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24 lines
762 B
Text
24 lines
762 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { MASH_SKETCH } from '../../../../modules/mash/sketch/main.nf'
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include { MASH_SCREEN } from '../../../../modules/mash/screen/main.nf'
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workflow test_mash_screen {
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input = [
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[ id:'test', single_end:false], // meta map
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[
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file(params.test_data['sarscov2']['illumina']['test_1_fastq_gz'], checkIfExists: true),
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file(params.test_data['sarscov2']['illumina']['test_2_fastq_gz'], checkIfExists: true)
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]
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]
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sars_db = [
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[ id: 'sars_db' ],
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file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists: true)
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]
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MASH_SKETCH ( sars_db )
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MASH_SCREEN ( input, MASH_SKETCH.out.mash.map { meta, sketch -> sketch } )
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}
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