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29 lines
1 KiB
Text
29 lines
1 KiB
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { PICARD_MERGESAMFILES } from '../../../software/picard/mergesamfiles/main.nf' addParams( options: [:] )
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include { PICARD_COLLECTMULTIPLEMETRICS } from '../../../software/picard/collectmultiplemetrics/main.nf' addParams( options: [:] )
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workflow test_picard_mergesamfiles {
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def input = []
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input = [ [ id:'test', single_end:false ], // meta map
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[ file("${launchDir}/tests/data/bam/test.paired_end.sorted.bam", checkIfExists: true),
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file("${launchDir}/tests/data/bam/test.paired_end.name.sorted.bam", checkIfExists: true), ] ]
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PICARD_MERGESAMFILES ( input )
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}
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workflow test_picard_collectmultiplemetrics {
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def input = []
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input = [ [ id:'test', single_end:false ], // meta map
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file("${launchDir}/tests/data/bam/test.paired_end.name.sorted.bam", checkIfExists: true) ]
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PICARD_COLLECTMULTIPLEMETRICS (
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input,
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file("${launchDir}/tests/data/fasta/E_coli/NC_010473.fa", checkIfExists: true)
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)
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}
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