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17 lines
546 B
Text
17 lines
546 B
Text
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#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { BCFTOOLS_MPILEUP } from '../../../../software/bcftools/mpileup/main.nf' addParams( options: ['args2': '--no-version --ploidy 1 --multiallelic-caller'] )
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workflow test_bcftools_mpileup {
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def input = []
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input = [ [ id:'test' ], // meta map
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[ file("${launchDir}/tests/data/bam/test-sc2-artic-v3.bam", checkIfExists: true) ]]
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fasta = [ file("${launchDir}/tests/data/fasta/sarscov2/MN908947.3.fa", checkIfExists: true) ]
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BCFTOOLS_MPILEUP ( input, fasta )
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}
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