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20 lines
797 B
Text
20 lines
797 B
Text
#!/usr/bin/env nextflow
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nextflow.preview.dsl = 2
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include '../main.nf' params(params)
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// Define input channels
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input_fastqs = Channel.fromFilePairs('../../../test-datasets/tools/cutadapt/input/*_{1,2}.fastq' )
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if(params.single_end){
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input_fastqs = Channel.from([
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['SRR4238351', '../../../test-datasets/tools/cutadapt/input/SRR4238351_subsamp.fastq.gz'],
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['SRR4238355', '../../../test-datasets/tools/cutadapt/input/SRR4238355_subsamp.fastq.gz'],
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['SRR4238359', '../../../test-datasets/tools/cutadapt/input/SRR4238359_subsamp.fastq.gz'],
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['SRR4238379', '../../../test-datasets/tools/cutadapt/input/SRR4238379_subsamp.fastq.gz']
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]).map { row -> [ row[0], [ file(row[1]) ] ] }
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}
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// Run the workflow
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workflow {
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cutadapt(input_fastqs)
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}
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