From ea6291736abdd25f06e63be5255fc07ff1030c10 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Tue, 5 Oct 2021 17:06:46 +0200
Subject: [PATCH] danpos: fix file_id handling
---
src/nf_modules/danpos/main.nf | 44 +++++++++++++++++------------------
1 file changed, 22 insertions(+), 22 deletions(-)
diff --git a/src/nf_modules/danpos/main.nf b/src/nf_modules/danpos/main.nf
index 10d42f49..f23b5a8c 100644
--- a/src/nf_modules/danpos/main.nf
+++ b/src/nf_modules/danpos/main.nf
@@ -17,7 +17,7 @@ process dpos_bam {
}
input:
- tuple val(file_id), path(fastq)
+ tuple val(fastq_id), path(fastq)
tuple val(file_id), path(bam_ip), path(bam_wce)
output:
@@ -71,7 +71,7 @@ process dpos_wig {
}
input:
- tuple val(file_id), path(fastq)
+ tuple val(fastq_id), path(fastq)
tuple val(file_id), path(wig_ip), path(wig_wce)
output:
@@ -130,25 +130,25 @@ process dpos_wigvswig {
}
input:
- tuple val(file_id), path(fastq)
- tuple val(file_id), path(wig_ip_a), path(wig_wce_a)
- tuple val(file_id), path(wig_ip_b), path(wig_wce_b)
+ tuple val(fastq_id), path(fastq)
+ tuple val(file_id_a), path(wig_ip_a), path(wig_wce_a)
+ tuple val(file_id_b), path(wig_ip_b), path(wig_wce_b)
output:
- tuple file_id, "${file_prefix}/pooled/*.wig" into wig
- tuple val(file_id), path("${file_prefix}"), emit: folder
+ tuple file_id_a, "${file_prefix}/pooled/*.wig" into wig
+ tuple val(file_id_a), path("${file_prefix}"), emit: folder
script:
- switch(file_id) {
+ switch(file_id_a) {
case {it instanceof List}:
- file_prefix = file_id[0]
+ file_prefix = file_id_a[0]
break
case {it instanceof Map}:
- file_prefix = file_id.values()[0]
+ file_prefix = file_id_a.values()[0]
break
default:
- file_prefix = file_id
+ file_prefix = file_id_a
break
}
@@ -177,7 +177,7 @@ process dpeak_bam {
}
input:
- tuple val(file_id), path(fastq)
+ tuple val(fastq_id), path(fastq)
tuple val(file_id), path(bam_ip), path(bam_wce)
output:
@@ -232,7 +232,7 @@ process dpeak_wig {
}
input:
- tuple val(file_id), path(fastq)
+ tuple val(fastq_id), path(fastq)
tuple val(file_id), path(wig_ip), path(wig_wce)
output:
@@ -292,25 +292,25 @@ process dpeak_wigvswig {
}
input:
- tuple val(file_id), path(fastq)
- tuple val(file_id), path(wig_ip_a), path(wig_wce_a)
- tuple val(file_id), path(wig_ip_b), path(wig_wce_b)
+ tuple val(fastq_id), path(fastq)
+ tuple val(file_id_a), path(wig_ip_a), path(wig_wce_a)
+ tuple val(file_id_b), path(wig_ip_b), path(wig_wce_b)
output:
- tuple file_id, "${file_prefix}/pooled/*.wig" into wig
- tuple val(file_id), path("${file_prefix}"), emit: folder
+ tuple file_id_a, "${file_prefix}/pooled/*.wig" into wig
+ tuple val(file_id_a), path("${file_prefix}"), emit: folder
script:
- switch(file_id) {
+ switch(file_id_a) {
case {it instanceof List}:
- file_prefix = file_id[0]
+ file_prefix = file_id_a[0]
break
case {it instanceof Map}:
- file_prefix = file_id.values()[0]
+ file_prefix = file_id_a.values()[0]
break
default:
- file_prefix = file_id
+ file_prefix = file_id_a
break
}
--
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