mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-25 12:08:16 +00:00
30 lines
912 B
Text
30 lines
912 B
Text
process BOWTIE2_BUILD {
|
|
tag "$fasta"
|
|
label 'process_high'
|
|
|
|
conda (params.enable_conda ? 'bioconda::bowtie2=2.4.4' : null)
|
|
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
|
|
'https://depot.galaxyproject.org/singularity/bowtie2:2.4.4--py39hbb4e92a_0' :
|
|
'quay.io/biocontainers/bowtie2:2.4.4--py39hbb4e92a_0' }"
|
|
|
|
input:
|
|
path fasta
|
|
|
|
output:
|
|
path 'bowtie2' , emit: index
|
|
path "versions.yml" , emit: versions
|
|
|
|
when:
|
|
task.ext.when == null || task.ext.when
|
|
|
|
script:
|
|
def args = task.ext.args ?: ''
|
|
"""
|
|
mkdir bowtie2
|
|
bowtie2-build $args --threads $task.cpus $fasta bowtie2/${fasta.baseName}
|
|
cat <<-END_VERSIONS > versions.yml
|
|
"${task.process}":
|
|
bowtie2: \$(echo \$(bowtie2 --version 2>&1) | sed 's/^.*bowtie2-align-s version //; s/ .*\$//')
|
|
END_VERSIONS
|
|
"""
|
|
}
|