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be798861c6
* add module for abricate * rename abricate/abricate to abricate/run * Update test.yml Co-authored-by: Sateesh <33637490+sateeshperi@users.noreply.github.com>
21 lines
784 B
Text
21 lines
784 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { ABRICATE_RUN } from '../../../../modules/abricate/run/main.nf'
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include { ABRICATE_SUMMARY } from '../../../../modules/abricate/summary/main.nf'
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workflow test_abricate_summary {
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inputs = [
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tuple([ id:'test1', single_end:false ], // meta map
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file(params.test_data['bacteroides_fragilis']['genome']['genome_fna_gz'], checkIfExists: true)),
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tuple([ id:'test2', single_end:false ],
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file(params.test_data['haemophilus_influenzae']['genome']['genome_fna_gz'], checkIfExists: true))
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]
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ABRICATE_RUN ( Channel.fromList(inputs) )
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ABRICATE_SUMMARY (
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ABRICATE_RUN.out.report.collect{ meta, report -> report }.map{ report -> [[ id: 'test_summary'], report]}
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)
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}
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