphinx documentation to GitHub Pages

+
+

Objectives

+
    +

  • Create a basic workflow which you can take home and adapt for your project.

    • +
+
+
+

GitHub Pages

+
    +

  • Serve websites from a GitHub repository.

    • +

  • It is no problem to serve using your own URL https://myproject.org instead of https://myuser.github.io/myproject.

    • +
+
+
+

GitHub Actions

+
    +

  • Automatically runs code when your repository changes.

    • +

  • We will let it run sphinx-build and make the result available to GitHub Pages.

    • +
+
+
+

Our goal: putting it all together

+
    +

  • Host source code with documentation sources on a public Git repository.

    • +

  • Each time we git push to the repository, a GitHub action triggers to +rebuild the documentation.

    • +

  • The documentation is pushed to a separate branch called ‘gh-pages’.

    • +
+
+
+
+

Exercise - Deploy Sphinx documentation to GitHub Pages

+
+

GH-Pages-1: Deploy Sphinx documentation to GitHub Pages

+

In this exercise we will create an example repository on GitHub and +deploy it to GitHub Pages.

+

Step 1: Go to the documentation-example project template +on GitHub and create a copy to your namespace.

+
    +

  • Give it a name, for instance “documentation-example”.

    • +

  • You don’t need to “Include all branches”

    • +

  • Click on “Create a repository”.

    • +
+

Step 2: Browse the new repository.

+
    +

  • It will look very familar to the previous episode.

    • +

  • However, we have moved the documentation part under doc/ (many projects do it this +way). But it is still a Sphinx documentation project.

    • +

  • The source code for your project could then go under src/.

    • +
+

Step 3: Add the GitHub Action to your new Git repository.

+
    +

  • Add a new file at .github/workflows/documentation.yml (either through terminal or web interface), containing:

    • +
+
name: documentation
+
+on: [push, pull_request, workflow_dispatch]
+
+permissions:
+  contents: write
+
+jobs:
+  docs:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - uses: actions/setup-python@v5
+      - name: Install dependencies
+        run: |
+          pip install sphinx sphinx_rtd_theme myst_parser
+      - name: Sphinx build
+        run: |
+          sphinx-build doc _build
+      - name: Deploy to GitHub Pages
+        uses: peaceiris/actions-gh-pages@v3
+        if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }}
+        with:
+          publish_branch: gh-pages
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: _build/
+          force_orphan: true
+
+
+
    +

  • You don’t need to understand all of the above, but you +might spot familiar commands in the run: sections.

    • +

  • After the file has been committed (and pushed), +check the action at https://github.com/USER/documentation-example/actions +(replace USER with your GitHub username).

    • +
+

Step 4: Enable GitHub Pages

+
    +

  • On GitHub go to “Settings” -> “Pages”.

    • +

  • In the “Source” section, choose “Deploy from a branch” in the dropdown menu.

    • +

  • In the “Branch” section choose “gh-pages” and “/root” in the dropdown menus and click +save.

    • +

  • You should now be able to verify the pages deployment in the Actions list).

    • +
+

Step 5: Verify the result

+
    +

  • Your site should now be live on https://USER.github.io/documentation-example/ (replace USER).

    • +
+

Step 6: Verify refreshing the documentation

+
    +

  • Commit some changes to your documentation

    • +

  • Verify that the documentation website refreshes after your changes (can take few seconds or a minute)

    • +
+
+
+
+

Alternatives to GitHub Pages

+
    +

  • GitLab Pages +and GitLab CI can create a very similar workflow.

    • +

  • Read the Docs is the most common alternative to +hosting in GitHub Pages.

    • +

  • Sphinx builds HTML files (this is what static site generators do), and you +can host them anywhere, for example your university’s web space or own web server.

    • +
+
+
+

Migrating your own documentation to Sphinx

+
    +

  • First convert your documentation to Markdown using Pandoc.

    • +

  • Create a file index.rst which lists all other Markdown files and provides the +table of contents.

    • +

  • Add a conf.py file. You can generate a starting point for conf.py and +index.rst with sphinx-quickstart, or you can take the examples in this +lesson as inspiration.

