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15 lines
641 B
Text
15 lines
641 B
Text
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#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { ALLELECOUNTER } from '../../../software/allelecounter/main.nf' addParams( options: [:] )
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workflow test_allelecounter {
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def input = []
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input = [ [ id:'test', single_end:false ], // meta map
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file("${launchDir}/tests/data/genomics/sarscov2/bam/test_paired_end.sorted.bam", checkIfExists: true),
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file("${launchDir}/tests/data/genomics/sarscov2/bam/test_paired_end.sorted.bam.bai", checkIfExists: true)]
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positions = [ file("${launchDir}/tests/data/genomics/sarscov2/bed/test.bed", checkIfExists: true) ]
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ALLELECOUNTER ( input, positions )
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}
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