nf-core_modules/modules/untar/main.nf
James A. Fellows Yates 7ec09d0ef4
Fix: use actual tar conda environment for untar module (#1362)
* fix: remove left-over unnecessary code

* Update main.nf

* Update modules/untar/main.nf
2022-03-01 12:41:20 +01:00

36 lines
987 B
Text

process UNTAR {
tag "$archive"
label 'process_low'
conda (params.enable_conda ? "conda-forge::tar=1.32" : null)
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://containers.biocontainers.pro/s3/SingImgsRepo/biocontainers/v1.2.0_cv1/biocontainers_v1.2.0_cv1.img' :
'biocontainers/biocontainers:v1.2.0_cv1' }"
input:
path archive
output:
path "$untar" , emit: untar
path "versions.yml", emit: versions
when:
task.ext.when == null || task.ext.when
script:
def args = task.ext.args ?: ''
def args2 = task.ext.args2 ?: ''
untar = archive.toString() - '.tar.gz'
"""
tar \\
-xzvf \\
$args \\
$archive \\
$args2 \\
cat <<-END_VERSIONS > versions.yml
"${task.process}":
untar: \$(echo \$(tar --version 2>&1) | sed 's/^.*(GNU tar) //; s/ Copyright.*\$//')
END_VERSIONS
"""
}