Skip to content

Latest commit

 

History

History
957 lines (727 loc) · 35.7 KB

CONTRIBUTING.md

File metadata and controls

957 lines (727 loc) · 35.7 KB
Raw

Contributing to MLflow

We welcome community contributions to MLflow. This page provides useful information about contributing to MLflow.

Table of Contents

Governance

Governance of MLflow is conducted by the Technical Steering Committee (TSC), which currently includes the following members:

The founding technical charter can be found here.

Core Members

MLflow is currently maintained by the following core members with significant contributions from hundreds of exceptionally talented community members.

Contribution process

The MLflow contribution process starts with filing a GitHub issue. MLflow defines four categories of issues: feature requests, bug reports, documentation fixes, and installation issues. Details about each issue type and the issue lifecycle are discussed in the MLflow Issue Policy.

MLflow committers actively triage and respond to GitHub issues. In general, we recommend waiting for feedback from an MLflow committer or community member before proceeding to implement a feature or patch. This is particularly important for significant changes, and will typically be labeled during triage with needs design.

After you have agreed upon an implementation strategy for your feature or patch with an MLflow committer, the next step is to introduce your changes (see developing changes) as a pull request against the MLflow Repository (we recommend pull requests be filed from a non-master branch on a repository fork) or as a standalone MLflow Plugin. MLflow committers actively review pull requests and are also happy to provide implementation guidance for Plugins.

Once your pull request against the MLflow Repository has been merged, your corresponding changes will be automatically included in the next MLflow release. Every change is listed in the MLflow release notes and Changelog.

Congratulations, you have just contributed to MLflow. We appreciate your contribution!

Contribution guidelines

In this section, we provide guidelines to consider as you develop new features and patches for MLflow.

Write designs for significant changes

For significant changes to MLflow, we recommend outlining a design for the feature or patch and discussing it with an MLflow committer before investing heavily in implementation. During issue triage, we try to proactively identify issues require design by labeling them with needs design. This is particularly important if your proposed implementation:

  • Introduces changes or additions to the MLflow REST API
    • The MLflow REST API is implemented by a variety of open source and proprietary platforms. Changes to the REST API impact all of these platforms. Accordingly, we encourage developers to thoroughly explore alternatives before attempting to introduce REST API changes.
  • Introduces new user-facing MLflow APIs
    • MLflow's API surface is carefully designed to generalize across a variety of common ML operations. It is important to ensure that new APIs are broadly useful to ML developers, easy to work with, and simple yet powerful.
  • Adds new library dependencies to MLflow
  • Makes changes to critical internal abstractions. Examples include: the Tracking Artifact Repository, the Tracking Abstract Store, and the Model Registry Abstract Store.

Make changes backwards compatible

MLflow's users rely on specific platform and API behaviors in their daily workflows. As new versions of MLflow are developed and released, it is important to ensure that users' workflows continue to operate as expected. Accordingly, please take care to consider backwards compatibility when introducing changes to the MLflow code base. If you are unsure of the backwards compatibility implications of a particular change, feel free to ask an MLflow committer or community member for input.

In addition to public APIs, any Python APIs within MLflow that are designated with the annotation @developer_stable must remain backwards compatible. Any contribution that adds features, modifies behavior, or otherwise changes the functionality within the scope of these classes or methods will be closely reviewed by maintainers, and additional backwards compatibility testing may be requested.

Consider introducing new features as MLflow Plugins

MLflow Plugins enable integration of third-party modules with many of MLflow’s components, allowing you to maintain and iterate on certain features independently of the MLflow Repository. Before implementing changes to the MLflow code base, consider whether your feature might be better structured as an MLflow Plugin. MLflow Plugins are a great choice for the following types of changes:

  1. Supporting a new storage platform for MLflow artifacts
  2. Introducing a new implementation of the MLflow Tracking backend (Abstract Store) for a particular platform
  3. Introducing a new implementation of the Model Registry backend (Abstract Store) for a particular platform
  4. Automatically capturing and recording information about MLflow Runs created in specific environments

MLflow committers and community members are happy to provide assistance with the development and review of new MLflow Plugins.

