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* Update meta.yml by fixing html pattern expected Fixed html pattern typo: Before: pattern: "*.thml" After fix: pattern: "*.html" * main.nf for bbmap_clumpify * meta.yml for bbmap_clumpify * bbmap/clumpify via Gitpod and @mahesh-panchal guide * small changes to tests * explicit mention of output file pattern - *.clumped.fastq.gz * Update modules/bbmap/clumpify/main.nf Co-authored-by: Mahesh Binzer-Panchal <mahesh.binzer-panchal@nbis.se> * Update modules/bbmap/clumpify/main.nf Accepted @mahesh-panchal suggestions Co-authored-by: Mahesh Binzer-Panchal <mahesh.binzer-panchal@nbis.se> Co-authored-by: Mahesh Binzer-Panchal <mahesh.binzer-panchal@nbis.se> Co-authored-by: Matthias De Smet <11850640+matthdsm@users.noreply.github.com>
24 lines
741 B
Text
24 lines
741 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { BBMAP_CLUMPIFY } from '../../../../modules/bbmap/clumpify/main.nf'
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workflow test_bbmap_clumpify_single_end {
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input = [ [ id:'test', single_end:true ], // 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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BBMAP_CLUMPIFY ( input )
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}
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workflow test_bbmap_clumpify_paired_end {
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input = [ [ id:'test', single_end: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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BBMAP_CLUMPIFY ( input )
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}
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