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https://github.com/MillironX/nf-core_modules.git
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a552d97849
* added sarscov2 vcf data; adjusted bcftools tests * updated README.md * deleted old VCF files; fixed mergevcfs * fixed tabix
15 lines
709 B
Text
15 lines
709 B
Text
#!/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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'args3': '--no-version' ] )
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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("${launchDir}/tests/data/genomics/sarscov2/bam/test_paired_end.sorted.bam", checkIfExists: true) ]]
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fasta = [ file("${launchDir}/tests/data/genomics/sarscov2/fasta/test_genome.fasta", checkIfExists: true) ]
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BCFTOOLS_MPILEUP ( input, fasta )
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}
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