    • +

  • Test building the documentation locally with sphinx-build.

    • +

  • Once this works, follow the above steps to build and deploy to GitHub Pages or some other web space.

    • +
+
+
+

Keypoints

+
    +

  • Sphinx makes simple HTML (and more) files, so it is easy to find a place to host them.

    • +

  • Github Pages + Github Actions provides a convenient way to make +sites and host them on the web.

    • +
+
+
+
+
+

Hosting websites/homepages on GitHub Pages

+
+

Often we don’t need more than a static website

+

You can host your personal homepage or group webpage or project website on +GitHub using GitHub Pages. +GitLab and +Bitbucket +also offer a very similar solution.

+

Unless you need user authentication or a sophisticated database behind your +website, GitHub Pages can be a very nice +alternative to running your own web servers. This is how all +https://coderefinery.org material is hosted.

+
+
+

How to find the website URL

+

Here below, NAMESPACE can either be a username or an organizational account.

+

Personal homepage or organizational homepage

+
    +

  • Generated URL: https://NAMESPACE.github.io

    • +

  • Generated from: https://github.com/NAMESPACE/NAMESPACE.github.io (main branch)

    • +
+

Project website

+
    +

  • Generated URL: https://NAMESPACE.github.io/REPOSITORY

    • +

  • Generated from: https://github.com/NAMESPACE/REPOSITORY (gh-pages branch)

    • +
+
+
+

Exercise - Your own website on GitHub Pages

+
+

GH-Pages-2: Host your own github page

+
    +

  • Deploy own website reusing a template:

    +
      +

    • Follow the steps from GitHub Pages https://pages.github.com/. +The documentation there is very good so there is no need for us to duplicate the screenshots.

      • +

    • Select “Project site”.

      • +

    • Select “Choose a theme”.

      • +

    • Follow the instructions on https://pages.github.com/.

      • +

    • Browse your page on https://USERNAME.github.io/REPOSITORY (adjust “USERNAME” and “REPOSITORY”).

      • +
    +
    • +

  • Make a change to the repository after the webpage has been deployed for the first time.

    • +

  • Please wait few minutes and then verify that the change shows up on the website.

    • +
+
+
+

Real-life examples

+ +
+
+

Note

+
    +

  • You can use HTML directly or another static site generator if you prefer +to not use the default Jekyll.

    • +

  • It is no problem to use a custom domain instead of *.github.io.

    • +
+
+
+
+
+

Summary

+
+

Questions

+
    +

  • What recommendations can we take home?

    • +
+
+
+
+

There is not the one right way: it is always a balance

+

Jupyter notebooks can be good documentation for scripts

+
    +

  • For simple scripts and post-processing, Jupyter notebooks can form a nice +self-documenting pipeline.

    • +

  • They can be a nice way to accompany a paper that analyzed some data.

    • +
+

READMEs or Sphinx?

+
    +

  • For smaller projects READMEs can be absolutely enough.

    • +

  • If the code is closed-source (and hence nobody can see the README), you +probably prefer Sphinx (or similar).

    • +

  • If you need math equations, Sphinx might be a good fit.

    • +
+

How to make sure that code changes come together with documentation changes?

+
    +

  • Make documentation part of your code review.

    • +
+

Read the Docs or GitHub pages or both?

+
    +

  • GitHub pages typically serves one version (one branch). However, it is possible to build +several or all branches as part of a workflow.

    • +

  • Read the Docs can serve several versions (several branches/tags) at the same time.

    • +

  • Some projects use both.

    • +
+

Consider making your development tutorial-driven

+
    +

  • Writing documentation is as important as writing software.

    • +

  • Focus on how you use the software.

    • +

  • If there is no tutorial on it, the feature “doesn’t exist”.

    • +

  • Don’t keep tutorial in sync with code, keep code in sync with tutorial - change the tutorial first.

    • +

  • Read more in this fantastic slide-deck about tutorial-driven development.

    • +
+
+
+
+
+
+

List of exercises

+
+

Full list

+

This is a list of all exercises and solutions in this lesson, mainly +as a reference for helpers and instructors. This list is +automatically generated from all of the other pages in the lesson. +Any single teaching event will probably cover only a subset of these, +depending on their interests.

