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lint + code polish unzip #8924

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d20dc69
lint + code polish unzip
maxulysse Aug 19, 2025
1b7435a
Merge branch 'master' into unzip
famosab Aug 26, 2025
0864378
Merge branch 'master' into unzip
famosab Oct 13, 2025
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27 changes: 15 additions & 12 deletions modules/nf-core/unzip/main.nf
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Original file line number Diff line number Diff line change
@@ -1,32 +1,34 @@
process UNZIP {
tag "$archive"
tag "${archive}"
label 'process_single'

conda "${moduleDir}/environment.yml"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/p7zip:16.02' :
'biocontainers/p7zip:16.02' }"
container "${workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container
? 'https://depot.galaxyproject.org/singularity/p7zip:16.02'
: 'biocontainers/p7zip:16.02'}"

input:
tuple val(meta), path(archive)

output:
tuple val(meta), path("${prefix}/"), emit: unzipped_archive
path "versions.yml" , emit: versions
path "versions.yml", emit: versions

when:
task.ext.when == null || task.ext.when

script:
def args = task.ext.args ?: ''
if ( archive instanceof List && archive.name.size > 1 ) { error "[UNZIP] error: 7za only accepts a single archive as input. Please check module input." }
prefix = task.ext.prefix ?: ( meta.id ? "${meta.id}" : archive.baseName)
if (archive instanceof List && archive.name.size > 1) {
error("[UNZIP] error: 7za only accepts a single archive as input. Please check module input.")
}
prefix = task.ext.prefix ?: (meta.id ? "${meta.id}" : archive.baseName)
"""
7za \\
x \\
-o"${prefix}"/ \\
$args \\
$archive
${args} \\
${archive}

cat <<-END_VERSIONS > versions.yml
"${task.process}":
Expand All @@ -35,9 +37,10 @@ process UNZIP {
"""

stub:
def args = task.ext.args ?: ''
if ( archive instanceof List && archive.name.size > 1 ) { error "[UNZIP] error: 7za only accepts a single archive as input. Please check module input." }
prefix = task.ext.prefix ?: ( meta.id ? "${meta.id}" : archive.baseName)
if (archive instanceof List && archive.name.size > 1) {
error("[UNZIP] error: 7za only accepts a single archive as input. Please check module input.")
}
prefix = task.ext.prefix ?: (meta.id ? "${meta.id}" : archive.baseName)
"""
mkdir "${prefix}"

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