From fefc31823e24f5a3d6622a4da837d40652c0043a Mon Sep 17 00:00:00 2001
From: Holly Ruess <s185797@biohpcwsc012.biohpc.swmed.edu>
Date: Tue, 31 Dec 2019 09:04:24 -0600
Subject: [PATCH] fix pool and pseudo
---
workflow/scripts/pool_and_psuedoreplicate.py | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/workflow/scripts/pool_and_psuedoreplicate.py b/workflow/scripts/pool_and_psuedoreplicate.py
index ea454da..59b6c42 100644
--- a/workflow/scripts/pool_and_psuedoreplicate.py
+++ b/workflow/scripts/pool_and_psuedoreplicate.py
@@ -222,7 +222,7 @@ def main():
# Update tagAlign with single end data
if paired:
- design_new_df['tag_align'] = design_new_df['se_tag_align']
+ design_new_df['tag_align'] = design_new_df['seTagAlign']
design_new_df.drop(labels='seTagAlign', axis=1, inplace=True)
design_new_df['replicate'] = design_new_df['replicate'].astype(str)
@@ -254,6 +254,7 @@ def main():
design_new_df.drop(labels='index', axis=1, inplace=True)
else:
+
# Make pool of replicates
replicate_files = design_df.tag_align.unique()
experiment_id = design_df.at[0, 'experiment_id']
@@ -285,8 +286,7 @@ def main():
# Update tagAlign with single end data
if paired:
- design_new_df['tag_align'] = design_new_df['se_tag_align']
-
+ design_new_df['tag_align'] = design_new_df['seTagAlign']
design_new_df.drop(labels='seTagAlign', axis=1, inplace=True)
# Check controls against cutoff_ratio
--
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