+
+
+
+

Instructor guide

+
+

Why we teach this lesson

+

Everyone should document their code, even if they’re working alone.

+

These are the main points:

+
    +

  • Code documentation has to be versionnable and branchable

    • +

  • Code documentation should be tracked together with the source code

    • +

  • README is often enough

    • +
+

Please do not skim over the two above points. Please take few minutes to +explain why documentation (sources) should be tracked together with the source +code. Please discuss this aspect with workshop participants and connect it to +reproducibility. This is for me (Radovan) the most important take-home +message.

+

Specific motivations:

+
    +

  • Code documentation becomes quickly unmanageable if not part of the source code.

    • +

  • It helps people to quickly use your code thus reducing the time spent to explain over and again to new users.

    • +

  • It helps people to collaborate.

    • +

  • It improves the design of your code.

    • +
+
+
+

Intended learning outcomes

+

By the end of this lesson, learners should:

+
    +

  • Understand the importance of writing code documentation together with the source code

    • +

  • Know what makes a good documentation

    • +

  • Learn what tools can be used for writing documentation

    • +

  • Be able to motivate a balanced decision: sometimes READMEs are absolutely enough

    • +
+
+
+

Timing

+

As an instructor you should prepare all bullet points but do not go through +each bullet point in detail. Only highlight the main points and rather give +time for a discussion. Leave details for a later lecture for those who want to +find out more. If you go through each bullet point in detail, the motivation +can easily take up 30 minutes and you will run out of time.

+

The lesson does not fit into 1.5 hours if you go through everything. Optimize +for discussions and prepare well to be able to jump over bullet points which +can be left for a later lecture. Some sections can be skipped if needed (see +below). However, we recommend to have a discussion with your learners to make +them aware of what the training material contains.

+
    +

  • Do not insist on practicing Markdown or RST syntax.

    • +

  • The section Rendering (LaTeX) math equations may be optional if your +attendees do not have to deal with equations.

    • +

  • In the GitHub Pages episode, the +goal is not anymore to write code documentation but to show how to build +project website with GitHub. If time is tight, the GitHub pages episode can be +skipped or can be done as demonstration instead of exercise.

    • +
+
+
+

Detailed schedule

+
    +

  • 09:00 - 09:10 Motivation and tools

    +
      +

    • create a wishlist in collaborative notes

      • +
    +
    • +

  • 09:10 - 09:20 Writing good README files

    +
      +

    • brief discussion

      • +
    +
    • +

  • 09:20 - 09:40 Exercises: README-1, README-2, README-3 (choose one or multiple)

    • +

  • 09:40 - 10:00 Sphinx and Markdown: Sphinx-1 as type along

    • +

  • 10:00 - 10:10 Break

    • +

  • 10:10 - 10:40 Exercises, Sphinx-2, Sphinx-3, GH-Pages-1

    • +

  • 10:40 - 11:00 Discussion, GH Pages, Summary

    • +
+
+
+

Place this lesson towards the end of the workshop

+

Reason is that with collaborative Git we can create more interesting +documentation exercises. Currently there are some elements of forking and +pushing and this is only really introduced on day two. We have tried this +lesson on day one and it felt too early and disconnected/abrupt. It works best +after the reproducibility lesson since we then reuse the example and it feels +familiar.

+
+
+

Troubleshooting

+
+

Character encoding issues

+

Can arise when using non-utf8 characters in conf.py. Diagnose this with file -i conf.py +and locale.

+
+
+
+

Live better than reading the website material

+

It is better to demonstrate the commands live and type-along. Ideally connecting +to examples discussed earlier.

+

In online workshops most of the type-along becomes group exercise work where groups +can share screen and discuss.

+
+
+

Field reports

+
+

2022 September

+

We were pressed for time (we started 5-10 minutes late, relative to +the schedule below), so we made most of the first lessons fast. In +the schedule below, note that we had the first 10 minutes for +“Motivation” and “Popular tools”, which we didn’t fully realize so +that put us even further behind. Doing these introduction +parts quickly was hard but was probably worth it since we had plenty +of time in the end. For the “tools”, one person summarized the point +of each section on the page quickly. The README episode was done +quickly, we basically skipped the exercises to get to Sphinx, and this +put us back on schedule.

