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Add stub test for interproscan
1 parent e9c9c8a commit 0ef6a73

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Lines changed: 206 additions & 67 deletions

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‎modules/local/interproscan/main.nf‎

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -63,7 +63,7 @@ process INTERPROSCAN {
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stub:
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def prefix = task.ext.prefix ?: "${meta.id}"
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"""
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echo '' > ${prefix}.{tsv,xml,gff3,json}
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touch ${prefix}.{tsv,xml,gff3,json}
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gzip ${prefix}.{tsv,xml,gff3,json}
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cat <<-END_VERSIONS > versions.yml

‎modules/local/interproscan/tests/main.nf.test‎

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Original file line numberDiff line numberDiff line change
@@ -35,4 +35,31 @@ nextflow_process {
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)
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}
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}
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test("stub") {
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tag "stub"
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options "-stub"
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when {
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process {
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"""
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input[0] = [
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[ id:'test', single_end:false ], // meta map
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file("${moduleDir}/tests/fixtures/test.fasta", checkIfExists: true)
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]
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input[1] = [
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file("${moduleDir}/tests/fixtures/interproscan_db/data", type: 'dir', checkIfExists: true),
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"5.73-104.0"
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]
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"""
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}
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}
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then {
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assertAll(
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{ assert process.success },
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{ assert snapshot(process.out).match() }
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)
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}
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}
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}

‎modules/local/interproscan/tests/main.nf.test.snap‎

Lines changed: 178 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -1,4 +1,182 @@
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{
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"stub": {
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"content": [
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{
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"0": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.tsv.gz:md5,d41d8cd98f00b204e9800998ecf8427e"
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]
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],
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"1": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.xml.gz:md5,d41d8cd98f00b204e9800998ecf8427e"
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]
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],
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"2": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.gff3.gz:md5,d41d8cd98f00b204e9800998ecf8427e"
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]
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],
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"3": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.json.gz:md5,d41d8cd98f00b204e9800998ecf8427e"
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]
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],
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"4": [
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"versions.yml:md5,7f61cf700565d5b1ab2ca54b0b72fc71"
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],
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"gff3": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.gff3.gz:md5,d41d8cd98f00b204e9800998ecf8427e"
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]
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],
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"json": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.json.gz:md5,d41d8cd98f00b204e9800998ecf8427e"
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]
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],
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"tsv": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.tsv.gz:md5,d41d8cd98f00b204e9800998ecf8427e"
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]
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],
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"versions": [
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"versions.yml:md5,7f61cf700565d5b1ab2ca54b0b72fc71"
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],
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"xml": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.xml.gz:md5,d41d8cd98f00b204e9800998ecf8427e"
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]
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]
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}
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],
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"meta": {
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"nf-test": "0.9.2",
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"nextflow": "25.04.1"
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},
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"timestamp": "2025-06-03T10:20:57.667222"
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},
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"test_interproscan": {
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"content": [
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{
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"0": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.tsv.gz:md5,661955c0a94d4ce157c7d5ef20f577f5"
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]
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],
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"1": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.xml.gz:md5,9beb149a99617063786988d589e2c643"
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]
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],
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"2": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.gff3.gz:md5,2d4642079db375e6a7f993018c57a1f0"
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]
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],
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"3": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.json.gz:md5,ddbacbf940ae30fb97d0a279b949a37c"
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]
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],
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"4": [
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"versions.yml:md5,7f61cf700565d5b1ab2ca54b0b72fc71"
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],
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"gff3": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.gff3.gz:md5,2d4642079db375e6a7f993018c57a1f0"
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]
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],
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"json": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.json.gz:md5,ddbacbf940ae30fb97d0a279b949a37c"
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]
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],
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"tsv": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.tsv.gz:md5,661955c0a94d4ce157c7d5ef20f577f5"
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]
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],
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"versions": [
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"versions.yml:md5,7f61cf700565d5b1ab2ca54b0b72fc71"
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],
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"xml": [
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[
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{
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"id": "test",
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"single_end": false
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},
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"test.xml.gz:md5,9beb149a99617063786988d589e2c643"
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]
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]
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}
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],
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"meta": {
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"nf-test": "0.9.2",
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"nextflow": "25.04.1"
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},
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"timestamp": "2025-06-03T10:19:17.838985"
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},
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"interproscan": {
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"content": [
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{

‎modules/nf-core/interproscan/main.nf‎

Lines changed: 0 additions & 66 deletions
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