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Abhinav Sharma 2020-12-03 09:42:34 +05:30 committed by Abhinav Sharma
parent 5fd3ba3ce6
commit 84c0bda00e
2 changed files with 15 additions and 12 deletions
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13
tests/software/fastqc/main.nf
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@ -23,9 +23,14 @@ workflow test_single_end {
workflow test_paired_end { workflow test_paired_end {
def input = [] def input = []
input = [ [ id:'test', single_end:false ], // meta map input = [[id: 'test', single_end: false], // meta map
[ file("${launchDir}/tests/data/fastq/rna/test_R1.fastq.gz", checkIfExists: true), [file("${launchDir}/tests/data/fastq/rna/test_R1.fastq.gz", checkIfExists: true),
file("${launchDir}/tests/data/fastq/rna/test_R2.fastq.gz", checkIfExists: true) ] ] file("${launchDir}/tests/data/fastq/rna/test_R2.fastq.gz", checkIfExists: true)]]
FASTQC_PE(input)
emit:
html = FASTQC_PE.out.html
zip = FASTQC_PE.out.zip
FASTQC_PE ( input )
} }

14
tests/software/multiqc/main.nf
View file

@ -3,17 +3,15 @@
nextflow.enable.dsl = 2 nextflow.enable.dsl = 2
include { MULTIQC } from '../../../software/multiqc/main.nf' addParams(options: [publish_dir: 'test_multiqc']) include { MULTIQC } from '../../../software/multiqc/main.nf' addParams(options: [publish_dir: 'test_multiqc'])
include { test_paired_end } from '../fastqc/main.nf' addParams( options: [ publish_dir:'test_paired_end' ] )
workflow test_multiqc { workflow test_multiqc {
test_paired_end()
def input = [] input = [
[id: 'test'],
input = [[id: 'test'], // meta map test_paired_end.out.html.join(test_paired_end.out.zip, by: 0).flatten().filter(java.nio.file.Path).toList()
[file("${launchDir}/tests/data/fastqc/test_1_fastqc.html", checkIfExists: true), ]
file("${launchDir}/tests/data/fastqc/test_1_fastqc.zip", checkIfExists: true),
file("${launchDir}/tests/data/fastqc/test_2_fastqc.html", checkIfExists: true),
file("${launchDir}/tests/data/fastqc/test_2_fastqc.zip", checkIfExists: true)]]
MULTIQC(input) MULTIQC(input)
} }