Finally, MLflow maintains a list of Plugins developed by community members, which is located at https://mlflow.org/docs/latest/plugins.html#community-plugins. This is an excellent way to inform MLflow users about your exciting new Plugins. To list your plugin, simply introduce a new pull request against the corresponding docs section of the MLflow code base.

For more information about Plugins, see https://mlflow.org/docs/latest/plugins.html.

Python Style Guide

Docstrings

We follow Google's Python Style Guide for writing docstrings. Make sure your docstrings adhere to this style guide.

The process for converting to a standard docstring format style is
ongoing. If you see a docstring in the code base that doesn't adhere to this formatting style and you'd like to contribute a fix, feel free to open a PR to correct the docstring formatting.

Code Style

We use pylint, black, and ruff in our CI via pre-commit Git hooks. If your code passes the CI checks, it's formatted correctly.

To validate that your local versions of the above libraries match those in the mlflow CI, refer to lint-requirements.txt. You can compare these versions with your local using pip:

pip show pylint

Setting up the repository

To set up the MLflow repository, run the following commands:

# Clone the repository
git clone --recurse-submodules [email protected]:<username>/mlflow.git
# The alternative way of cloning through https may cause permission error during branch push
# git clone --recurse-submodules https://github.com/<username>/mlflow.git

# Add the upstream repository
cd mlflow
git remote add upstream [email protected]:mlflow/mlflow.git

If you cloned the repository before without --recurse-submodules, run this command to fetch submodules:

git submodule update --init --recursive

Developing and testing MLflow

The majority of the MLflow codebase is developed in Python. This includes the CLI, Tracking Server, Artifact Repositories (e.g., S3 or Azure Blob Storage backends), and of course the Python fluent, tracking, and model APIs.

Environment Setup and Python configuration

Having a standardized development environment is advisable when working on MLflow. Creating an environment that contains the required Python packages (and versions), linting tools, and environment configurations will help to prevent unnecessary CI failures when filing a PR. A correctly configured local environment will also allow you to run tests locally in an environment that mimics that of the CI execution environment.

There are three means of setting up a base Python development environment for MLflow: GitHub Codespaces, automated (through the dev-env-setup.sh script) or manual. Even in a manual-based approach (i.e., testing functionality of a specific version of a model flavor's package version), the automated script can save a great deal of time and reduce errors in creating the environment.

GitHub Codespaces

  1. Navigate to https://github.com/mlflow/mlflow.git.
  2. Above the file list, click Code, then select Create codespace and wait for your codespace to be created.

See Quickstart for GitHub Codespaces for more information.

Automated Python development environment configuration

The automated development environment setup script (dev-env-setup.sh) can be used to setup a development environment that is configured with all of the dependencies required and the environment configuration needed to develop and locally test the Python code portions of MLflow. This CLI tool's readme can be accessed via the root of the mlflow repository as follows:

dev/dev-env-setup.sh -h

An example usage of this script that will build a development environment using virtualenv and the minimum supported Python version (to ensure compatibility) is:

dev/dev-env-setup.sh -d .venvs/mlflow-dev -q

The -q parameter is to "quiet" the pip install processes preventing stdout printing during installation.

It is advised to follow all of the prompts to ensure that the configuration of the environment, as well as git, are completed so that your PR process is as effortless as possible.

Note

Frequently, a specific version of a library is required in order to validate a feature's compatibility with older versions. Modifying your primary development environment to test one-off compatibility can be very error-prone and result in an environment that is significantly different from that of the CI test environment. To support this use case, the automated script can be used to create an environment that can be easily modified to support testing a particular version of a model flavor in an isolated environment. Simply run the dev-env-setup.sh script, activate the new environment, and install the required version for testing.

Example of installing an older version of scikit-learn to perform isolated testing:

dev/dev-env-setup.sh -d ~/.venvs/sklearn-test -q
source ~/.venvs/sklearn-test/bin/activate
pip freeze | grep "scikit-learn"
>> scikit-learn==1.0.2
pip install scikit-learn==1.0.1
pip freeze | grep "scikit-learn"
>> scikit-learn==1.0.1

Manual Python development environment configuration

The manual process is recommended if you are going to use Conda or if you are fond of terminal setup processes. To start with the manual process, ensure that you have either conda or virtualenv installed.

