Re: [Bioc-devel] pre-receive hook declined
I'm getting a similar error, trying to push commits for a new package submission. So this is my first attempt to push to Bioc git servers for this package. After following instructions from https://bioconductor.org/developers/how-to/git/new-package-workflow/ ... spatialDmelxsim git:(main) > git push upstream main:master Enumerating objects: 20, done. Counting objects: 100% (20/20), done. Delta compression using up to 8 threads Compressing objects: 100% (10/10), done. Writing objects: 100% (12/12), 1.60 KiB | 1.60 MiB/s, done. Total 12 (delta 5), reused 0 (delta 0), pack-reused 0 remote: Traceback (most recent call last): remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow", line 90, in remote: apply_hooks(hooks_dict) remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow", line 72, in apply_hooks remote: if hooks_dict["pre-receive-hook-merge-markers"]: # enable hook remote: KeyError: 'pre-receive-hook-merge-markers' To git.bioconductor.org:packages/spatialDmelxsim ! [remote rejected] main -> master (pre-receive hook declined) error: failed to push some refs to 'git.bioconductor.org:packages/spatialDmelxsim' ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
Re: [Bioc-devel] pre-receive hook declined
I also encountered a similar error when I tried pushing to MetaGSCA on
Bioconductor.org.
git push upstream master --force
# After some seemingly normal messages ###333
remote: FATAL: + refs/heads/master packages/MetaGSCA hui-sheen DENIED by
fallthru
remote: error: hook declined to update refs/heads/master
To g...@git.bioconductor.org:packages/MetaGSCA.git
! [remote rejected] master -> master (hook declined)
error: failed to push some refs to 'g...@git.bioconductor.org
:packages/MetaGSCA.git'
On Wed, Jun 30, 2021 at 11:54 AM Vincent Carey
wrote:
> are you using wvictor14
>
> On Wed, Jun 30, 2021 at 1:41 PM Victor Yuan wrote:
>
> > Hi I cannot seem to push to the remote g...@git.bioconductor.org:
> > packages/GSE159526
> >
> > I get a "pre-receive hook declined" error:
> >
> >
> > $ git push upstream master
> > Enumerating objects: 21, done.
> > Counting objects: 100% (21/21), done.
> > Delta compression using up to 12 threads
> > Compressing objects: 100% (15/15), done.
> > Writing objects: 100% (15/15), 1.55 KiB | 1.55 MiB/s, done.
> > Total 15 (delta 9), reused 0 (delta 0), pack-reused 0
> > remote: Traceback (most recent call last):
> > remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow",
> > line 89, in
> > remote: apply_hooks(hooks_dict)
> > remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow",
> > line 71, in apply_hooks
> > remote: if hooks_dict["pre-receive-hook-merge-markers"]: # enable
> hook
> > remote: KeyError: 'pre-receive-hook-merge-markers'
> > To git.bioconductor.org:packages/GSE159526
> > ! [remote rejected] master -> master (pre-receive hook declined)
> > error: failed to push some refs to 'git.bioconductor.org:
> > packages/GSE159526'
> >
> >
> > I checked, and my ssh keys are configured correctly.
> >
> > https://github.com/Bioconductor/Contributions/issues/2170
> >
> > Any help appreciated!
> > Victor
> >
> > [[alternative HTML version deleted]]
> >
> > ___
> > Bioc-devel@r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/bioc-devel
> >
>
> --
> The information in this e-mail is intended only for th...{{dropped:10}}
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Re: [Bioc-devel] pre-receive hook declined
I still get the same error @Nitesh! I also just tried switching my user email to my academic email (which is what's listed in my package) but that had no effect. On Wed, Jun 30, 2021 at 10:55 AM Nitesh Turaga wrote: > Hi, > > > Can you please try again?? > > > It seems a minor issue on our end, which I just fixed. > > Best, > > Nitesh > > Nitesh Turaga > Scientist II, Department of Data Science, > Bioconductor Core Team Member > Dana Farber Cancer Institute > > > On Jun 30, 2021, at 1:41 PM, Victor Yuan wrote: > > > > Hi I cannot seem to push to the remote g...@git.bioconductor.org: > > packages/GSE159526 > > > > I get a "pre-receive hook declined" error: > > > > > > $ git push upstream master > > Enumerating objects: 21, done. > > Counting objects: 100% (21/21), done. > > Delta compression using up to 12 threads > > Compressing objects: 100% (15/15), done. > > Writing objects: 100% (15/15), 1.55 KiB | 1.55 MiB/s, done. > > Total 15 (delta 9), reused 0 (delta 0), pack-reused 0 > > remote: Traceback (most recent call last): > > remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow", > > line 89, in > > remote: apply_hooks(hooks_dict) > > remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow", > > line 71, in apply_hooks > > remote: if hooks_dict["pre-receive-hook-merge-markers"]: # enable > hook > > remote: KeyError: 'pre-receive-hook-merge-markers' > > To git.bioconductor.org:packages/GSE159526 > > ! [remote rejected] master -> master (pre-receive hook declined) > > error: failed to push some refs to 'git.bioconductor.org: > packages/GSE159526' > > > > > > I checked, and my ssh keys are configured correctly. > > > > https://github.com/Bioconductor/Contributions/issues/2170 > > > > Any help appreciated! > > Victor > > > > [[alternative HTML version deleted]] > > > > ___ > > Bioc-devel@r-project.org mailing list > > https://stat.ethz.ch/mailman/listinfo/bioc-devel > > [[alternative HTML version deleted]] ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
