From ca8ec57865bc6e1b09679049f3c3c343e4ccba33 Mon Sep 17 00:00:00 2001
From: Gervaise Henry <GHENRY@swmed.org>
Date: Sat, 14 Mar 2020 20:51:56 -0500
Subject: [PATCH] Use dedupBam for inferMeta
---
workflow/rna-seq.nf | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/workflow/rna-seq.nf b/workflow/rna-seq.nf
index 32cf5a8..549cf30 100644
--- a/workflow/rna-seq.nf
+++ b/workflow/rna-seq.nf
@@ -287,7 +287,6 @@ process trimData {
// Replicate reference for multiple process inputs
reference.into {
reference_alignData
- reference_inferMeta
}
/*
@@ -368,6 +367,7 @@ process dedupData {
// Replicate dedup bam/bai for multiple process inputs
dedupBam.into {
dedupBam_makeBigWig
+ dedupBam_inferMeta
}
/*
@@ -423,7 +423,7 @@ process inferMetadata {
input:
path script_inferMeta
path reference_inferMeta
- set val (repRID), path (inBam), path (inBai) from rawBam_inferMetadata
+ set val (repRID), path (inBam), path (inBai) from dedupBam_inferMetadata
output:
path "infer.csv" into inferedMetadata
@@ -480,4 +480,4 @@ process inferMetadata {
# write infered metadata to file
echo \${endness},\${stranded},\${strategy},\${percentF},\${percentR},\${fail} > infer.csv
"""
-}
+}
\ No newline at end of file
--
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