First, ensure that your name and email are configured in git so that you can sign your work when committing code changes and opening pull requests:

git config --global user.name "Your Name"
git config --global user.email [email protected]

For convenience, we provide a pre-commit git hook that validates that commits are signed-off and runs black --check and pylint to ensure the code will pass the lint check for python. You can enable it by running:

pre-commit install -t pre-commit -t prepare-commit-msg

Then, install the Python MLflow package from source - this is required for developing & testing changes across all languages and APIs. We recommend installing MLflow in its own conda environment by running the following from your checkout of MLflow:

conda create --name mlflow-dev-env python=3.8
conda activate mlflow-dev-env
pip install -e '.[extras]' # installs mlflow from current checkout with some useful extra utilities

If you plan on doing development and testing, you will also need to install the following into the conda environment:

pip install -r requirements/dev-requirements.txt
pip install -e '.[extras]'  # installs mlflow from current checkout
pip install -e tests/resources/mlflow-test-plugin # installs `mlflow-test-plugin` that is required for running certain MLflow tests

You may need to run conda install cmake for the test requirements to properly install, as onnx needs cmake.

Ensure Docker is installed.

Finally, we use pytest to test all Python contributed code. Install pytest:

pip install pytest

JavaScript and UI

The MLflow UI is written in JavaScript. yarn is required to run the Javascript dev server and the tracking UI. You can verify that yarn is on the PATH by running yarn -v, and install yarn if needed.

Install Node Module Dependencies

On OSX, install the following packages required by the node modules:

brew install pixman cairo pango jpeg

Linux/Windows users will need to source these dependencies using the appropriate package manager on their platforms.

Install Node Modules

Before running the Javascript dev server or building a distributable wheel, install Javascript dependencies via:

cd mlflow/server/js
yarn install
cd - # return to root repository directory

If modifying dependencies in mlflow/server/js/package.json, run yarn upgrade within mlflow/server/js to install the updated dependencies.

Launching the Development UI

We recommend Running the Javascript Dev Server - otherwise, the tracking frontend will request files in the mlflow/server/js/build directory, which is not checked into Git. Alternatively, you can generate the necessary files in mlflow/server/js/build as described in Building a Distributable Artifact.

Running the Javascript Dev Server

Install Node Modules, then run the following:

In one shell:

mlflow ui

In another shell:

cd mlflow/server/js
yarn start

The Javascript Dev Server will run at http://localhost:3000 and the MLflow server will run at http://localhost:5000 and show runs logged in ./mlruns.

Launching MLflow UI with MLflow AI Gateway for PromptLab

python dev/server.py

Testing a React Component

Add a test file in the same directory as the newly created React component. For example, CompareRunBox.test.js should be added in the same directory as CompareRunBox.js. Next, in mlflow/server/js, run the following command to start the test.

# Run tests in CompareRunBox.test.js
yarn test CompareRunBox.test.js
# Run tests with a name that matches 'plot' in CompareRunBox.test.js
yarn test CompareRunBox.test.js -t 'plot'
# Run all tests
yarn test

Linting Javascript Code

In mlflow/server/js, run the following command to lint your code.

# Note this command only fixes auto-fixable issues (e.g. remove trailing whitespace)
yarn lint:fix

R

If contributing to MLflow's R APIs, install R and make sure that you have satisfied all the Environment Setup and Python configuration.

The mlflow/R/mlflow directory contains R wrappers for the Projects, Tracking and Models components. These wrappers depend on the Python package, so first install the Python package in a conda environment:

# Note that we don't pass the -e flag to pip, as the R tests attempt to run the MLflow UI
# via the CLI, which will not work if we run against the development tracking server
pip install .

Install R, then run the following to install dependencies for building MLflow locally:

cd mlflow/R/mlflow
NOT_CRAN=true Rscript -e 'install.packages("devtools", repos = "https://cloud.r-project.org")'
NOT_CRAN=true Rscript -e 'devtools::install_deps(dependencies = TRUE)'

Build the R client via:

R CMD build .