Re: [Bioc-devel] pre-receive hook declined
Hi, Can you please try again?? It seems a minor issue on our end, which I just fixed. Best, Nitesh Nitesh Turaga Scientist II, Department of Data Science, Bioconductor Core Team Member Dana Farber Cancer Institute > On Jun 30, 2021, at 1:41 PM, Victor Yuan wrote: > > Hi I cannot seem to push to the remote g...@git.bioconductor.org: > packages/GSE159526 > > I get a "pre-receive hook declined" error: > > > $ git push upstream master > Enumerating objects: 21, done. > Counting objects: 100% (21/21), done. > Delta compression using up to 12 threads > Compressing objects: 100% (15/15), done. > Writing objects: 100% (15/15), 1.55 KiB | 1.55 MiB/s, done. > Total 15 (delta 9), reused 0 (delta 0), pack-reused 0 > remote: Traceback (most recent call last): > remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow", > line 89, in > remote: apply_hooks(hooks_dict) > remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow", > line 71, in apply_hooks > remote: if hooks_dict["pre-receive-hook-merge-markers"]: # enable hook > remote: KeyError: 'pre-receive-hook-merge-markers' > To git.bioconductor.org:packages/GSE159526 > ! [remote rejected] master -> master (pre-receive hook declined) > error: failed to push some refs to 'git.bioconductor.org:packages/GSE159526' > > > I checked, and my ssh keys are configured correctly. > > https://github.com/Bioconductor/Contributions/issues/2170 > > Any help appreciated! > Victor > > [[alternative HTML version deleted]] > > ___ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
Re: [Bioc-devel] pre-receive hook declined
are you using wvictor14
On Wed, Jun 30, 2021 at 1:41 PM Victor Yuan wrote:
> Hi I cannot seem to push to the remote g...@git.bioconductor.org:
> packages/GSE159526
>
> I get a "pre-receive hook declined" error:
>
>
> $ git push upstream master
> Enumerating objects: 21, done.
> Counting objects: 100% (21/21), done.
> Delta compression using up to 12 threads
> Compressing objects: 100% (15/15), done.
> Writing objects: 100% (15/15), 1.55 KiB | 1.55 MiB/s, done.
> Total 15 (delta 9), reused 0 (delta 0), pack-reused 0
> remote: Traceback (most recent call last):
> remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow",
> line 89, in
> remote: apply_hooks(hooks_dict)
> remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow",
> line 71, in apply_hooks
> remote: if hooks_dict["pre-receive-hook-merge-markers"]: # enable hook
> remote: KeyError: 'pre-receive-hook-merge-markers'
> To git.bioconductor.org:packages/GSE159526
> ! [remote rejected] master -> master (pre-receive hook declined)
> error: failed to push some refs to 'git.bioconductor.org:
> packages/GSE159526'
>
>
> I checked, and my ssh keys are configured correctly.
>
> https://github.com/Bioconductor/Contributions/issues/2170
>
> Any help appreciated!
> Victor
>
> [[alternative HTML version deleted]]
>
> ___
> Bioc-devel@r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>
--
The information in this e-mail is intended only for the ...{{dropped:18}}
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[Bioc-devel] pre-receive hook declined
Hi I cannot seem to push to the remote g...@git.bioconductor.org: packages/GSE159526 I get a "pre-receive hook declined" error: $ git push upstream master Enumerating objects: 21, done. Counting objects: 100% (21/21), done. Delta compression using up to 12 threads Compressing objects: 100% (15/15), done. Writing objects: 100% (15/15), 1.55 KiB | 1.55 MiB/s, done. Total 15 (delta 9), reused 0 (delta 0), pack-reused 0 remote: Traceback (most recent call last): remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow", line 89, in remote: apply_hooks(hooks_dict) remote: File "hooks/pre-receive.h00-pre-receive-hook-dataexp-workflow", line 71, in apply_hooks remote: if hooks_dict["pre-receive-hook-merge-markers"]: # enable hook remote: KeyError: 'pre-receive-hook-merge-markers' To git.bioconductor.org:packages/GSE159526 ! [remote rejected] master -> master (pre-receive hook declined) error: failed to push some refs to 'git.bioconductor.org:packages/GSE159526' I checked, and my ssh keys are configured correctly. https://github.com/Bioconductor/Contributions/issues/2170 Any help appreciated! Victor [[alternative HTML version deleted]] ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
[Bioc-devel] Reg: Git hook update on Experiment Data and workflow packages
Hello Maintainers, We have recently come across some experiment data packages that had merge conflicts in them. As a precaution, the git hook to prevent these merge conflicts has been enabled. This will keep merge conflict markers from entering the git repositories we maintain. Maintainers should be aware and make sure there are no merge conflict markers before making a commit to the git repositories. Some links about resolving merge conflicts: 1. https://docs.github.com/en/github/collaborating-with-pull-requests/addressing-merge-conflicts/resolving-a-merge-conflict-using-the-command-line 2. https://www.atlassian.com/git/tutorials/using-branches/merge-conflicts 3. Bioconductor git hooks: https://github.com/Bioconductor/git-hooks If you have any questions, please reply to this thread. Best regards, Nitesh Nitesh Turaga Scientist II, Department of Data Science, Bioconductor Core Team Member Dana Farber Cancer Institute ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
