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https://github.com/MillironX/nf-core_modules.git
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682f789f93
* Bump tool versions for modules required in viralrecon * Fix all the tests * Fix Prettier lint * Remove empty md5sums
55 lines
1.3 KiB
Text
55 lines
1.3 KiB
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { FASTQC } from '../../../../modules/fastqc/main.nf'
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include { MULTIQC } from '../../../../modules/multiqc/main.nf'
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include { CUSTOM_DUMPSOFTWAREVERSIONS } from '../../../../modules/custom/dumpsoftwareversions/main.nf'
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workflow fastqc1 {
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take:
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input
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main:
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FASTQC ( input )
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emit:
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versions = FASTQC.out.versions
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}
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workflow fastqc2 {
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take:
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input
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main:
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FASTQC ( input )
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emit:
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versions = FASTQC.out.versions
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zip = FASTQC.out.zip
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}
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workflow test_custom_dumpsoftwareversions {
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input = [
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[ id: 'test', single_end: false ],
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[
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file(params.test_data['sarscov2']['illumina']['test_1_fastq_gz'], checkIfExists: true),
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file(params.test_data['sarscov2']['illumina']['test_2_fastq_gz'], checkIfExists: true)
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]
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]
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// Using subworkflows to ensure that the script can properly handle
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// cases where subworkflows have a module with the same name.
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fastqc1 ( input )
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fastqc2 ( input )
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MULTIQC ( fastqc2.out.zip.collect { it[1] }, [[],[]] )
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fastqc1
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.out
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.versions
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.mix(fastqc2.out.versions)
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.mix(MULTIQC.out.versions)
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.set { ch_software_versions }
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CUSTOM_DUMPSOFTWAREVERSIONS ( ch_software_versions.collectFile() )
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}
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