+

For Sphinx, we did it a lot like you see in the schedule: first +exercise (the basic setup) was type-along, but it was a bit too much +to do in the 10 minutes we had allotted (we typed too fast). But, +people then had a nice long time to make it up and do everything. It +seemed to work well. The GitHub pages deployment could then be done +as a nice, slow demo, and we had plenty of time to ask questions.

+

Overall, I think this was the right track, but we could have practiced +doing the first parts even faster, and warned people that we focus on +the Sphinx exercises.

+
+
+
+
+

Credit and license

+

This material is provided by CodeRefinery under the licenses stated below.

+
+

Website template

+

The website template is maintained by CodeRefinery +and rendered with sphinx-lesson: structured lessons with Sphinx.

+
+
+

Instructional material

+

All CodeRefinery instructional material is made available under the +Creative Commons Attribution license (CC-BY-4.0). +The following is a human-readable summary of (and not a substitute for) +the full legal text of the CC-BY-4.0 license.

+

You are free:

+
    +

  • to Share - copy and redistribute the material in any medium or format

    • +

  • to Adapt - remix, transform, and build upon the material

    • +
+

for any purpose, even commercially. The licensor cannot revoke these freedoms as long as you follow these license terms:

+
    +

  • Attribution - You must give appropriate credit +(mentioning that your work is derived from work that is Copyright +(c) CodeRefinery and, where practical, linking to +https://coderefinery.org, provide +a link to the license, +and indicate if changes were made. You may do so in any +reasonable manner, but not in any way that suggests the licensor +endorses you or your use.

    • +
+

No additional restrictions - You may not apply legal terms or technological +measures that legally restrict others from doing anything the license permits. +With the understanding that:

+
    +

  • You do not have to comply with the license for elements of the material in +the public domain or where your use is permitted by an applicable exception +or limitation.

    • +

  • No warranties are given. The license may not give you all of the +permissions necessary for your intended use. For example, other +rights such as publicity, privacy, or moral rights may limit how +you use the material.

    • +
+
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+ + +
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+ +
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+
+
+ + + + \ No newline at end of file diff --git a/singlehtml/objects.inv b/singlehtml/objects.inv new file mode 100644 index 0000000..902c71f Binary files /dev/null and b/singlehtml/objects.inv differ diff --git a/sphinx/index.html b/sphinx/index.html new file mode 100644 index 0000000..b88a618 --- /dev/null +++ b/sphinx/index.html @@ -0,0 +1,588 @@ + + + + + + + Sphinx and Markdown — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
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+ +
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+ +
+

Sphinx and Markdown

+
+

Objectives

+
    +

  • Understand how static site generators build websites out of plain +text files.

    • +

  • Create example Sphinx documentation and learn some Markdown along the way.

    • +
+
+

We will take the first steps in creating documentation using Sphinx, and learn some +MyST flavored Markdown syntax along the way.

+
+

This lesson is built with Sphinx

+

Try to compare the source +code +and the result side by side.

+
+

Our goal in this episode is to build HTML pages locally on our computers.

+
+

Before we start, let us verify whether we have the software we need

+

You may need to activate your CodeRefinery conda environment we set up +in the installation instructions. This was covered as part of the +installation instructions, but the most usual command to do this is:

+
$ conda activate coderefinery
+
+
+

Check whether Python is available +(you should see a version; precise version is not so important):

+
$ python --version
+
+Python 3.11.5
+
+
+

Check whether Sphinx is available +(you should see a version; precise version is not so important):

+
$ sphinx-build --version
+
+sphinx-build 5.3.0
+
+
+

Check whether the quickstart tool is available +(you should see a version; precise version is not so important):

+
$ sphinx-quickstart --version
+
+sphinx-quickstart 5.3.0
+
+
+

Check whether MyST parser is available +(you should see no output):

+
$ python -c "import myst_parser"
+
+
+

If the above commands produce an error +(command not found or module not found or ModuleNotFoundError), +please follow our +installation instructions. +But please don’t give up if you don’t have these - the episodes after this one will work even without these +tools.

