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acb1a12a56
* Re-organise all test data * Fix ECLint * Fix ECLint agaaainn * Now is not the time EClint
29 lines
1.2 KiB
Text
29 lines
1.2 KiB
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { STRINGTIE as STRINGTIE_FORWARD } from '../../../software/stringtie/main.nf' addParams( options: [ publish_dir:'test_stringtie_forward' ] )
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include { STRINGTIE as STRINGTIE_REVERSE } from '../../../software/stringtie/main.nf' addParams( options: [ publish_dir:'test_stringtie_reverse' ] )
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/*
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* Test with forward strandedness
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*/
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workflow test_stringtie_forward {
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input = [ [ id:'test', strandedness:'forward' ], // meta map
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[ file("${launchDir}/tests/data/genomics/sarscov2/illumina/bam/test_paired_end.sorted.bam", checkIfExists: true) ] ]
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gtf = file("${launchDir}/tests/data/genomics/sarscov2/genome/genome.gtf", checkIfExists: true)
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STRINGTIE_FORWARD ( input, gtf )
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}
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/*
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* Test with reverse strandedness
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*/
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workflow test_stringtie_reverse {
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input = [ [ id:'test', strandedness:'reverse' ], // meta map
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[ file("${launchDir}/tests/data/genomics/sarscov2/illumina/bam/test_paired_end.sorted.bam", checkIfExists: true) ]
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]
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gtf = file("${launchDir}/tests/data/genomics/sarscov2/genome/genome.gtf", checkIfExists: true)
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STRINGTIE_REVERSE ( input, gtf )
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}
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