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Make nf-core/pixelator compliant with strict syntax#194

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Aratz merged 6 commits into
nf-core:devfrom
Aratz:pna-2024/fix/strict_syntax
Mar 16, 2026
Merged

Make nf-core/pixelator compliant with strict syntax#194
Aratz merged 6 commits into
nf-core:devfrom
Aratz:pna-2024/fix/strict_syntax

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@Aratz Aratz commented Mar 16, 2026

This PR addresses the error messages from nextflow lint, in order to make the pipeline compliant with the new strict syntax.

Additionally, this renames some option sections to make sure they all follow the same pattern.

PR checklist

  • This comment contains a description of changes (with reason).
  • Make sure your code lints (nf-core pipelines lint).
  • Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
  • CHANGELOG.md is updated.

Aratz added 4 commits March 16, 2026 10:39
As far as I understand, this was set so that Nextflow would re-run in
case the samplesheet changes. Nextflow does this natively though
@Aratz Aratz self-assigned this Mar 16, 2026
@Aratz Aratz changed the title Pna 2024/fix/strict syntax Make nf-core/pixelator compliant with strict syntax Mar 16, 2026
@Aratz Aratz marked this pull request as ready for review March 16, 2026 12:08
@Aratz Aratz requested a review from a team as a code owner March 16, 2026 12:08
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@johandahlberg johandahlberg left a comment

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Just a question - which was really on a different topic... Great work on this.

Comment thread conf/container_env.config
@Aratz Aratz merged commit 4a80801 into nf-core:dev Mar 16, 2026
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This was referenced May 19, 2026
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2 participants