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25 lines
881 B
Text
25 lines
881 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { TIDDIT_SV } from '../../../../software/tiddit/sv/main.nf' addParams( options: [:] )
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workflow test_tiddit_sv {
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def input = []
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def fasta = file("${launchDir}/tests/data/genomics/sarscov2/fasta/test_genome.fasta", checkIfExists: true)
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def fai = file("${launchDir}/tests/data/genomics/sarscov2/fasta/test_genome.fasta.fai", checkIfExists: true)
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input = [ [ id:'test' ], // meta map
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[ file("${launchDir}/tests/data/genomics/sarscov2/bam/test_paired_end.sorted.bam", checkIfExists: true) ] ]
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TIDDIT_SV ( input, fasta, fai )
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}
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workflow test_tiddit_sv_no_ref {
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def input = []
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input = [ [ id:'test' ], // meta map
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[ file("${launchDir}/tests/data/genomics/sarscov2/bam/test_paired_end.sorted.bam", checkIfExists: true) ] ]
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TIDDIT_SV ( input, [], [] )
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}
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