Add Zenodo integration

.zenodo.json

@@ -0,0 +1,23 @@
+{
+    "title": "AutoClassWeb (v1.2.0): a web app to run AutoClass C Bayesian clustering",
+    "creators": [{
+         "name": "Poulain, Pierre",
+        "orcid": "0000-0003-4177-3619"
+    },
+    {
+        "name": "Camadro, Jean-Michel",
+        "orcid": "0000-0002-8549-2707"
+    }],
+    "description": "This repository contains the archived release for the software AutoClassWeb",
+    "access_right": "open",
+    "license": "bsd-3-clause",
+    "keywords": [
+        "Omics",
+        "Proteomics",
+        "Genomics",
+        "Clustering",
+        "Classification",
+        "Python"
+    ],
+    "upload_type": "software"
+}

devtools/RELEASE.md

@@ -0,0 +1,82 @@
+# How to release
+
+## Setup
+
+Install required packages:
+```bash
+$ conda env create -f environment.yml
+```
+
+Or if needed, update your conda environment:
+```bash
+$ conda env update -f environment.yml
+```
+
+For Zenodo integration, see [Making Your Code Citable](https://guides.github.com/activities/citable-code/).
+
+## Lock dependencies (if needed)
+
+```
+$ conda env export -n autoclassweb --no-builds  | grep -v "^prefix:" > environment-lock.yml
+$ git commit -a -m "Update conda dependencies"
+```
+
+## Update version number
+
+We use `bump2version` to update and synchronize the version number across different files.
+
+For patch update (x.y.z → x.y.**z+1**):
+```
+$ bump2version --verbose --config-file devtools/bumpversion.cfg patch
+```
+
+For minor update (x.y.z → x.**y+1**.0):
+```
+$ bump2version --verbose --config-file devtools/bumpversion.cfg minor
+```
+
+For major update (x.y.z → **x+1**.0.0):
+```
+$ bump2version --verbose --config-file devtools/bumpversion.cfg major
+```
+
+Remark:
+
+1. For a dry run with `bump2version`, use option `-n`.
+2. `bump2version` will fail if the git working directory is not clean, i.e. all changes are not commited.
+
+Once version number is updated, push everything to GitHub:
+```
+$ git push origin
+$ git push origin --tags
+```
+
+
+## Add new release on GitHub
+
+On [GitHub release page](https://github.com/pierrepo/autoclassweb/releases) :
+
+- Click the *Draft a release* button.
+- Select the latest version as *tag version*.
+- Add release version as *Release title* (e.g.: v1.3.7).
+- Copy and paste the content of the `CHANGELOG.md` in the *Describe this release* field.
+- Hit the *Publish Release* button :rocket:.
+
+
+## Zenodo integration
+
+After the creation of the new release in GitHub, check the archive has been creating on [Zenodo](https://zenodo.org/deposit).
+
+
+## Publish docker image 
+
+Docker images of autoclassweb are hosted in the [Biocontainers](https://biocontainers.pro/) docker repo:
+
+<https://hub.docker.com/r/biocontainers/autoclassweb>
+
+To push new images:
+
+-  Clone <https://github.com/BioContainers/containers>
+-  Add the Dockerfile for the new release in the `autoclassweb` subdirectory
+-  Make a pull request for merging.
+

devtools/bumpversion.cfg

@@ -2,12 +2,11 @@
 commit = True
 tag = True
 current_version = 1.2.0
-parse = (?P<major>\d+)\.(?P<minor>\d+)\.(?P<patch>\d+)
-serialize = 
-	{major}.{minor}.{patch}
 
 [bumpversion:file:flaskapp/__init__.py]
 
+[bumpversion:file:.zenodo.json]
+
 [bumpversion:file:CHANGELOG.md]
 search = **Dev**
 replace = **Dev**