2021-02-17 16:25:41 +00:00
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#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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2021-02-23 10:26:54 +00:00
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include { SEQKIT_SPLIT2_LENGTH } from '../../../../software/SEQKIT/SPLIT2/main.nf' addParams( options: ['args': '--by-length 26K'] )
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include { SEQKIT_SPLIT2_SIZE } from '../../../../software/SEQKIT/SPLIT2/main.nf' addParams( options: ['args': '--by-size 5000 ' ] )
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2021-02-22 21:43:32 +00:00
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include { SEQKIT_SPLIT2_PART } from '../../../../software/SEQKIT/SPLIT2/main.nf' addParams( options: ['args': '--by-part 2 '] )
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2021-02-17 16:25:41 +00:00
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2021-02-22 21:43:32 +00:00
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workflow test_seqkit_split2_length_single_end {
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2021-02-17 16:25:41 +00:00
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def input = []
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input = [ [ id:'test', single_end:true ], // meta map
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file("${launchDir}/tests/data/dna/SRR396636_R1.fastq.gz", checkIfExists: true) ]
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2021-02-22 21:43:32 +00:00
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SEQKIT_SPLIT2_LENGTH ( input )
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2021-02-17 16:25:41 +00:00
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}
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2021-02-22 21:43:32 +00:00
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workflow test_seqkit_split2_size_single_end {
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def input = []
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input = [ [ id:'test', single_end:true ], // meta map
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file("${launchDir}/tests/data/dna/SRR396636_R1.fastq.gz", checkIfExists: true) ]
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SEQKIT_SPLIT2_SIZE ( input )
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}
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workflow test_seqkit_split2_part_single_end {
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def input = []
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input = [ [ id:'test', single_end:true ], // meta map
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file("${launchDir}/tests/data/dna/SRR396636_R1.fastq.gz", checkIfExists: true) ]
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SEQKIT_SPLIT2_PART ( input )
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}
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workflow test_seqkit_split2_length_paired_end {
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def input = []
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input = [ [ id:'test', single_end:false ], // meta map
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file("${launchDir}/tests/data/dna/SRR396636_*", checkIfExists: true) ]
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SEQKIT_SPLIT2_LENGTH ( input )
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}
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workflow test_seqkit_split2_size_paired_end {
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def input = []
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input = [ [ id:'test', single_end:false ], // meta map
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file("${launchDir}/tests/data/dna/SRR396636_*", checkIfExists: true) ]
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SEQKIT_SPLIT2_SIZE ( input )
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}
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workflow test_seqkit_split2_part_paired_end {
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2021-02-17 16:25:41 +00:00
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def input = []
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input = [ [ id:'test', single_end:false ], // meta map
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file("${launchDir}/tests/data/dna/SRR396636_*", checkIfExists: true) ]
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2021-02-22 21:43:32 +00:00
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SEQKIT_SPLIT2_PART ( input )
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2021-02-17 16:25:41 +00:00
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}
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