[Bioc-devel] Package changes not merging with upstream

[Martin Morgan]

On 08/30/2017 06:20 PM, Tiago Chedraoui Silva wrote:
> Hello,
> 
> I had the same problem with the ELMER.data package (Experiment package).
> 
> *> tiagochst at epigenomeFMRP3:~/ELMER.data$ git push upstream master*
> FATAL: W any packages/ELMER.data t.silva DENIED by fallthru
> (or you mis-spelled the reponame)
> fatal: Could not read from remote repository.
> 
> 
> *> origin https://github.com/tiagochst/ELMER.data.git (push)*
> upstream        git at git.bioconductor.org:packages/ELMER.data.git (fetch)
> upstream        git at git.bioconductor.org:packages/ELMER.data.git (push)

Thanks, permissions were not correctly transfered for experiment data 
packages with a '.' in their name.

This should be corrected now.

Martin

> 
> Best regards,
> Tiago Chedraoui Silva
> 
> On Fri, Aug 25, 2017 at 10:48 AM, Matt Richards 
> <Matt.Richards at systemsbiology.org 
> <mailto:Matt.Richards at systemsbiology.org>> wrote:
> 
>     Thanks Martin, I retried the push to upstream and it works just fine
>     now.
> 
>     Thanks
>     Matt
> 
> 
> 
>     On Fri, Aug 25, 2017 at 10:27 AM, Martin Morgan <
>     martin.morgan at roswellpark.org
>     <mailto:martin.morgan at roswellpark.org>> wrote:
> 
>      > On 08/25/2017 01:17 PM, Matt Richards wrote:
>      >
>      >> Hi all,
>      >>
>      >> I maintain the "trena" package and I'm attempting to sync the
>     changes from
>      >> my in-house Github repo with the Bioconductor version. I
>     submitted my ssh
>      >> keys last week, so essentially I'm following these instructions:
>      >>
>      >> https://www.bioconductor.org/developers/how-to/git/sync-
>     <https://www.bioconductor.org/developers/how-to/git/sync->
>      >> existing-repositories/
>      >>
>      >> I've seemingly made it from #1-8 successfully, but in trying to
>     push to
>      >> the
>      >> upstream branch, I get an error:
>      >>
>      >> ------
>      >>
>      >> buoy:trena mrichard$ git push upstream master
>      >>
>      >> FATAL: W any packages/trena m.richards DENIED by fallthru
>      >>
>      >> (or you mis-spelled the reponame)
>      >>
>      >> fatal: Could not read from remote repository.
>      >>
>      >> Please make sure you have the correct access rights
>      >>
>      >> and the repository exists.
>      >>
>      >> ------
>      >> I checked on my remotes via git config as well:
>      >>
>      >> ------
>      >>
>      >>
>     remote.bioc.url=https://hedgehog.fhcrc.org/bioconductor/trunk/madman/ <https://hedgehog.fhcrc.org/bioconductor/trunk/madman/>
>      >> Rpacks/TReNA
>      >>
>      >> remote.bioc.fetch=+refs/heads/*:refs/remotes/bioc/*
>      >>
>      >> remote.upstream.url=git at git.bioconductor.org:packages/trena.git
>      >>
>      >> remote.upstream.fetch=+refs/heads/*:refs/remotes/upstream/*
>      >>
>      >> ------
>      >>
>      >> Any idea on how I can navigate this error? Ultimately, we've
>     made a lot of
>      >> changes to the repo (including changing the capitalization of
>     the package
>      >> from "TReNA" to "trena") and I definitely want to get in those
>     updates for
>      >> the next release.
>      >>
>      >
>      > This was an error on our side and should be fixed now.
>      >
>      > We maintain a 'manifest' of packages in each Bioconductor
>     release. The
>      > package name was changed in the manifest and in the svn
>     repository, but not
>      > in the svn permissions file. When we made git permissions, the svn
>      > permissions weren't copied over because the svn path wasn't in
>     the manifest.
>      >
>      > Sorry for the inconvenience.
>      >
>      > Martin
>      >
>      >
>      >> Thanks
>      >> Matt
>      >>
>      >>
>      >
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> 
> 
> 
>     --
>     Matthew Richards
>     Postdoctoral Fellow
>     Institute for Systems Biology
> 
>              [[alternative HTML version deleted]]
> 
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