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Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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Maxime Garcia 2021-02-12 13:24:10 +01:00 committed by GitHub
parent 6b34ddf239
commit c1ff201518
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3 changed files with 5 additions and 7 deletions
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4
software/bwamem2/index/main.nf
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@ -22,14 +22,14 @@ process BWAMEM2_INDEX {
path fasta path fasta
output: output:
path "bwa" , emit: index path "bwamem2" , emit: index
path "*.version.txt", emit: version path "*.version.txt", emit: version
script: script:
def software = getSoftwareName(task.process) def software = getSoftwareName(task.process)
""" """
mkdir bwa mkdir bwa
bwa-mem2 index $ioptions.args $fasta -p bwa/${fasta.baseName} bwa-mem2 index $ioptions.args $fasta -p bwamem2/${fasta.baseName}
echo \$(bwa-mem2 version 2>&1) > ${software}.version.txt echo \$(bwa-mem2 version 2>&1) > ${software}.version.txt
""" """
} }

3
software/bwamem2/index/meta.yml
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@ -1,4 +1,4 @@
name: bwa_index name: bwamem2_index
description: Create BWA-mem2 index for reference genome description: Create BWA-mem2 index for reference genome
keywords: keywords:
- index - index
@ -47,5 +47,4 @@ output:
description: File containing software version description: File containing software version
pattern: "*.{version.txt}" pattern: "*.{version.txt}"
authors: authors:
- "@drpatelh"
- "@maxulysse" - "@maxulysse"

5
software/bwamem2/mem/meta.yml
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@ -1,4 +1,4 @@
name: bwa_mem name: bwamem2_mem
description: Performs fastq alignment to a fasta reference using BWA description: Performs fastq alignment to a fasta reference using BWA
keywords: keywords:
- mem - mem
@ -62,5 +62,4 @@ output:
description: File containing software version description: File containing software version
pattern: "*.{version.txt}" pattern: "*.{version.txt}"
authors: authors:
- "@drpatelh" - "@maxulysse"
- "@jeremy1805"