[Bioc-devel] Cannot push to BioC git repo

Ulrich Bodenhofer bodenho|er @end|ng |rom b|o|n|@jku@@t
Mon Feb 20 16:22:59 CET 2023


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 



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 
line 67, in prevent_duplicate_commits
remote:     rev2 = get_svn_revision(second)
remote:   File 
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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