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22 lines
829 B
Text
22 lines
829 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { GATK4_MARKDUPLICATES } from '../../../../modules/gatk4/markduplicates/main.nf' addParams( options: [:] )
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workflow test_gatk4_markduplicates {
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input = [ [ id:'test', single_end:false ], // meta map
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file(params.test_data['sarscov2']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true)
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]
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GATK4_MARKDUPLICATES ( input )
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}
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workflow test_gatk4_markduplicates_multiple_bams {
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input = [ [ id:'test', single_end:false ], // meta map
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[ file(params.test_data['homo_sapiens']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true),
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file(params.test_data['homo_sapiens']['illumina']['test2_paired_end_sorted_bam'], checkIfExists: true)
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] ]
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GATK4_MARKDUPLICATES ( input )
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}
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