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Fix No such variable: CUTADAPT error by replacing CUTADAPT.out with C… #187

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merged 3 commits into from
Jul 25, 2024
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Fix No such variable: CUTADAPT error by replacing CUTADAPT.out with C… #187

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70071bf
Fix No such variable: CUTADAPT error by replacing CUTADAPT.out with C…
Jul 23, 2024
d0918a1
Merge branch 'dev' into fix-cutadapt-error
joannakraw Jul 25, 2024
1da7769
Add contributor in readme and change in changelog
LaurenceKuhl Jul 25, 2024
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2 changes: 2 additions & 0 deletions CHANGELOG.md
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Expand Up @@ -11,6 +11,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0

### Fixed

- Fix cutadapt 3' and 5' no such variable found bug ([#187](https://github.com/nf-core/crisprseq/pull/187))

### Deprecated

## [v2.2.1 Romarin Curie - patch](https://github.com/nf-core/crisprseq/releases/tag/2.2.1) - [23.07.2024]
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1 change: 1 addition & 0 deletions README.md
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Expand Up @@ -132,6 +132,7 @@ We thank the following people for their extensive assistance in the development
- [@msanvicente](https://github.com/msanvicente)
- [@mschaffer-incyte](https://github.com/mschaffer-incyte)
- [@SusiJo](https://github.com/SusiJo)
- [@joannakraw](https://github.com/joannakraw)

## Contributions and Support

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4 changes: 2 additions & 2 deletions workflows/crisprseq_screening.nf
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Expand Up @@ -86,7 +86,7 @@ workflow CRISPRSEQ_SCREENING {
[meta, fastq, proto]
}.set { ch_cutadapt }

ch_multiqc_files = ch_multiqc_files.mix(CUTADAPT.out.log.collect{it[1]})
ch_multiqc_files = ch_multiqc_files.mix(CUTADAPT_FIVE_PRIME.out.log.collect{it[1]})
ch_versions = ch_versions.mix(CUTADAPT_FIVE_PRIME.out.versions)
}

Expand All @@ -95,7 +95,7 @@ workflow CRISPRSEQ_SCREENING {
ch_cutadapt
)
ch_cutadapt = CUTADAPT_THREE_PRIME.out.reads.combine(Channel.value([[]]))
ch_multiqc_files = ch_multiqc_files.mix(CUTADAPT.out.log.collect{it[1]})
ch_multiqc_files = ch_multiqc_files.mix(CUTADAPT_THREE_PRIME.out.log.collect{it[1]})
ch_versions = ch_versions.mix(CUTADAPT_THREE_PRIME.out.versions)
}

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