diff --git a/src/nf_modules/gatk4/main.nf b/src/nf_modules/gatk4/main.nf index ac8c879c1f26d202697ab3eb3535b81fdcb7a3c2..ced6f77e8fab4265a66f2e649d1262a45fd7b4c7 100644 --- a/src/nf_modules/gatk4/main.nf +++ b/src/nf_modules/gatk4/main.nf @@ -154,13 +154,13 @@ process apply_base_recalibration { } /*******************************************************************/ - +params.variant_calling_gvcf_out = "" process call_variants_per_sample { container = "${container_url}" label "big_mem_mono_cpus" tag "$file_id" - if (params.variant_calling_out != "") { - publishDir "results/${params.variant_calling_out}", mode: 'copy' + if (params.variant_calling_gvcf_out != "") { + publishDir "results/${params.variant_calling_gvcf_out}", mode: 'copy' } input: