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32 lines
1.1 KiB
Text
32 lines
1.1 KiB
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { ADAPTERREMOVAL } from '../../../software/adapterremoval/main.nf' addParams( options: [:] )
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workflow test_adapterremoval_single_end {
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input = [ [ id:'test', single_end:true, collapse:false ], // meta map
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file(params.test_data['sarscov2']['illumina']['test_1_fastq_gz'], checkIfExists: true)
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]
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ADAPTERREMOVAL ( input )
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}
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workflow test_adapterremoval_paired_end {
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input = [ [ id:'test', single_end:false, collapse:false ], // meta map
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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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ADAPTERREMOVAL ( input )
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}
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workflow test_adapterremoval_paired_end_collapse {
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input = [ [ id:'test', single_end:false, collapse:true ], // meta map
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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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ADAPTERREMOVAL ( input )
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}
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