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Remove_beginning1 tool broken (perl: not found) #12603

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gallardoalba opened this issue Sep 30, 2021 · 4 comments · May be fixed by #12612
Open

Remove_beginning1 tool broken (perl: not found) #12603

gallardoalba opened this issue Sep 30, 2021 · 4 comments · May be fixed by #12612

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@gallardoalba
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Describe the bug
The Remove_beginning1 tool doesn't work.

Galaxy Version and/or server at which you observed the bug
Galaxy Version: 21.09 (usegalaxy.org). It works fine on 21.05 (usegalaxy.eu)

To Reproduce
History which contains an example: https://usegalaxy.org/u/gallardoalba/h/errorremovebeginnig

Expected behavior
Remove the first line on a file.

Actual behavior
It triggers an error (perl: not found)

Screenshots
Screenshot from 2021-09-30 15-26-02

Additional context
Discovered during 21.09 release testing.

@mvdbeek
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mvdbeek commented Sep 30, 2021

Duplicate of #12602

@mvdbeek mvdbeek marked this as a duplicate of #12602 Sep 30, 2021
@mvdbeek mvdbeek closed this as completed Sep 30, 2021
@mvdbeek mvdbeek reopened this Sep 30, 2021
@mvdbeek
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mvdbeek commented Sep 30, 2021

Actually, we might want to add a requirement to the tool.

@gallardoalba
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Actually, we might want to add a requirement to the tool.

This is also related to the training tag.

@mvdbeek
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mvdbeek commented Sep 30, 2021

Yes, which means the tool runs in a container if available. But this tool doesn't specify a dependency, so the default container is used, which only has python available, but not perl.

mvdbeek added a commit to mvdbeek/galaxy that referenced this issue Oct 1, 2021
Fixes galaxyproject#12603.

Also need to add new tool versions to safe udpates
@mvdbeek mvdbeek linked a pull request Oct 1, 2021 that will close this issue
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2 participants