hubmap-pipeline-release-mgmt 0.3

Overview

This package provides a convenience script which automates some aspects of tagging and releasing production-ready versions of HuBMAP computational analysis pipelines.

Installation

Run python3 -m pip install hubmap-pipeline-release-mgmt.

Usage

Once the package is installed, navigate to a repository containing a pipeline, and ensure that the master branch is what you would like to release as a new tagged version (including the state of any submodules).

Choose a new version number (preferably starting with v), like v1.0, and run:

tag_release_pipeline v1.0

Most of the script is automated, but Git will ask you for a tag message (by opening a text editor) unless a tag message is given as an argument to this script via the --tag-message argument.

To sign Git tags with GPG, append --sign (and if you want to sign with a non-default key, add --sign=preferred@email.address.)

(Your local master branch can be behind or ahead of origin/master – if behind, it will be updated with git pull, and if ahead origin/master will be updated with git push. Your master branch and origin/master cannot have diverged, however; tag_release_pipeline will abort if this is the case.)

The tag_release_pipeline script makes several assumptions about the state of your repository, and if these assumptions are violated, the script will probably fail loudly and leave your local copy in an arbitrary state. Make sure you have no local modifications for best results (though you shouldn’t anyway, if preparing a release version of a pipeline).

At a high level, tag_release_pipeline does:

• Checkout the master branch, pull/push so it and origin/master match

• Checkout or create a release branch

• Merge master into release

• Update the content of all submodules to match the versions committed in master

• Build all Docker containers in docker_images.txt, using the multi-docker-build package

• Tag all containers as latest and with the new tag name

• Push all Docker containers/tags to Docker Hub

• Update all CWL files to use tagged versions of any containers built from the pipeline repository (i.e. those listed in docker_images.txt)

• Commit the updated CWL files

• Tag the new commit, signed or not

• Push the master and release branches, and the new tag

Options:

--pretend

Don’t run anything that would make any modifications to any Git repositories or Docker images. This will still run git branch -a to obtain the list of Git branches, however. This will print all commands which would be run.

--tag-message

(alias: -m) Use this string as the tag message. This is given to Git as the -m argument to git tag, which stops Git from asking for a tag message interactively.

--sign

Sign the new tag with GPG using your default identity.

--sign=identity

Sign the new tag with GPG, using the specified identity (email address).

--no-push

Don’t push anything to Docker Hub or the Git remote repository. Everything will be committed, tagged, and built locally.

Requirements

• Python 3.6 or newer.

• Version 0.3 or newer of the multi-docker-build PyPI package (which should be installed automatically).