+
+
+

Exercise: Sphinx quickstart

+
+

Sphinx-1: Generate the basic documentation template

+

Create a directory for the example documentation, step into it, and inside +generate the basic documentation template:

+
$ mkdir doc-example
+$ cd doc-example
+$ sphinx-quickstart
+
+
+

The quickstart utility will ask you some questions. For this exercise, you can go +with the default answers except to specify a project name, author name, and project release:

+
> Separate source and build directories (y/n) [n]: <hit enter>
+> Project name: <your project name>
+> Author name(s): <your name>
+> Project release []: 0.1
+> Project language [en]: <hit enter>
+
+
+

A couple of files and directories are created:

+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + +

File/directory

Contents

conf.py

Documentation configuration file

index.rst

Main file in Sphinx

_build/

Directory where docs are built (you can decide the name)

_templates/

Your own HTML templates

_static/

Static files (images, styles, etc.) copied to output directory on build

Makefile

Makefile to build documentation using make

make.bat

Makefile to build documentation using make (Windows)

+

Makefile and make.bat (for Windows) are build scripts that wrap the sphinx commands, but +we will be doing it explicitly.

+

Let’s have a look at the index.rst file, which is the main file of your documentation:

+
.. myproject documentation master file, created by
+   sphinx-quickstart on Sat Sep 23 17:35:26 2023.
+   You can adapt this file completely to your liking, but it should at least
+   contain the root `toctree` directive.
+
+Welcome to myproject's documentation!
+=====================================
+
+.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+
+Indices and tables
+==================
+
+* :ref:`genindex`
+* :ref:`modindex`
+* :ref:`search`
+
+
+
    +

  • We will not use the Indices and tables section now, so remove it and everything below.

    • +

  • The top four lines, starting with .., are a comment.

    • +

  • The next lines are the table of contents. We can add content below:

    • +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+
+
+

Note that some-feature.md needs to be indented to align with :caption:.

+

We now need to tell Sphinx to use markdown files. To do this, we open +conf.py and replace the line:

+
extensions = []
+
+
+

with this line so that Sphinx can parse Markdown files:

+
extensions = ['myst_parser']
+
+
+

Let’s create the file some-feature.md (in Markdown format) which we have just listed in +index.rst (which uses reStructured Text format).

+
# Some feature
+
+## Subsection
+
+Exciting documentation in here.
+Let's make a list (empty surrounding lines required):
+
+- item 1
+
+  - nested item 1
+  - nested item 2
+
+- item 2
+- item 3
+
+
+

We now build the site:

+
$ ls -1
+
+_static
+_templates
+conf.py
+index.rst
+make.bat
+Makefile
+some-feature.md
+
+$ sphinx-build . _build
+
+... lots of output ...
+build succeeded.
+
+The HTML pages are in _build.
+
+$ ls -1 _build
+
+_sources
+_static
+genindex.html
+index.html
+objects.inv
+search.html
+searchindex.js
+some-feature.html
+
+
+

Now open the file _build/index.html in your browser.

+
    +

  • Linux users, type:

    +
    $ xdg-open _build/index.html
+
    +
    +
    • +

  • macOS users, type:

    +
    $ open _build/index.html
+
    +
    +
    • +

  • Windows users, type:

    +
    $ start _build/index.html
+
    +
    +
    • +

  • If the above does not work: +Enter file:///home/user/doc-example/_build/index.html in your browser (adapting the path to your case).

    • +
+

Hopefully you can now see a website. If so, then you are able to build Sphinx pages locally. +This is useful to check how things look before pushing changes to GitHub or elsewhere.

+

Note that you can change the styling by editing conf.py and changing the value html_theme +(for instance you can set it to sphinx_rtd_theme (if you have that Python package installed) +to have the Read the Docs look).

+
+
+
+

Exercise: Adding more Sphinx content

+
+

Sphinx-2: Add more content to your example documentation

+
    +

  1. Add a entry below some-feature.md labeled another-feature.md (or a better name) to the index.rst file.

    2. +

  2. Create a file another-feature.md in the same directory as the index.rst file.

    3. +

  3. Add some content to another-feature.md, rebuild with sphinx-build . _build, and refresh the browser to look at the results.

