From ee105a8b60869ad588a9a212a5193b85c25c0881 Mon Sep 17 00:00:00 2001 From: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com> Date: Wed, 13 Sep 2023 13:21:22 +0200 Subject: [PATCH 1/2] Update subworkflows/local/call_snv.nf [skip ci] Co-authored-by: Anders Jemt --- subworkflows/local/call_snv.nf | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/subworkflows/local/call_snv.nf b/subworkflows/local/call_snv.nf index d8cb9744..96320986 100644 --- a/subworkflows/local/call_snv.nf +++ b/subworkflows/local/call_snv.nf @@ -103,6 +103,6 @@ workflow CALL_SNV { genome_tabix = ch_genome_tabix // channel: [ val(meta), path(tbi) ] genome_vcf_tabix = ch_genome_vcf_tabix // channel: [ val(meta), path(vcf), path(tbi) ] mt_vcf = POSTPROCESS_MT_CALLS.out.vcf // channel: [ val(meta), path(vcf) ] - mt_tabix = POSTPROCESS_MT_CALLS.out.tbi // channel: [ val(meta), path(vcf) ] + mt_tabix = POSTPROCESS_MT_CALLS.out.tbi // channel: [ val(meta), path(tbi) ] versions = ch_versions // channel: [ path(versions.yml) ] } From 4eeab25d49c56b29dc79ed82de7247cfc2661ad0 Mon Sep 17 00:00:00 2001 From: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com> Date: Wed, 13 Sep 2023 13:23:01 +0200 Subject: [PATCH 2/2] Update subworkflows/local/variant_calling/postprocess_MT_calls.nf [skip ci] Co-authored-by: Anders Jemt --- subworkflows/local/variant_calling/postprocess_MT_calls.nf | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/subworkflows/local/variant_calling/postprocess_MT_calls.nf b/subworkflows/local/variant_calling/postprocess_MT_calls.nf index 81738085..2d10cfaa 100644 --- a/subworkflows/local/variant_calling/postprocess_MT_calls.nf +++ b/subworkflows/local/variant_calling/postprocess_MT_calls.nf @@ -25,7 +25,7 @@ workflow POSTPROCESS_MT_CALLS { main: ch_versions = Channel.empty() - // LIFTOVER VCF FROM REFERENCE MT TO SHIFTED MT + // LIFTOVER SHIFTED VCF TO REFERENCE MT POSITIONS PICARD_LIFTOVERVCF ( ch_mtshift_vcf, ch_genome_dictionary,