[Bioc-devel] Package changes not merging with upstream

[Tiago Chedraoui Silva]

I worked. Thank you!

Em 30 de ago de 2017 3:48 PM, "Martin Morgan" <martin.morgan at roswellpark.org>
escreveu:

> 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
>>
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>>
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