diff --git a/modules/gatk4/calibratedragstrmodel/main.nf b/modules/gatk4/calibratedragstrmodel/main.nf index 08ba7008..37a54de4 100644 --- a/modules/gatk4/calibratedragstrmodel/main.nf +++ b/modules/gatk4/calibratedragstrmodel/main.nf @@ -1,6 +1,6 @@ process GATK4_CALIBRATEDRAGSTRMODEL { tag "$meta.id" - label 'process_low' + label 'process_medium' conda (params.enable_conda ? "bioconda::gatk4=4.2.6.1" : null) container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? @@ -38,6 +38,7 @@ process GATK4_CALIBRATEDRAGSTRMODEL { --output ${prefix}.txt \\ --reference $fasta \\ --str-table-path $strtablefile \\ + --threads $task.cpus \\ $intervals_command \\ --tmp-dir . \\ $args diff --git a/tests/modules/gatk4/calibratedragstrmodel/test.yml b/tests/modules/gatk4/calibratedragstrmodel/test.yml index 53c428a9..285d04ca 100644 --- a/tests/modules/gatk4/calibratedragstrmodel/test.yml +++ b/tests/modules/gatk4/calibratedragstrmodel/test.yml @@ -1,26 +1,26 @@ - name: gatk4 calibratedragstrmodel test_gatk4_calibratedragstrmodel_bam command: nextflow run ./tests/modules/gatk4/calibratedragstrmodel -entry test_gatk4_calibratedragstrmodel_bam -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/calibratedragstrmodel/nextflow.config tags: - - gatk4/calibratedragstrmodel - gatk4 + - gatk4/calibratedragstrmodel files: - path: output/gatk4/test.txt - md5sum: 0a1a1583b157fa2251dd931ed165da4f + md5sum: e16fa32906c74bb18b93e98a86718ff1 - name: gatk4 calibratedragstrmodel test_gatk4_calibratedragstrmodel_cram command: nextflow run ./tests/modules/gatk4/calibratedragstrmodel -entry test_gatk4_calibratedragstrmodel_cram -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/calibratedragstrmodel/nextflow.config tags: - - gatk4/calibratedragstrmodel - gatk4 + - gatk4/calibratedragstrmodel files: - path: output/gatk4/test.txt - md5sum: 1aa7ab38023f724877b3323c5e6b9a4e + md5sum: 81c7bf338886cb4d5c2cc07fc56afe44 - name: gatk4 calibratedragstrmodel test_gatk4_calibratedragstrmodel_beds command: nextflow run ./tests/modules/gatk4/calibratedragstrmodel -entry test_gatk4_calibratedragstrmodel_beds -c ./tests/config/nextflow.config -c ./tests/modules/gatk4/calibratedragstrmodel/nextflow.config tags: - - gatk4/calibratedragstrmodel - gatk4 + - gatk4/calibratedragstrmodel files: - path: output/gatk4/test.txt - md5sum: def8baccad7bd59006f08fcb0a6721bf + md5sum: cb6a9acdee042302b54fd1f59b5f54ee