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17 lines
523 B
Text
17 lines
523 B
Text
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#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { LOFREQ_INDELQUAL } from '../../../../software/lofreq/indelqual/main.nf' addParams( options: [ 'args': '--dindel', 'suffix':'.indelqual'] )
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workflow test_lofreq_indelqual {
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input = [ [ id:'test' ], // meta map
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file(params.test_data['sarscov2']['illumina']['test_paired_end_bam'], checkIfExists: true) ]
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fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
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LOFREQ_INDELQUAL ( input, fasta )
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}
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