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fix config

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This commit is contained in:
Matthias De Smet 2022-05-17 09:09:19 +02:00
parent 743e95c61b
commit c5627e0274
2 changed files with 6 additions and 6 deletions
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8
tests/modules/biobambam/bammerge/nextflow.config
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@ -2,12 +2,12 @@ process {
publishDir = { "${params.outdir}/${task.process.tokenize(':')[-1].tokenize('_')[0].toLowerCase()}" } publishDir = { "${params.outdir}/${task.process.tokenize(':')[-1].tokenize('_')[0].toLowerCase()}" }
withName: BIOBAMBAM_BAMMERGE { withName: BIOBAMBAM_BAMMERGE {
ext.args = [ ext.args = {[
"md5=1", "md5=1",
{"md5filename=${meta.id}.md5"}, "md5filename=${meta.id}.md5",
"index=1", "index=1",
{"indexfilename=${meta.id}.bam.bai"} "indexfilename=${meta.id}.bam.bai"
].join(" ").trim() ].join(" ").trim()}
} }
} }

4
tests/modules/biobambam/bammerge/test.yml
View file

@ -1,8 +1,8 @@
- name: biobambam bammerge test_biobambam_bammerge_paired - name: biobambam bammerge test_biobambam_bammerge_paired
command: nextflow run ./tests/modules/biobambam/bammerge -entry test_biobambam_bammerge_paired -c ./tests/config/nextflow.config -c ./tests/modules/biobambam/bammerge/nextflow.config command: nextflow run ./tests/modules/biobambam/bammerge -entry test_biobambam_bammerge_paired -c ./tests/config/nextflow.config -c ./tests/modules/biobambam/bammerge/nextflow.config
tags: tags:
- biobambam
- biobambam/bammerge - biobambam/bammerge
- biobambam
files: files:
- path: output/biobambam/test.bam - path: output/biobambam/test.bam
md5sum: bc3d32ab6a54d1894ca7cc79387dec57 md5sum: bc3d32ab6a54d1894ca7cc79387dec57
@ -14,8 +14,8 @@
- name: biobambam bammerge test_biobambam_bammerge_single - name: biobambam bammerge test_biobambam_bammerge_single
command: nextflow run ./tests/modules/biobambam/bammerge -entry test_biobambam_bammerge_single -c ./tests/config/nextflow.config -c ./tests/modules/biobambam/bammerge/nextflow.config command: nextflow run ./tests/modules/biobambam/bammerge -entry test_biobambam_bammerge_single -c ./tests/config/nextflow.config -c ./tests/modules/biobambam/bammerge/nextflow.config
tags: tags:
- biobambam
- biobambam/bammerge - biobambam/bammerge
- biobambam
files: files:
- path: output/biobambam/test.bam - path: output/biobambam/test.bam
md5sum: 86185d3d6895a7722d3b3a09c6f91bfc md5sum: 86185d3d6895a7722d3b3a09c6f91bfc