Code

Make genomic FASTA input optional#1490

Code

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pinin4fjords merged 26 commits intodevnf-core/rnaseq:devfrom optional_fastanf-core/rnaseq:optional_fastaCopy head branch name to clipboardJan 22, 2025

+925-332

Commits

Commits on Jan 21, 2025

• Update salmon indexing module

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• Make fasta optional for gtf filtering

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• Allow no fasta during param checks

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• Rework prepare_genome for optional fasta

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• Fix bbsplit param usage for optional fasta

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• Add test for no fasta

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• lint fix

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• Add snap for new test

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• Restore output comments

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• Restore input comments

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• Restore file comment

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• Restore existence checks

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• Remove some unecessary changes

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• Update changelog

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• Remove duplicate section

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Commits on Jan 22, 2025

• Fix for tweaked filtered GTF name

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• Fix for tweaked filtered GTF name

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• Update docs

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• Temporarily disable 'latest-everything' testing due to incompatibilities with nf-core

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• Merge branch 'optional_fasta' of https://github.com/nf-core/rnaseq into optional_fasta

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• Apply suggestions from code review

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• Apply suggestions from code review

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• Fix file names in snap

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• Merge branch 'optional_fasta' of https://github.com/nf-core/rnaseq into optional_fasta

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• Update usage.md

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• prettier

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