diff --git a/subworkflows/local/additional_annot.nf b/subworkflows/local/additional_annot.nf index cde476e2..98c66417 100644 --- a/subworkflows/local/additional_annot.nf +++ b/subworkflows/local/additional_annot.nf @@ -46,9 +46,9 @@ workflow ADDITIONAL_ANNOT { VCF_BGZIP_TABIX_STATS ( SNPEFF_ANN.out.vcf, - [], - [], - [] + [ [:], [] ], + [ [:], [] ], + [ [:], [] ] ) ch_versions = ch_versions.mix(VCF_BGZIP_TABIX_STATS.out.versions) @@ -66,7 +66,7 @@ workflow ADDITIONAL_ANNOT { ch_versions = ch_versions.mix(BCFTOOLS_QUERY.out.versions.first()) MAKE_VARIANTS_LONG_TABLE_ADDITIONAL ( - BCFTOOLS_QUERY.out.txt.collect{it[1]}, + BCFTOOLS_QUERY.out.output.collect{it[1]}, SNPSIFT_EXTRACTFIELDS.out.txt.collect{it[1]}.ifEmpty([]), pangolin.collect{it[1]}.ifEmpty([]) )