[Bioc-devel] Bioconductor Git/GitHub Mirrors
Ryan C. Thompson
rct at thompsonclan.org
Tue Jun 16 21:20:24 CEST 2015
This is great to hear. I sometimes want to delve into the source code of
a package's internals, but doing so through the SVN web interface is
clunky. Being able to use Github's repo browsing functionality for Bioc
packages is great.
On 06/16/2015 12:00 PM, Dan Tenenbaum wrote:
> Dear Bioconductors,
> We're pleased to announce the availability of Bioconductor Git Mirrors.
> These are read-only GitHub repositories (available under https://github.com/Bioconductor-mirror)
> for every Bioconductor software package. These repositories are synchronized with our
> Subversion repository. Package maintainers (or anyone else) can fork these repositories
> and do their development on the fork. Complete documentation of the mirrors is at
> These mirrors supersede the Git-SVN bridge, which is now deprecated.
> Creation of new bridges is disabled and maintainers who are using the bridge
> should migrate to the Git mirrors as soon as it's convenient, as the bridge
> will eventually go away. Instructions for migrating can be found at the above link.
> Some features of the new Git Mirrors, and why we feel they are a better solution than the Git-SVN bridge:
> - The mirrors contain complete commit history.
> - The mirrors contain release branches for Bioconductor 3.0 and 3.1, and
> new releases will be added as they happen. You will no longer need
> separate repositories for release and devel.
> - Setup is easy and you no longer have to grant any permissions on your
> repository to other users. You can commit directly to Subversion
> using git-svn (https://git-scm.com/docs/git-svn).
> - Each git commit appears in the SVN log as a distinct SVN commit; commits
> are no longer grouped together as they were with the bridge. Each git
> commit can be mapped to a specific svn commit, and vice versa.
> - The Git mirrors are much more reliable.
> - Use is flexible. You can use git locally (without GitHub) or you
> can use GitHub as well, to take advantage of all its social coding features.
> - Using GitHub's code search, you can search the entire Bioconductor codebase.
> Here's a sample search: https://goo.gl/jI92Ys
> - Subversion is fully supported and remains the cannonical repository; use
> of Git and GitHub is optional.
> We are excited about these new mirrors (brought to you by the hard
> work of Jim Hester) and we hope you are too. Questions and comments are
> welcome on the bioc-devel mailing list.
> Bioc-devel at r-project.org mailing list
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