nf-core_modules/modules/last/postmask/main.nf
2021-12-23 17:22:07 +00:00

30 lines
1 KiB
Text

process LAST_POSTMASK {
tag "$meta.id"
label 'process_low'
conda (params.enable_conda ? 'bioconda::last=1250' : null)
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/last:1250--h2e03b76_0' :
'quay.io/biocontainers/last:1250--h2e03b76_0' }"
input:
tuple val(meta), path(maf)
output:
tuple val(meta), path("*.maf.gz"), emit: maf
path "versions.yml" , emit: versions
script:
def args = task.ext.args ?: ''
def prefix = task.ext.prefix ?: "${meta.id}"
if( "$maf" == "${prefix}.maf.gz" ) error "Input and output names are the same, use \"task.ext.prefix\" to disambiguate!"
"""
last-postmask $args $maf | gzip --no-name > ${prefix}.maf.gz
# last-postmask does not have a --version option
cat <<-END_VERSIONS > versions.yml
"${task.process}":
last: \$(lastal --version 2>&1 | sed 's/lastal //')
END_VERSIONS
"""
}