    4. +

  4. Use the MyST Typography page as help.

    5. +
+

Experiment with the following Markdown syntax:

+
    +

  • *Emphasized text* and **bold text**

    • +

  • Headings:

    • +
+
# Level 1
+
+## Level 2
+
+### Level 3
+
+#### Level 4
+
+
+
    +

  • An image: ![alt text](image.png)

    • +

  • [A link](https://www.example.org)

    • +

  • Numbered lists (numbers adjusted automatically):

    • +
+
1. item 1
+2. item 2
+3. item 3
+1. item 4
+1. item 5
+
+
+
    +

  • Simple tables:

    • +
+
| No.  |  Prime |
+| ---- | ------ |
+| 1    |  No    |
+| 2    |  Yes   |
+| 3    |  Yes   |
+| 4    |  No    |
+
+
+
    +

  • Code blocks:

    • +
+
The following is a Python code block:
+```python
+  def hello():
+      print("Hello world")
+```
+
+And this is a C code block:
+```c
+#include <stdio.h>
+int main()
+{
+    printf("Hello, World!");
+    return 0;
+}
+```
+
+
+
    +

  • You could include an external file (here we assume a file called “example.py” +exists; at the same time we highlight lines 2 and 3):

    • +
+
```{literalinclude} example.py
+:language: python
+:emphasize-lines: 2-3
+```
+
+
+
    +

  • We can also use Jupyter notebooks (*.ipynb) with Sphinx. It requires the +myst-nb extension to be installed.

    • +
+
+
+
+

Exercise: Sphinx and LaTeX

+
+

Sphinx-3: Rendering (LaTeX) math equations

+

Math equations should work out of the box. In some older versions, you might need +to edit conf.py and add sphinx.ext.mathjax:

+
extensions = ['myst_parser', 'sphinx.ext.mathjax']
+
+
+

Try this (result below):

+
This creates an equation:
+```{math}
+a^2 + b^2 = c^2
+```
+
+This is an in-line equation, {math}`a^2 + b^2 = c^2`, embedded in text.
+
+
+

This creates an equation:

+
+\[a^2 + b^2 = c^2\]
+

This is an in-line equation, \(a^2 + b^2 = c^2\), embedded in text.

+
+
+
+

Exercise: Sphinx autodoc

+
+

(optional) Sphinx-4: Auto-generating documentation from Python docstrings

+
    +

  1. Write some docstrings in functions and/or class definitions of an example python module:

    2. +
+
def multiply(a: float, b: float) -> float:
+    """
+    Multiply two numbers.
+
+    :param a: First number.
+    :param b: Second number.
+    :return: The product of a and b.
+    """
+    return a * b
+
+
+
    +

  1. In the file conf.py modify “extensions” and add 3 lines:

    2. +
+
extensions = ['myst_parser', "sphinx.ext.autodoc"]
+
+autodoc2_packages = [
+    "multiply.py"
+]
+
+
+
    +

  1. List apidocs/index in the toctree in index.rst.

    2. +
+
.. toctree::
+   :maxdepth: 2
+   :caption: Contents:
+
+   some-feature.md
+   apidocs/index
+
+
+
    +

  1. Re-build the documentation and check the “API reference” section.

    2. +
+
+
+
+

Confused about reStructuredText vs. Markdown vs. MyST?

+
    +

  • At the beginning there was reStructuredText and Sphinx was built for reStructuredText.

    • +

  • Independently, Markdown was invented and evolved into a couple of flavors.

    • +

  • Markdown became more and more popular but was limited compared to reStructuredText.

    • +

  • Later, MyST +was invented to be able to write +something that looks like Markdown but in addition can do everything that +reStructuredText can do with extra directives.

    • +
+
+
+

Good to know

+
    +

  • The _build directory is a generated directory +and should not be part of the Git repository. We recommend to add _build +to .gitignore to prevent you from accidentally adding files below +_build to the Git repository.

    • +

  • sphinx-autobuild +provides a local web server that will automatically refresh your view +every time you save a file - which makes writing and testing much easier.

    • +

  • This is useful if you want to check the integrity of all internal and external links:

    +
    $ sphinx-build . -W -b linkcheck _build
+
    +
    +
    • +
+
+
+

References

+ +
+

Keypoints

+
    +

  • Sphinx and Markdown is a powerful duo for writing documentation.

    • +

  • Another option is to use reStructuredText, see the Sphinx documentation +and the quick-reference

    • +

  • In the next episode we will learn how to deploy the documentation to a cloud service and update it +upon every git push.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/summary/index.html b/summary/index.html new file mode 100644 index 0000000..c4adac1 --- /dev/null +++ b/summary/index.html @@ -0,0 +1,193 @@ + + + + + + + Summary — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Summary

