From 3b3921cfa319602ed15c7021969122d72d600e46 Mon Sep 17 00:00:00 2001 From: SusiJo <43847534+SusiJo@users.noreply.github.com> Date: Fri, 20 May 2022 13:07:57 +0200 Subject: [PATCH] refine comment Co-authored-by: FriederikeHanssen --- modules/cnvkit/batch/main.nf | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/modules/cnvkit/batch/main.nf b/modules/cnvkit/batch/main.nf index 063808a1..63482c6c 100644 --- a/modules/cnvkit/batch/main.nf +++ b/modules/cnvkit/batch/main.nf @@ -27,7 +27,7 @@ process CNVKIT_BATCH { script: def args = task.ext.args ?: '' - // execute samtools only when cram files are input + // execute samtools only when cram files are input, cnvkit runs natively on bam but is prohibitively slow // input pair is assumed to have same extension if both exist def is_cram = tumor.Extension == "cram" ? true : false def tumor_out = is_cram ? tumor.BaseName + ".bam" : "${tumor}"