diff --git a/tests/software/seqkit/split2/main.nf b/tests/software/seqkit/split2/main.nf index 25d47b42..4377cac2 100644 --- a/tests/software/seqkit/split2/main.nf +++ b/tests/software/seqkit/split2/main.nf @@ -2,20 +2,54 @@ nextflow.enable.dsl = 2 -include { SEQKIT_SPLIT2 } from '../../../../software/SEQKIT/SPLIT2/main.nf' addParams( options: [:] ) +include { SEQKIT_SPLIT2_LENGTH } from '../../../../software/SEQKIT/SPLIT2/main.nf' addParams( options: ['args': '--by-length 2'] ) +include { SEQKIT_SPLIT2_SIZE } from '../../../../software/SEQKIT/SPLIT2/main.nf' addParams( options: ['args': '--by-size 2 ' ] ) +include { SEQKIT_SPLIT2_PART } from '../../../../software/SEQKIT/SPLIT2/main.nf' addParams( options: ['args': '--by-part 2 '] ) -workflow test_seqkit_split2_single_end { +workflow test_seqkit_split2_length_single_end { def input = [] input = [ [ id:'test', single_end:true ], // meta map file("${launchDir}/tests/data/dna/SRR396636_R1.fastq.gz", checkIfExists: true) ] - SEQKIT_SPLIT2 ( input ) + SEQKIT_SPLIT2_LENGTH ( input ) } -workflow test_seqkit_split2_paired_end { +workflow test_seqkit_split2_size_single_end { + def input = [] + input = [ [ id:'test', single_end:true ], // meta map + file("${launchDir}/tests/data/dna/SRR396636_R1.fastq.gz", checkIfExists: true) ] + + SEQKIT_SPLIT2_SIZE ( input ) +} + +workflow test_seqkit_split2_part_single_end { + def input = [] + input = [ [ id:'test', single_end:true ], // meta map + file("${launchDir}/tests/data/dna/SRR396636_R1.fastq.gz", checkIfExists: true) ] + + SEQKIT_SPLIT2_PART ( input ) +} + +workflow test_seqkit_split2_length_paired_end { def input = [] input = [ [ id:'test', single_end:false ], // meta map file("${launchDir}/tests/data/dna/SRR396636_*", checkIfExists: true) ] - SEQKIT_SPLIT2 ( input ) + SEQKIT_SPLIT2_LENGTH ( input ) +} + +workflow test_seqkit_split2_size_paired_end { + def input = [] + input = [ [ id:'test', single_end:false ], // meta map + file("${launchDir}/tests/data/dna/SRR396636_*", checkIfExists: true) ] + + SEQKIT_SPLIT2_SIZE ( input ) +} + +workflow test_seqkit_split2_part_paired_end { + def input = [] + input = [ [ id:'test', single_end:false ], // meta map + file("${launchDir}/tests/data/dna/SRR396636_*", checkIfExists: true) ] + + SEQKIT_SPLIT2_PART ( input ) } \ No newline at end of file