diff --git a/modules/deepvariant/main.nf b/modules/deepvariant/main.nf index c5e81997..8e5f10df 100644 --- a/modules/deepvariant/main.nf +++ b/modules/deepvariant/main.nf @@ -17,8 +17,8 @@ process DEEPVARIANT { path(fai) output: - tuple val(meta), path("*.vcf.gz") , emit: vcf - tuple val(meta), path("*g.vcf.gz"), emit: gvcf + tuple val(meta), path("${prefix}.vcf.gz") , emit: vcf + tuple val(meta), path("${prefix}.g.vcf.gz"), emit: gvcf path "versions.yml" , emit: versions when: @@ -26,7 +26,7 @@ process DEEPVARIANT { script: def args = task.ext.args ?: '' - def prefix = task.ext.prefix ?: "${meta.id}" + prefix = task.ext.prefix ?: "${meta.id}" def regions = intervals ? "--regions ${intervals}" : "" """