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Fix reported bugs #334

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merged 3 commits into from
Apr 3, 2024
Merged

Fix reported bugs #334

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fc1c527
fix input channel cardinality
christopher-mohr Apr 2, 2024
752aeea
fix conda bowtie version
christopher-mohr Apr 2, 2024
f3df2e3
add changes to CHANGELOG
christopher-mohr Apr 3, 2024
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2 changes: 2 additions & 0 deletions CHANGELOG.md
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Expand Up @@ -6,6 +6,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
## v2.3.1 - XXXX-XX-XX- Gray Zinc Dalmation Patch

- [[#328]](https://github.com/nf-core/smrnaseq/pull/328) - Fix [casting issue](https://github.com/nf-core/smrnaseq/issues/327) in mirtrace module
- [[#334]](https://github.com/nf-core/smrnaseq/pull/334) - Fix [input channel cardinality](https://github.com/nf-core/smrnaseq/issues/331) in `MIRDEEP2_RUN` module
- [[#334]](https://github.com/nf-core/smrnaseq/pull/334) - Fix [bowtie conda version](https://github.com/nf-core/smrnaseq/issues/333) in `BOWTIE_MAP_SEQ` module

### Software dependencies

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2 changes: 1 addition & 1 deletion modules/local/bowtie_map_mirna.nf
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Expand Up @@ -2,7 +2,7 @@ process BOWTIE_MAP_SEQ {
tag "$meta.id"
label 'process_medium'

conda 'bowtie=1.3.0-2 bioconda::samtools=1.13'
conda 'bowtie=1.3.0 bioconda::samtools=1.13'
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/mulled-v2-ffbf83a6b0ab6ec567a336cf349b80637135bca3:40128b496751b037e2bd85f6789e83d4ff8a4837-0' :
'biocontainers/mulled-v2-ffbf83a6b0ab6ec567a336cf349b80637135bca3:40128b496751b037e2bd85f6789e83d4ff8a4837-0' }"
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4 changes: 2 additions & 2 deletions modules/local/mirdeep2_run.nf
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Expand Up @@ -12,8 +12,8 @@ process MIRDEEP2_RUN {
input:
path(fasta)
tuple path(reads), path(arf)
tuple val(meta2), path(hairpin)
tuple val(meta2), path(mature)
path(hairpin)
path(mature)

output:
path 'result*.{bed,csv,html}', emit: result
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