From 833c88f7468851460f5f6bd22692c327b7bf0d7c Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Thu, 6 May 2021 14:46:33 +0200
Subject: [PATCH] emase-zero: change bam to bam_idx
---
src/nf_modules/emase-zero/main.nf | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/src/nf_modules/emase-zero/main.nf b/src/nf_modules/emase-zero/main.nf
index c0191e82..36ff276f 100644
--- a/src/nf_modules/emase-zero/main.nf
+++ b/src/nf_modules/emase-zero/main.nf
@@ -9,7 +9,7 @@ params.count = "-m 2"
params.count_out = ""
workflow count {
take:
- bam
+ bam_idx
gtf
transcript_to_gene
@@ -18,7 +18,7 @@ workflow count {
.ifEmpty(["NO T2G", ""])
.set{ transcript_to_gene_optional }
tr2g(gtf, transcript_to_gene_optional)
- bam2ec(bam, gtf)
+ bam2ec(bam_idx, gtf)
emase(bam2ec.out.bin, bam2ec.out.tsv, tr2g.out.t2g)
emit:
--
GitLab