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e937c7950a
* Update README * Rename pytest_software.yml to pytest_modules.yml * Rename main software directory to modules * Remove deprecated modules * Rename tests software to modules * Replace paths for tests in pytest_modules.yml * Replace software with modules in Github Actions * Replace software with modules in main.nf tests * Rename software to modules in test.yml
26 lines
809 B
Text
26 lines
809 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { TIDDIT_SV } from '../../../../modules/tiddit/sv/main.nf' addParams( options: [:] )
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workflow test_tiddit_sv {
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input = [
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[ id:'test' ], // meta map
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[ file(params.test_data['sarscov2']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true) ]
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]
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fasta = file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
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fai = file(params.test_data['sarscov2']['genome']['genome_fasta_fai'], 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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input = [
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[ id:'test' ], // meta map
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[ file(params.test_data['sarscov2']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true) ]
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]
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TIDDIT_SV ( input, [], [] )
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}
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