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migrate untar to versions topic #9749

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12 changes: 1 addition & 11 deletions modules/nf-core/untar/main.nf
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Original file line number Diff line number Diff line change
Expand Up @@ -12,7 +12,7 @@ process UNTAR {

output:
tuple val(meta), path("${prefix}"), emit: untar
path "versions.yml", emit: versions
tuple val("${task.process}"), val('tar'), eval("tar --version | head -n 1 | cut -f4 -d ' '"), topic: versions, emit: versions_tar

when:
task.ext.when == null || task.ext.when
Expand Down Expand Up @@ -42,11 +42,6 @@ process UNTAR {
${archive} \\
${args2}
fi

cat <<-END_VERSIONS > versions.yml
"${task.process}":
untar: \$(echo \$(tar --version 2>&1) | sed 's/^.*(GNU tar) //; s/ Copyright.*\$//')
END_VERSIONS
"""

stub:
Expand Down Expand Up @@ -75,10 +70,5 @@ process UNTAR {
fi
done
fi

cat <<-END_VERSIONS > versions.yml
"${task.process}":
untar: \$(echo \$(tar --version 2>&1) | sed 's/^.*(GNU tar) //; s/ Copyright.*\$//')
END_VERSIONS
"""
}
28 changes: 22 additions & 6 deletions modules/nf-core/untar/meta.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -38,18 +38,34 @@ output:
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
pattern: "*/"
versions_tar:
- - ${task.process}:
type: string
description: The name of the process
- tar:
type: string
description: The name of the tool
- "tar --version | head -n 1 | cut -f4 -d ' '":
type: eval
description: The expression to obtain the version of the tool

topics:
versions:
- versions.yml:
type: file
description: File containing software versions
pattern: "versions.yml"
ontologies:
- edam: http://edamontology.org/format_3750 # YAML
- - ${task.process}:
type: string
description: The name of the process
- tar:
type: string
description: The name of the tool
- "tar --version | head -n 1 | cut -f4 -d ' '":
type: eval
description: The expression to obtain the version of the tool
authors:
- "@joseespinosa"
- "@drpatelh"
- "@matthdsm"
- "@jfy133"
- "@eit-maxlcummins"
maintainers:
- "@joseespinosa"
- "@drpatelh"
Expand Down
80 changes: 56 additions & 24 deletions modules/nf-core/untar/tests/main.nf.test.snap
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Original file line number Diff line number Diff line change
Expand Up @@ -13,7 +13,11 @@
]
],
"1": [
"versions.yml:md5,6063247258c56fd271d076bb04dd7536"
[
"UNTAR",
"tar",
"1.34"
]
],
"untar": [
[
Expand All @@ -25,16 +29,20 @@
]
]
],
"versions": [
"versions.yml:md5,6063247258c56fd271d076bb04dd7536"
"versions_tar": [
[
"UNTAR",
"tar",
"1.34"
]
]
}
],
"meta": {
"nf-test": "0.8.4",
"nextflow": "24.04.3"
"nf-test": "0.9.3",
"nextflow": "25.10.2"
},
"timestamp": "2024-07-10T12:04:28.231047"
"timestamp": "2026-01-22T14:15:23.063536907"
},
"test_untar_onlyfiles - stub": {
"content": [
Expand All @@ -50,7 +58,11 @@
]
],
"1": [
"versions.yml:md5,6063247258c56fd271d076bb04dd7536"
[
"UNTAR",
"tar",
"1.34"
]
],
"untar": [
[
Expand All @@ -62,16 +74,20 @@
]
]
],
"versions": [
"versions.yml:md5,6063247258c56fd271d076bb04dd7536"
"versions_tar": [
[
"UNTAR",
"tar",
"1.34"
]
]
}
],
"meta": {
"nf-test": "0.8.4",
"nextflow": "24.04.3"
"nf-test": "0.9.3",
"nextflow": "25.10.2"
},
"timestamp": "2024-07-10T12:04:45.773103"
"timestamp": "2026-01-22T14:15:34.84221815"
},
"test_untar - stub": {
"content": [
Expand All @@ -89,7 +105,11 @@
]
],
"1": [
"versions.yml:md5,6063247258c56fd271d076bb04dd7536"
[
"UNTAR",
"tar",
"1.34"
]
],
"untar": [
[
Expand All @@ -103,16 +123,20 @@
]
]
],
"versions": [
"versions.yml:md5,6063247258c56fd271d076bb04dd7536"
"versions_tar": [
[
"UNTAR",
"tar",
"1.34"
]
]
}
],
"meta": {
"nf-test": "0.8.4",
"nextflow": "24.04.3"
"nf-test": "0.9.3",
"nextflow": "25.10.2"
},
"timestamp": "2024-07-10T12:04:36.777441"
"timestamp": "2026-01-22T14:15:28.946517024"
},
"test_untar": {
"content": [
Expand All @@ -130,7 +154,11 @@
]
],
"1": [
"versions.yml:md5,6063247258c56fd271d076bb04dd7536"
[
"UNTAR",
"tar",
"1.34"
]
],
"untar": [
[
Expand All @@ -144,15 +172,19 @@
]
]
],
"versions": [
"versions.yml:md5,6063247258c56fd271d076bb04dd7536"
"versions_tar": [
[
"UNTAR",
"tar",
"1.34"
]
]
}
],
"meta": {
"nf-test": "0.8.4",
"nextflow": "24.04.3"
"nf-test": "0.9.3",
"nextflow": "25.10.2"
},
"timestamp": "2024-07-10T12:04:19.377674"
"timestamp": "2026-01-22T14:15:17.05337819"
}
}
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