Run tests:

R CMD check --no-build-vignettes --no-manual --no-tests mlflow*tar.gz
cd tests
NOT_CRAN=true LINTR_COMMENT_BOT=false Rscript ../.run-tests.R
cd -

Run linter:

Rscript -e 'lintr::lint_package()'

If opening a PR that makes API changes, please regenerate API documentation as described in Writing Docs and commit the updated docs to your PR branch.

When developing, you can make Python changes available in R by running (from mlflow/R/mlflow):

Rscript -e 'reticulate::conda_install("r-mlflow", "../../../.", pip = TRUE)'

Please also follow the recommendations from the Advanced R - Style Guide regarding naming and styling.

Java

If contributing to MLflow's Java APIs or modifying Java documentation, install Java and Apache Maven.

Certain MLflow modules are implemented in Java, under the mlflow/java/ directory. These are the Java Tracking API client (mlflow/java/client) and the Model Scoring Server for Java-based models like MLeap (mlflow/java/scoring).

Other Java functionality (like artifact storage) depends on the Python package, so first install the Python package in a conda environment as described in Environment Setup and Python configuration. Install the Java 8 JDK (or above), and download and install Maven. You can then build and run tests via:

cd mlflow/java
mvn compile test

If opening a PR that makes API changes, please regenerate API documentation as described in Writing Docs and commit the updated docs to your PR branch.

Python

If you are contributing in Python, make sure that you have satisfied all the Environment Setup and Python configuration, including installing pytest, as you will need it for the sections described below.

Writing Python Tests

If your PR includes code that isn't currently covered by our tests (e.g. adding a new flavor, adding autolog support to a flavor, etc.), you should write tests that cover your new code. Your tests should be added to the relevant file under tests, or if there is no appropriate file, in a new file prefixed with test_ so that pytest includes that file for testing.

If your tests require usage of a tracking URI, the pytest fixture tracking_uri_mock is automatically set up for every tests. It sets up a mock tracking URI that will set itself up before your test runs and tear itself down after.

By default, runs are logged under a local temporary directory that's unique to each test and torn down immediately after test execution. To disable this behavior, decorate your test function with @pytest.mark.notrackingurimock

Running Python Tests

Verify that the unit tests & linter pass before submitting a pull request by running:

We use Black to ensure a consistent code format. You can auto-format your code by running:

black .

Then, verify that the unit tests & linter pass before submitting a pull request by running:

pre-commit run --all-files
pytest tests --quiet --requires-ssh --ignore-flavors --serve-wheel \
  --ignore=tests/examples --ignore=tests/recipes --ignore=tests/evaluate

We use pytest to run Python tests. You can run tests for one or more test directories or files via pytest [file_or_dir] ... [file_or_dir]. For example, to run all pytest tests, you can run:

pytest tests/pyfunc

Note: Certain model tests are not well-isolated (can result in OOMs when run in the same Python process), so simply invoking pytest or pytest tests may not work. If you'd like to run multiple model tests, we recommend doing so via separate pytest invocations, e.g. pytest tests/sklearn && pytest tests/tensorflow

If opening a PR that changes or adds new APIs, please update or add Python documentation as described in Writing Docs and commit the docs to your PR branch.

Python Client

For the client, if you are adding new model flavors, follow the instructions below.

Python Model Flavors

If you are adding new framework flavor support, you'll need to modify pytest and Github action configurations so tests for your code can run properly. Generally, the files you'll have to edit are:

  1. .github/workflows/master.yml: lines where pytest runs with --ignore-flavors flag

    1. Add your tests to the ignore list, where the other frameworks are ignored
    2. Add a pytest command for your tests along with the other framework tests (as a separate command to avoid OOM issues)

  2. requirements/test-requirements.txt: add your framework and version to the list of requirements

You can see an example of a flavor PR.

Python Server

For the Python server, you can contribute in these two areas described below.

Building Protobuf Files

To build protobuf files, simply run generate-protos.sh. The required protoc version is 3.19.4. You can find the URL of a system-appropriate installation of protoc at https://github.com/protocolbuffers/protobuf/releases/tag/v3.19.4, e.g. https://github.com/protocolbuffers/protobuf/releases/download/v3.19.4/protoc-3.19.4-osx-x86_64.zip if you're on 64-bit Mac OSX.

