millironx/nf-core_modules
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Update the signatures

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This commit is contained in:
Abhinav Sharma 2020-12-04 12:25:16 +05:30
parent a30df8a59b
commit 3da7aec183
3 changed files with 10 additions and 10 deletions
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6
software/multiqc/main.nf
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@ -15,8 +15,8 @@ process MULTIQC {
container "quay.io/biocontainers/multiqc:1.9--pyh9f0ad1d_0" container "quay.io/biocontainers/multiqc:1.9--pyh9f0ad1d_0"
input: input:
// path multiqc_config path multiqc_config
// path multiqc_custom_config path multiqc_custom_config
path('fastqc/*') path('fastqc/*')
output: output:
@ -25,7 +25,7 @@ process MULTIQC {
path "*_plots", optional: true, emit: plots path "*_plots", optional: true, emit: plots
script: script:
// def custom_config = params.multiqc_config ? "--config $multiqc_custom_config" : '' def custom_config = params.multiqc_config ? "--config $multiqc_custom_config" : ''
""" """
multiqc -f $options.args $custom_config . multiqc -f $options.args $custom_config .
""" """

0
tests/data/multiqc/multiqc_config.yaml Normal file
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14
tests/software/multiqc/main.nf
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@ -3,19 +3,19 @@
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' ] ) include { test_paired_end } from '../fastqc/main.nf' addParams(options: [publish_dir: 'test_paired_end'])
ch_multiqc_config = file("$launchDir/tests/data/multiqc/multiqc_config.yaml", checkIfExists: true)
ch_multiqc_custom_config = params.multiqc_config ? Channel.fromPath(params.multiqc_config) : Channel.empty()
workflow test_multiqc { workflow test_multiqc {
test_paired_end() test_paired_end()
// test_paired_end.out.html.collect { it[1] }
// .join(test_paired_end.out.zip)
// .view()
input = [ input = [
ch_multiqc_config,
ch_multiqc_custom_config.collect().ifEmpty([]),
test_paired_end.out.zip.collect { it[1] }.ifEmpty([]) test_paired_end.out.zip.collect { it[1] }.ifEmpty([])
] ]
MULTIQC(input) MULTIQC(*input)
} }