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38 lines
1 KiB
Text
38 lines
1 KiB
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { FASTQC as FASTQC_SE } from '../../../software/fastqc/main.nf' addParams( options: [ publish_dir:'test_single_end' ] )
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include { FASTQC as FASTQC_PE } from '../../../software/fastqc/main.nf' addParams( options: [ publish_dir:'test_paired_end' ] )
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/*
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* Test with single-end data
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*/
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workflow test_single_end {
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def input = []
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input = [ [ id:'test', single_end:true ], // meta map
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[ file("${launchDir}/tests/data/fastq/rna/test_single_end.fastq.gz", checkIfExists: true) ] ]
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FASTQC_SE ( input )
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}
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/*
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* Test with paired-end data
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*/
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workflow test_paired_end {
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def input = []
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input = [[id: 'test', single_end: false], // meta map
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[file("${launchDir}/tests/data/fastq/rna/test_R1.fastq.gz", checkIfExists: true),
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file("${launchDir}/tests/data/fastq/rna/test_R2.fastq.gz", checkIfExists: true)]]
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FASTQC_PE(input)
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emit:
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html = FASTQC_PE.out.html
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zip = FASTQC_PE.out.zip
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}
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// TODO Test e2e
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