[Bioc-devel] github bridge to bioconductor

[Turaga, Nitesh]

That command is located in the “how-to/git” (http://bioconductor.org/developers/how-to/git/), and it’s labelled "Push to GitHub and Bioconductor repositories” (https://bioconductor.org/developers/how-to/git/push-to-github-bioc/, see point number 6 on this page).

Happy new year! Feel free to ask any questions you may have. 

Nitesh


> On Jan 2, 2019, at 12:45 PM, Karl Stamm <karl.stamm using gmail.com> wrote:
> 
> Wow that was easy. Thanks Nitesh.
> 
>  git push upstream master
> Counting objects: 20, done.
> Delta compression using up to 4 threads.
> Compressing objects: 100% (20/20), done.
> Writing objects: 100% (20/20), 5.33 KiB | 1.33 MiB/s, done.
> Total 20 (delta 14), reused 0 (delta 0)
> To git.bioconductor.org:packages/rgsepd
>    4715839..b7aad7a  master -> master
> 
>  I didn't find that command in the half-dozen different bioconductor developers tutorials, and 'git push' just kept telling me everything was up to date. I started this package a few years ago when Bioc used SVN, and have been confused ever since they moved to git and recommended I make a github account. 
> Looking forward to seeing tonight's build report. 
> 
> 
> On Wed, Jan 2, 2019 at 9:55 AM Turaga, Nitesh <Nitesh.Turaga using roswellpark.org> wrote:
> There is no bridge between GitHub and Bioconductor’s private git server. 
> 
> You have to push separately to the Bioconductor’s git server. Based on your setup, you have to do,
> 
>         git push upstream master 
> 
> which, pushes to git using git.bioconductor.org:packages/rgsepd.
> 
> Please let me know if you have done this. 
> 
> Once you have done this, check https://bioconductor.org/developers/gitlog/ to see if you commit is available on that list.
> 
> Best,
> 
> Nitesh 
> 
> 
> 
> > On Jan 2, 2019, at 10:49 AM, Karl Stamm <karl.stamm using gmail.com> wrote:
> > 
> > I think there's a disconnect between the github and the bioconductor build
> > server. I cannot seem to get any updates to go into the Bioc devel
> > packages.
> > I have added a few things to v1.15.x and the Bioc website still lists me as
> > 1.15.0.
> > I have the workstation set up as such
> > 
> > git remote -v
> > 
> > origin git using github.com:kstammits/rgsepd.git (fetch)
> > 
> > origin git using github.com:kstammits/rgsepd.git (push)
> > 
> > upstream git using git.bioconductor.org:packages/rgsepd (fetch)
> > 
> > upstream git using git.bioconductor.org:packages/rgsepd (push)
> > 
> > and it claims 'everything is up to date' when I try to push. Github shows
> > my changes, but they arent going into Bioc.  How can I get the two
> > connected?
> > 
> > Thanks.
> > 
> >       [[alternative HTML version deleted]]
> > 
> > _______________________________________________
> > Bioc-devel using r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/bioc-devel
> 
> 
> 
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