From c52ab0e762778320d38546e960cfb8c0598ded27 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Tue, 27 Apr 2021 09:24:10 +0200
Subject: [PATCH] nf_modules: minors fix in deeptools and samtools
---
src/nf_modules/deeptools/main.nf | 6 +++---
src/nf_modules/samtools/main.nf | 3 +--
2 files changed, 4 insertions(+), 5 deletions(-)
diff --git a/src/nf_modules/deeptools/main.nf b/src/nf_modules/deeptools/main.nf
index 52a87289..2e658d1c 100644
--- a/src/nf_modules/deeptools/main.nf
+++ b/src/nf_modules/deeptools/main.nf
@@ -15,7 +15,7 @@ process index_bam {
tuple val(file_id), path(bam)
output:
- tuple val(file_id), path("*.bam*"), emit: bam
+ tuple val(file_id), path("${bam}"), path("*.bam*"), emit: bam_idx
script:
"""
@@ -74,8 +74,8 @@ computeMatrix scale-regions -S ${bw} \
"""
}
-params.compute_matrix = ""
-params.compute_matrix_out = ""
+params.plot_profile = ""
+params.plot_profile_out = ""
process plot_profile {
container = "${container_url}"
label "big_mem_mono_cpus"
diff --git a/src/nf_modules/samtools/main.nf b/src/nf_modules/samtools/main.nf
index 4d5c9313..4228dc5f 100644
--- a/src/nf_modules/samtools/main.nf
+++ b/src/nf_modules/samtools/main.nf
@@ -125,8 +125,7 @@ process index_bam {
tuple val(file_id), path(bam)
output:
- tuple val(file_id), path(bam), emit: bam
- tuple val(file_id), path("*.bam.bai"), emit: bam_idx
+ tuple val(file_id), path("${bam}"), path("*.bam.bai"), emit: bam_idx
script:
"""
--
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