From cc6d1abe46e5072ec371822e8b0c1958a6dea4f0 Mon Sep 17 00:00:00 2001
From: Holly Ruess <s185797@biohpcwsc012.biohpc.swmed.edu>
Date: Fri, 27 Dec 2019 15:47:08 -0600
Subject: [PATCH] fix pool and pseudo
---
workflow/scripts/pool_and_psuedoreplicate.py | 5 ++---
1 file changed, 2 insertions(+), 3 deletions(-)
diff --git a/workflow/scripts/pool_and_psuedoreplicate.py b/workflow/scripts/pool_and_psuedoreplicate.py
index 7b6fbc9..04ce605 100644
--- a/workflow/scripts/pool_and_psuedoreplicate.py
+++ b/workflow/scripts/pool_and_psuedoreplicate.py
@@ -209,7 +209,7 @@ def main():
# Update tagAlign with single end data
if paired:
design_new_df['tag_align'] = design_new_df['se_tag_align']
- design_new_df.drop(labels='se_tag_align', axis=1, inplace=True)
+ design_new_df.drop(labels='seTagAlign', axis=1, inplace=True)
design_new_df['replicate'] = design_new_df['replicate'].astype(str)
design_new_df.at[1, 'sample_id'] = experiment_id + '_pr1'
@@ -273,8 +273,7 @@ def main():
if paired:
design_new_df['tag_align'] = design_new_df['se_tag_align']
-# design_new_df.drop(labels='se_tag_align', axis=1, inplace=True)
- design_new_df.drop(labels='tag_align', axis=1, inplace=True)
+ design_new_df.drop(labels='seTagAlign', axis=1, inplace=True)
# Check controls against cutoff_ratio
# if so replace with pool_control
--
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