[Bioc-devel] Cannot push to BioC git repo

[Ulrich Bodenhofer]

It works now.  Thanks a lot, Lori!


Best regards,

Ulrich



On 2/21/23 15:22, Kern, Lori wrote:
> Hi Ulrich,
>
> Can you please try again at your earliest convenience?
>
> Cheers,
>
> Lori Shepherd - Kern
>
> Bioconductor Core Team
>
> Roswell Park Comprehensive Cancer Center
>
> Department of Biostatistics & Bioinformatics
>
> Elm & Carlton Streets
>
> Buffalo, New York 14263
>
> ------------------------------------------------------------------------
> *From:* Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of 
> Ulrich Bodenhofer <bodenhofer using bioinf.jku.at>
> *Sent:* Monday, February 20, 2023 10:22 AM
> *To:* bioc-devel using r-project.org <bioc-devel using r-project.org>
> *Subject:* [Bioc-devel] Cannot push to BioC git repo
> Hi,
>
> I am the maintainer of the 'msa' package which has been in Bioconductor
> for eight years now. The package is hosted on github and synchronized
> with the BioC git repo. Today I merged a pull request that had been
> contributed by a github user. I further updated the package's
> DESCRIPTION and inst/NEWS file and wanted to push the latest version to
> the BioC git repo. No matter what I did, I did not succeed. The error
> messages are attached below. I am not a very skilled git user. Does
> anybody have an idea what I could/should do? Any help is gratefully
> appreciated!
>
> Thanks,
> Ulrich
>
> --
>
> Enumerating objects: 22, done.
> Counting objects: 100% (22/22), done.
> Delta compression using up to 8 threads
> Compressing objects: 100% (13/13), done.
> Writing objects: 100% (13/13), 19.57 KiB | 1.96 MiB/s, done.
> Total 13 (delta 9), reused 0 (delta 0), pack-reused 0
> remote: Traceback (most recent call last):
> remote:   File "hooks/pre-receive.h00-pre-receive-hook-software", line
> 93, in <module>
> remote:     apply_hooks(hooks_dict)
> remote:   File "hooks/pre-receive.h00-pre-receive-hook-software", line
> 79, in apply_hooks
> remote:     prevent_duplicate_commits(oldrev, newrev, refname)
> remote:   File
> "/home/git/.gitolite/local/hooks/repo-specific/prevent_duplicate_commits.py", 
>
> line 67, in prevent_duplicate_commits
> remote:     rev2 = get_svn_revision(second)
> remote:   File
> "/home/git/.gitolite/local/hooks/repo-specific/prevent_duplicate_commits.py", 
>
> line 43, in get_svn_revision
> remote:     revision = SVN_COMMIT_REGEX.match(body.decode())
> remote: UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa1 in
> position 25709: invalid start byte
> To git.bioconductor.org:packages/msa.git
>   ! [remote rejected] master -> master (pre-receive hook declined)
> error: failed to push some refs to 'git.bioconductor.org:packages/msa.git'
>
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