+
+

Questions

+
    +

  • What recommendations can we take home?

    • +
+
+
+
+

There is not the one right way: it is always a balance

+

Jupyter notebooks can be good documentation for scripts

+
    +

  • For simple scripts and post-processing, Jupyter notebooks can form a nice +self-documenting pipeline.

    • +

  • They can be a nice way to accompany a paper that analyzed some data.

    • +
+

READMEs or Sphinx?

+
    +

  • For smaller projects READMEs can be absolutely enough.

    • +

  • If the code is closed-source (and hence nobody can see the README), you +probably prefer Sphinx (or similar).

    • +

  • If you need math equations, Sphinx might be a good fit.

    • +
+

How to make sure that code changes come together with documentation changes?

+
    +

  • Make documentation part of your code review.

    • +
+

Read the Docs or GitHub pages or both?

+
    +

  • GitHub pages typically serves one version (one branch). However, it is possible to build +several or all branches as part of a workflow.

    • +

  • Read the Docs can serve several versions (several branches/tags) at the same time.

    • +

  • Some projects use both.

    • +
+

Consider making your development tutorial-driven

+
    +

  • Writing documentation is as important as writing software.

    • +

  • Focus on how you use the software.

    • +

  • If there is no tutorial on it, the feature “doesn’t exist”.

    • +

  • Don’t keep tutorial in sync with code, keep code in sync with tutorial - change the tutorial first.

    • +

  • Read more in this fantastic slide-deck about tutorial-driven development.

    • +
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/tools/index.html b/tools/index.html new file mode 100644 index 0000000..8317c08 --- /dev/null +++ b/tools/index.html @@ -0,0 +1,370 @@ + + + + + + + Popular tools and solutions — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ + + + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/wishlist/index.html b/wishlist/index.html new file mode 100644 index 0000000..0318550 --- /dev/null +++ b/wishlist/index.html @@ -0,0 +1,292 @@ + + + + + + + Motivation and wishlist — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Motivation and wishlist

+
+

Motivation

+
+

Motivation-1: Why documenting code?

+

Use the collaborative document:

+
    +

  • Is project documentation important? Why?

    • +

  • How would you describe a useful documentation?

    • +

  • How can you motivate your colleagues to contribute to the documentation?

    • +
+
+ +
+
+

What do we expect from a suitably good documentation?

+
+

Note

+

Documentation comes in different forms - what is documentation?

+
    +

  • Tutorials: learning-oriented, allows the newcomer to get started

    • +

  • How-to guides: goal-oriented, shows how to solve a specific problem

    • +

  • Explanation: understanding-oriented, explains a concept

    • +

  • Reference: information-oriented, describes the machinery

    • +
+

Read more:

+ +
+

There is no one size fits all: often for small projects a README.md or +README.rst can be enough (more about these formats later).

+
+
+

Creating a checklist

+
+

Motivation-2: Create a wishlist

+

Use the collaborative document:

+
    +

  • Let us create a wishlist for how we would like documentation to be.

    • +

  • Below are some of our ideas but please do not look at them yet.

    • +

  • We are sure you will come up with ideas we did not think about.

    • +
+
+ +
+

Documentation checklist

+

Which items to include depends on the number of users apart from yourself.

+
    +

  • Purpose

    • +

  • Authors

    • +

  • License

    • +

  • Recommended citation

    • +

  • Copy-paste-able example to get started

    • +

  • Dependencies and their versions or version ranges

    • +

  • Installation instructions

    • +

  • Tutorials covering key functionality

    • +

  • Reference documentation (e.g. API) covering all functionality

    • +

  • How do you want to be asked questions (mailing list or forum or chat or issue tracker)

    • +

  • Possibly a FAQ section

    • +

  • Contribution guide

    • +
+
+
+

Keypoints

+
    +

  • Documentation is part of the code and should be versionable.

    • +

  • Documentation (sources) should be tracked with the corresponding code in the same repository.

    • +

  • Use standard markup languages such as reStructuredText or Markdown.

