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23 lines
681 B
Text
23 lines
681 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { GATK4_SAMTOFASTQ } from '../../../../software/gatk4/samtofastq/main.nf' addParams( options: [:] )
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workflow test_gatk4_samtofastq_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("${launchDir}/tests/data/bam/test.single_end.sorted.bam", checkIfExists: true)] ]
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GATK4_SAMTOFASTQ ( input )
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}
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workflow test_gatk4_samtofastq_paired_end {
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def input = []
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input = [ [ id:'test', single_end: false ], // meta map
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[ file("${launchDir}/tests/data/bam/test.single_end.sorted.bam", checkIfExists: true)] ]
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GATK4_SAMTOFASTQ ( input )
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}
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