From 57872294c773f48a2468de199b1a09cf2f30371a Mon Sep 17 00:00:00 2001
From: Jeremy Mathews <Jeremy.Mathews@utsouthwestern.edu>
Date: Thu, 25 Jul 2019 15:57:52 -0500
Subject: [PATCH] change design_df
---
workflow/scripts/pool_and_psuedoreplicate.py | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
diff --git a/workflow/scripts/pool_and_psuedoreplicate.py b/workflow/scripts/pool_and_psuedoreplicate.py
index 2c35772..f2e4ef7 100644
--- a/workflow/scripts/pool_and_psuedoreplicate.py
+++ b/workflow/scripts/pool_and_psuedoreplicate.py
@@ -209,7 +209,7 @@ def generate_design(paired, cutoff_ratio, design_df, cwd, no_reps, no_unique_con
# Duplicate rows and update for pool and psuedoreplicates and update tagAlign with single end data
experiment_id = design_df.at[0, 'experiment_id']
replicate = design_df.at[0, 'replicate']
- design_new_df = design_df.loc[np.repeat(design_df.index, 4)].reset_index()
+ design_new_df = design_df #.loc[np.repeat(design_df.index, 4)].reset_index()
pool_experiment = design_df.tag_align.unique()
# Update tagAlign with single end data
@@ -272,9 +272,6 @@ def generate_design(paired, cutoff_ratio, design_df, cwd, no_reps, no_unique_con
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)
- # Check controls against cutoff_ratio
- # if so replace with pool_control
- # unless single control was used
# If paired change to single End
if paired:
@@ -282,6 +279,9 @@ def generate_design(paired, cutoff_ratio, design_df, cwd, no_reps, no_unique_con
else:
pool_experiment_se = pool_experiment
+ # Check controls against cutoff_ratio
+ # if so replace with pool_control
+ # unless single control was used
if not single_control:
path_to_pool_control = cwd + '/' + pool_control
if control_df.values.max() > cutoff_ratio:
--
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