    • +
+
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file diff --git a/writing-readme-files/index.html b/writing-readme-files/index.html new file mode 100644 index 0000000..e7ded2c --- /dev/null +++ b/writing-readme-files/index.html @@ -0,0 +1,260 @@ + + + + + + + Writing good README files — How to document your research software documentation + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + +
+ +
+
+
+ +
+
+
+
+ +
+

Writing good README files

+

The README file (often README.md or README.rst) is usually the first thing +users/collaborators see when visiting your GitHub repository.

+

Use it to communicate important information about your project! For many +smaller or mid-size projects, this is enough documentation. It’s not that hard +to make a basic one, and it’s easy to expand as needed.

+
+

Exercise: Have fun testing some README features

+
+

Exercise README-1: Have fun testing some README features you may not have heard about

+
    +

  • Test the effect of adding the following to your GitHub README (read +more):

    +
    > [!NOTE]
+> Highlights information that users should take into account, even when skimming.
+
+> [!IMPORTANT]
+> Crucial information necessary for users to succeed.
+
+> [!WARNING]
+> Critical content demanding immediate user attention due to potential risks.
+
    +
    +
    • +

  • For more detailed descriptions which you don’t want to show by default you +might find this useful (please try it out):

    +
    <details>
+<summary>
+Short summary
+</summary>
+
+Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod
+tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam,
+quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo
+consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse
+cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non
+proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+</details>
+
    +
    +
    • +

  • Would you like to add a badge like this one: please replace with alt text?

    +

    Badge that links to a website (see also https://shields.io/):

    +
    [![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)](https://example.org)
+
    +
    +

    Badge without link:

    +
    ![please replace with alt text](https://img.shields.io/badge/anytext-youlike-blue)
+
    +
    +
    • +

  • Know about other tips and tricks? Please share them (send a pull request to this lesson).

    • +
+
+
+
+

Exercise: Improve the README for your own project

+
+

Exercise README-2: Draft or improve a README for one of your recent projects

+

Try to draft a brief README or review a README which you have written for one +of your projects.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • Use the checklist which we have discussed earlier.

    • +

  • Think about the user (which can be a future you) of your project, what does this user need to know to use or +contribute to the project? And how do you make your project attractive to use or contribute to?

    • +

  • (Optional): Try the https://hemingwayapp.com/ to analyse your README file and make your writing bold and clear.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Exercise: Discuss the README of a project that you use

+
+

Exercise README-3: Review and discuss a README of a project that you have used

+

In this exercise we will review and discuss a README of a project which you +have used. You can also review a library which is popular in your domain of +research and discuss their README.

+
    +

  • You can do that either by screensharing and discussing or working individually.

    • +

  • When discussing other people’s projects please remember to be respectful and +constructive. The goal of this exercise is not to criticize other projects but +to learn from other projects and to collect the aspects that you enjoyed +finding in a README and to also collect aspects which you have searched for but +which are sometimes missing.

    • +

  • Please note observations and recommendations in the collaborative notes.

    • +
+
+
+
+
+

Table of contents in README files

+
    +

  • GitHub automatically generates a table of contents for README.md files.

    • +

  • On GitLab you can generate a TOC in Markdown with:

    +
    [[_TOC_]]
+
    +
    +
    • +

  • With RST you can generate a table of contents (TOC) automatically by adding:

    +
    .. contents:: Table of Contents
+
    +
    +
    • +
+
+
+ + +
+
+ +
+
+
+
+ + + + \ No newline at end of file