Then, run the following to install protoc:

# Update PROTOC_ZIP if on a platform other than 64-bit Mac OSX
PROTOC_ZIP=protoc-3.19.4-osx-x86_64.zip
curl -OL https://github.com/protocolbuffers/protobuf/releases/download/v3.19.4/$PROTOC_ZIP
sudo unzip -o $PROTOC_ZIP -d /usr/local bin/protoc
sudo unzip -o $PROTOC_ZIP -d /usr/local 'include/*'
rm -f $PROTOC_ZIP

Alternatively, you can build protobuf files using Docker:

pushd dev
DOCKER_BUILDKIT=1 docker build -t gen-protos -f Dockerfile.protos .
popd
docker run --rm \
  -v $(pwd)/mlflow/protos:/app/mlflow/protos \
  -v $(pwd)/mlflow/java/client/src/main/java:/app/mlflow/java/client/src/main/java \
  -v $(pwd)/generate-protos.sh:/app/generate-protos.sh \
  gen-protos ./generate-protos.sh

Verify that .proto files and autogenerated code are in sync by running ./dev/test-generate-protos.sh.

Database Schema Changes

MLflow's Tracking component supports storing experiment and run data in a SQL backend. To make changes to the tracking database schema, run the following from your checkout of MLflow:

# starting at the root of the project
$ pwd
~/mlflow
$ cd mlflow
# MLflow relies on Alembic (https://alembic.sqlalchemy.org) for schema migrations.
$ alembic -c mlflow/store/db_migrations/alembic.ini revision -m "add new field to db"
  Generating ~/mlflow/mlflow/store/db_migrations/versions/b446d3984cfa_add_new_field_to_db.py
# Update schema files
$ ./tests/db/update_schemas.sh

These commands generate a new migration script (e.g., at ~/mlflow/mlflow/alembic/versions/12341123_add_new_field_to_db.py) that you should then edit to add migration logic.

Developing inside a Docker container (experimental)

Instead of setting up local or virtual environment, it's possible to write code and tests inside a Docker container that will contain an isolated Python environment setup inside. It's possible to build and run preconfigured image, then attach with the compatible code editor (e.g. VSCode) into a running container. This helps avoiding issues with local setup, e.g. on CPU architectures that are not yet fully compatible with all dependency packages (e.g. Apple arm64 architecture).

Prerequisites

Setup

Run the following command:

dev/run-test-container.sh

You will need to wait until the docker daemon will complete building the docker image. After successful build, the container will be automatically run with mlflow-test name. A new shell session running in container's context will start in the terminal window, do not close it.

Now you can attach to the running container with your code editor.

  • Instructions for VSCode:

    • invoke the command palette ([Ctrl/CMD]+Shift+P)
    • find "Remote-Containers: Attach to Running Container..." option, confirm with Enter key
    • find the "mlflow-test" container, confirm with Enter key
    • a new code editor should appear running inside the context of Docker container
    • you can now freely change source code and corresponding tests, the changes will be reflected on your machine filesystem
    • to run code or tests inside container, you can open a terminal with [Ctrl/CMD]+Shift+` and run any command which will be executed inside container, e.g. pytest tests/test_version.py

After typing exit in the terminal window that executed dev/run-test-container.sh, the container will be shut down and removed.

Writing MLflow Examples

The mlflow/examples directory has a collection of quickstart tutorials and various simple examples that depict MLflow tracking, project, model flavors, model registry, and serving use cases. These examples provide developers sample code, as a quick way to learn MLflow Python APIs.

To facilitate review, strive for brief examples that reflect real user workflows, document how to run your example, and follow the recommended steps below.

If you are contributing a new model flavor, follow these steps:

  1. Follow instructions in Python Model Flavors
  2. Create a corresponding directory in mlflow/examples/new-model-flavor
  3. Implement your Python training new-model-flavor code in this directory
  4. Convert this directory’s content into an MLflow Project executable
  5. Add README.md, MLproject, and conda.yaml files and your code
  6. Read instructions in the mlflow/test/examples/README.md and add a pytest entry in the test/examples/test_examples.py
  7. Add a short description in the mlflow/examples/README.md file

If you are contributing to the quickstart directory, we welcome changes to the quickstart/mlflow_tracking.py that make it clearer or simpler.

