[Bioc-devel] Bioconductor Git: Online interface
I wanna revive this old thread. I've used Gitea for internal git/issue trackers at the UCSF for quite a while now and it works really well. I've also looked into how easy it would be to use it for pure code exposure and it's pretty straightforward. Gitea even has built-in tools for automatically synchronize toward an existing git server *and* keep it up-to-date, which makes the process even easier(*). An example what this looks like is: https://gitea.com/hb/aroma.light That took me literally 15 seconds to set up. Note how this is almost a bare bone *read-only* git code browser, e.g. there's no issue tracker. Right now, it would require a teeny hack on the Gitea server to have the 'git clone' URL to map to the official Bioconductor URL (or to hide it completely). It's also possible to link the 'Issue Tracker' to, say, GitHub issues based on what's in BugReports:, e.g. https://gitea.com/hb/QDNAseq Note that the above read-only approach completely avoids having to map or maintain user accounts; it's a pure read-only online viewer of the Bioconductor git repositories. (Depending on your setup, it might even be that you can expose the Gitea interface as https://git.bioconductor.org/ and have https://git.bioconductor.org/packages/<pkg> take you to the Gitea package page.) There's a Swagger API that makes it possible to automate everything, e.g. creating new repositories for new Bioc packages. I'd classify this as a low risk and straightforward project to implement. /Henrik (*) Technical details: The most efficient approach would probably be to link to the existing git repositories via the file system, rather than going over ssh/https. Linking via the file system avoids any duplication. The storage load of running such a Gitea instance would be very very small. The Gitea instance don't need write permissions to the repositories, so there is no risk of Gitea messing up existing git repositories. On Thu, Oct 26, 2017 at 1:51 AM Martin Morgan
<martin.morgan at roswellpark.org> wrote:
There has been previous discussion about this. https://stat.ethz.ch/pipermail/bioc-devel/2017-September/011455.html It is not in our short-term plans to offer a full on-line solution, but not impossible in a longer context. Martin On 10/26/2017 03:01 AM, Stian L?gstad wrote:
I would very much appreciate this as well. Issue tracking and communicating with users directly in the repository would be very nice, as well as the ability to reference source code directly. On Thu, Oct 26, 2017 at 8:50 AM, Henrik Bengtsson < henrik.bengtsson at gmail.com> wrote:
Are there any plans for an online interface to https://git.bioconductor.org/? I've recently looked into solutions for an open-source in-house "GitHub/GitLab"-ish, and I've found https://gitea.io/ to be really nice. It is very easy to install. It has support for various common user authentication methods, it supports organizations and user teams, repositories may have issues and wikis, sets of code lines can be referenced, commits and code diffs are annotated, and so on. Wikis and issue trackers can be disabled (also for individual repositories). That's all I've learned thus far - I'm impressed. Just a thought Henrik
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