From f1d40472243bea6f4a59efdb23dc09dc3dbf2268 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Tue, 19 Jan 2021 20:14:17 -0600
Subject: [PATCH] Remove ability to count fastqs manually from file.csv
---
workflow/scripts/parse_meta.py | 8 --------
1 file changed, 8 deletions(-)
diff --git a/workflow/scripts/parse_meta.py b/workflow/scripts/parse_meta.py
index 9986619..9a38f29 100644
--- a/workflow/scripts/parse_meta.py
+++ b/workflow/scripts/parse_meta.py
@@ -61,14 +61,6 @@ def main():
endsMeta = metaFile.Paired_End.unique()[0]
print(endsMeta)
- # Manually get endness count from 'File.csv'
- if (args.parameter == "endsManual"):
- if (len(metaFile[metaFile["File_Type"] == "FastQ"]) == 1):
- endsManual = "se"
- elif (len(metaFile[metaFile["File_Type"] == "FastQ"]) == 2):
- endsManual = "pe"
- print(endsManual)
-
# Get strandedness metadata from 'Experiment Settings.csv'
if (args.parameter == "stranded"):
if (metaFile.Has_Strand_Specific_Information.unique() == "yes"):
--
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