From d30034271e19b408cfb8530e7c0048bbc8609f35 Mon Sep 17 00:00:00 2001
From: Venkat Malladi <venkat.malladi@utsouthwestern.edu>
Date: Fri, 11 Jan 2019 21:28:07 -0600
Subject: [PATCH] Fix array rename.
---
workflow/scripts/trim_reads.py | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/workflow/scripts/trim_reads.py b/workflow/scripts/trim_reads.py
index 34a40eb..ebd1f8f 100644
--- a/workflow/scripts/trim_reads.py
+++ b/workflow/scripts/trim_reads.py
@@ -76,15 +76,15 @@ def rename_reads(fastq, sample, paired):
if paired: # paired-end data
# Set file names
- renamed_fastq[0] = cwd + '/' + sample + '_R1.fastq.gz'
- renamed_fastq[1] = cwd + '/' + sample + '_R2.fastq.gz'
+ renamed_fastq.append(cwd + '/' + sample + '_R1.fastq.gz')
+ renamed_fastq.append(cwd + '/' + sample + '_R2.fastq.gz')
# Great symbolic links
os.symlink(fastq[0], renamed_fastq[0])
os.symlink(fastq[1], renamed_fastq[1])
else:
# Set file names
- renamed_fastq[0] = cwd + '/' + sample + '_R1.fastq.gz'
+ renamed_fastq.append(cwd + '/' + sample + '_R1.fastq.gz')
# Great symbolic links
os.symlink(fastq[0], renamed_fastq[0])
--
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