If you'd like to provide an example of functionality that doesn't fit into the above categories, follow these steps:

  1. Create a directory with meaningful name in mlflow/examples/new-program-name and implement your Python code
  2. Create mlflow/examples/new-program-name/README.md with instructions how to use it
  3. Read instructions in the mlflow/test/examples/README.md, and add a pytest entry in the test/examples/test_examples.py
  4. Add a short description in the mlflow/examples/README.md file

Finally, before filing a pull request, verify all Python tests pass.

Building a Distributable Artifact

Install Node Modules, then run the following:

Generate JS files in mlflow/server/js/build:

cd mlflow/server/js
yarn build

Build a pip-installable wheel in dist/:

cd -
python setup.py bdist_wheel

TOML formatting

We use taplo to enforce consistent TOML formatting. You can install it by following the instructions here.

Writing Docs

First, install dependencies for building docs as described in Environment Setup and Python configuration.

Building documentation requires Pandoc. It should have already been installed if you used the automated env setup script (dev-env-setup.sh), but if you are manually installing dependencies, please follow the official instruction.

Also, check the version of your installation via pandoc --version and ensure it is 2.2.1 or above. If you are using Mac OSX, be aware that the Homebrew installation of Pandoc may be outdated. If you are using Linux, you should use a deb installer or install from the source, instead of running apt / apt-get commands. Pandoc package available on official repositories is an older version and contains several bugs. You can find newer versions at https://github.com/jgm/pandoc/releases.

To generate a live preview of Python & other rst documentation, run the following snippet. Note that R & Java API docs must be regenerated separately after each change and are not live-updated; see subsequent sections for instructions on generating R and Java docs.

cd docs
make livehtml

Generate R API rst doc files via:

cd docs
make rdocs

NOTE

If you attempt to build the R documentation on an ARM-based platform (Apple silicon M1, M2, etc.) you will likely get an error when trying to execute the Docker build process for the make command. To address this, set the default docker platform environment variable as follows:

export DOCKER_DEFAULT_PLATFORM=linux/amd64

Generate Java API rst doc files via:

cd docs
make javadocs

Generate API docs for all languages via:

cd docs
make html

If changing existing Python APIs or adding new APIs under existing modules, ensure that references to the modified APIs are updated in existing docs under docs/source. Note that the Python doc generation process will automatically produce updated API docs, but you should still audit for usages of the modified APIs in guides and examples.

If adding a new public Python module, create a corresponding doc file for the module under docs/source/python_api - see here for an example.

Sign your work

In order to commit your work, you need to sign that you wrote the patch or otherwise have the right to pass it on as an open-source patch. If you can certify the below (from developercertificate.org):

Developer Certificate of Origin
Version 1.1

Copyright (C) 2004, 2006 The Linux Foundation and its contributors.
1 Letterman Drive
Suite D4700
San Francisco, CA, 94129

Everyone is permitted to copy and distribute verbatim copies of this
license document, but changing it is not allowed.


Developer's Certificate of Origin 1.1

By making a contribution to this project, I certify that:

(a) The contribution was created in whole or in part by me and I
    have the right to submit it under the open source license
    indicated in the file; or

(b) The contribution is based upon previous work that, to the best
    of my knowledge, is covered under an appropriate open source
    license and I have the right under that license to submit that
    work with modifications, whether created in whole or in part
    by me, under the same open source license (unless I am
    permitted to submit under a different license), as indicated
    in the file; or

(c) The contribution was provided directly to me by some other
    person who certified (a), (b) or (c) and I have not modified
    it.

(d) I understand and agree that this project and the contribution
    are public and that a record of the contribution (including all
    personal information I submit with it, including my sign-off) is
    maintained indefinitely and may be redistributed consistent with
    this project or the open source license(s) involved.

Then add a line to every git commit message:

Signed-off-by: Jane Smith <[email protected]>

Use your real name (sorry, no pseudonyms or anonymous contributions). You can sign your commit automatically with git commit -s after you set your user.name and user.email git configs.

Code of Conduct

Refer to the MLflow Contributor Covenant Code of Conduct for more information.