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added tmp-dir + alignment correction

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This commit is contained in:
Nicolas Vannieuwkerke 2022-05-13 14:35:22 +02:00
parent a72f06dfe8
commit 6427eeeca0
1 changed files with 2 additions and 1 deletions
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modules/gatk4/splitintervals/main.nf
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@ -15,7 +15,7 @@ process GATK4_SPLITINTERVALS {
output: output:
tuple val(meta), path("**.interval_list"), emit: split_intervals tuple val(meta), path("**.interval_list"), emit: split_intervals
path "versions.yml" , emit: versions path "versions.yml" , emit: versions
when: when:
task.ext.when == null || task.ext.when task.ext.when == null || task.ext.when
@ -37,6 +37,7 @@ process GATK4_SPLITINTERVALS {
--output ${prefix} \\ --output ${prefix} \\
--intervals $intervals \\ --intervals $intervals \\
$reference \\ $reference \\
--tmp-dir . \\
$args $args
cat <<-END_VERSIONS > versions.yml cat <<-END_VERSIONS > versions.yml