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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
15 lines
563 B
Text
15 lines
563 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { IVAR_TRIM } from '../../../../modules/ivar/trim/main.nf' addParams([:])
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workflow test_ivar_trim {
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input = [ [ id:'test'],
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file(params.test_data['sarscov2']['illumina']['test_paired_end_sorted_bam'], checkIfExists: true),
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file(params.test_data['sarscov2']['illumina']['test_paired_end_sorted_bam_bai'], checkIfExists: true)
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]
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bed_file = file(params.test_data['sarscov2']['genome']['test_bed'], checkIfExists: true)
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IVAR_TRIM ( input, bed_file )
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}
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