From 149e3d829f14fdaff8d4459fda509cff04350466 Mon Sep 17 00:00:00 2001
From: nservant <nicolas.servant@curie.fr>
Date: Fri, 6 May 2022 17:45:40 +0200
Subject: [PATCH] [MODIF] deal with technical replicates
---
bin/check_samplesheet.py | 4 ++--
workflows/hic.nf | 8 ++++----
2 files changed, 6 insertions(+), 6 deletions(-)
diff --git a/bin/check_samplesheet.py b/bin/check_samplesheet.py
index d70498f..17137e5 100755
--- a/bin/check_samplesheet.py
+++ b/bin/check_samplesheet.py
@@ -124,8 +124,8 @@ class RowChecker:
for row in self.modified:
sample = row[self._sample_col]
seen[sample] += 1
- if counts[sample] > 1:
- row[self._sample_col] = f"{sample}_T{seen[sample]}"
+ #if counts[sample] > 1:
+ # row[self._sample_col] = f"{sample}_T{seen[sample]}"
def sniff_format(handle):
diff --git a/workflows/hic.nf b/workflows/hic.nf
index f66e16d..e71e3e9 100644
--- a/workflows/hic.nf
+++ b/workflows/hic.nf
@@ -164,10 +164,10 @@ workflow HIC {
ch_input
)
.reads
- .map {
- meta, fastq ->
- meta.id = meta.id.split('_')[0..-2].join('_')
- [ meta, fastq ] }
+ //.map {
+ // meta, fastq ->
+ // meta.id = meta.id.split('_')[0..-2].join('_')
+ // [ meta, fastq ] }
.groupTuple(by: [0])
.flatMap { it -> setMetaChunk(it) }
.collate(2)
--
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