From fc1c527a991cddc95af401327eef5360c11e6f41 Mon Sep 17 00:00:00 2001 From: Christopher Mohr Date: Tue, 2 Apr 2024 08:42:30 +0000 Subject: [PATCH 1/3] fix input channel cardinality --- modules/local/mirdeep2_run.nf | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/modules/local/mirdeep2_run.nf b/modules/local/mirdeep2_run.nf index 442f26f3..ba37a4ac 100644 --- a/modules/local/mirdeep2_run.nf +++ b/modules/local/mirdeep2_run.nf @@ -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 From 752aeea0598626d7fc8641372631c2321fb48e3c Mon Sep 17 00:00:00 2001 From: Christopher Mohr Date: Tue, 2 Apr 2024 11:02:03 +0000 Subject: [PATCH 2/3] fix conda bowtie version --- modules/local/bowtie_map_mirna.nf | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/modules/local/bowtie_map_mirna.nf b/modules/local/bowtie_map_mirna.nf index 148b47f5..d6b0ea8f 100644 --- a/modules/local/bowtie_map_mirna.nf +++ b/modules/local/bowtie_map_mirna.nf @@ -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' }" From f3df2e3757e34d31a8eb422a11c6f92c47b4bace Mon Sep 17 00:00:00 2001 From: Christopher Mohr Date: Wed, 3 Apr 2024 07:57:54 +0000 Subject: [PATCH 3/3] add changes to CHANGELOG --- CHANGELOG.md | 2 ++ 1 file changed, 2 insertions(+) diff --git a/CHANGELOG.md b/CHANGELOG.md index 6a3496b1..6e814491 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -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