[Bioc-devel] Workflow builder failing at postprocessing step

[Andrzej Oleś]

Thanks Leo for drawing our attention to this issue. It will probably
require some additional modifications to the postprocessing scripts in
order to account for the now missing Mac tar balls. I will look into this.

Cheers,
Andrzej

On Wed, Oct 11, 2017 at 8:09 PM, Leonardo Collado Torres <lcollado at jhu.edu>
wrote:

> Hi,
>
> I recently pushed some changes to recountWorkflow** that triggered new
> "postprocessing" jobs by the workflow builder. The last few (#412 up
> to 415) failed and I can see at
> http://docbuilder.bioconductor.org:8080/job/postprocessing/label=master/
> 415/console
> that the error is related to the retirement of the Mac workflow build
> machine:
>
> + true
> + MACREPO=/var/lib/jenkins/repository/CRANrepo/3.6/bin/macosx/contrib/3.4
> + mkdir -p /var/lib/jenkins/repository/CRANrepo/3.6/bin/macosx/contrib/3.4
> + rm -f /var/lib/jenkins/repository/CRANrepo/3.6/bin/macosx/
> contrib/3.4/recountWorkflow_*.tgz
> + cp /var/lib/jenkins/repository/recountWorkflow/*.tgz
> /var/lib/jenkins/repository/CRANrepo/3.6/bin/macosx/contrib/3.4
> cp: cannot stat '/var/lib/jenkins/repository/recountWorkflow/*.tgz':
> No such file or directory
> Build step 'Execute shell' marked build as failure
>
> Hopefully the Mac tar ball part can be ignored for now. I just wanted
> to check if the recount workflow looked ok after I made some changes
> suggested by Andrzej in another thread
> https://stat.ethz.ch/pipermail/bioc-devel/2017-August/011444.html.
>
>
> Thanks,
> Leo
>
> ** Changes I made are from versions 0.99.32 to 0.99.37
> https://github.com/LieberInstitute/recountWorkflow/commits/master
>
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