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Fix chmod command to accommodate hidden files in bindir (or empty bindir) #3247

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merged 4 commits into from Sep 27, 2022
Merged

Fix chmod command to accommodate hidden files in bindir (or empty bindir) #3247

merged 4 commits into from Sep 27, 2022

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abhi18av
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This PR addresses the suggestion in #3227 (comment)

@abhi18av abhi18av linked an issue Sep 26, 2022 that may be closed by this pull request
A top-level bin folder with hidden files (e.g. .gitkeep) results in failure on cloud based runs #3227
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@abhi18av abhi18av changed the title Fix chmod command to accommodate hidden files in bindir Fix chmod command to accommodate hidden files in bindir (or empty bindir) Sep 26, 2022
@bentsherman
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From our discussion today, the command should be:

chmod +x $PWD/nextflow-bin/{.*,*}

@pditommaso
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yeah the -R recurse the subdir which may not be desirable. I think it could be even better using

chmod +x $PWD/nextflow-bin/* || true

@bentsherman
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Yes, I like the || true better.

@abhi18av
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Thanks @bentsherman @pditommaso for the review, I have now accommodated the feedback.

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sonatype-lift bot commented Sep 27, 2022

⚠️ 7 God Classes were detected by Lift in this project. Visit the Lift web console for more details.

@pditommaso pditommaso merged commit 1d71fa9 into master Sep 27, 2022
@pditommaso pditommaso deleted the abhinav/fix-chmod-empty-bindir branch September 27, 2022 14:10
Lehmann-Fabian pushed a commit to Lehmann-Fabian/nextflow that referenced this pull request Sep 27, 2022
@abhi18av @Lehmann-Fabian
Fix chmod command to accommodate hidden files in bindir (or empty bin…
c150e78 
…dir) (nextflow-io#3247)
pditommaso pushed a commit that referenced this pull request Sep 27, 2022
@abhi18av @pditommaso
Fix chmod command to accommodate hidden files in bindir (or empty bin…
01eacf3 
…dir) (#3247)

Signed-off-by: Paolo Di Tommaso <paolo.ditommaso@gmail.com>
pditommaso pushed a commit that referenced this pull request Sep 27, 2022
@abhi18av @pditommaso
Fix chmod command to accommodate hidden files in bindir (or empty bin…
a0fcc7b 
…dir) (#3247)

Signed-off-by: Paolo Di Tommaso <paolo.ditommaso@gmail.com>
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@bentsherman bentsherman bentsherman approved these changes

@jorgeaguileraseqera jorgeaguileraseqera Awaiting requested review from jorgeaguileraseqera

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Successfully merging this pull request may close these issues.

A top-level bin folder with hidden files (e.g. .gitkeep) results in failure on cloud based runs
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@abhi18av @bentsherman @pditommaso