From 29f367858b13f2eb4d20ebcb3dec42c2f9715b39 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Sun, 19 Jan 2020 01:01:11 -0600
Subject: [PATCH] Fix undetected meta endness
---
workflow/scripts/parseMeta.py | 5 +----
1 file changed, 1 insertion(+), 4 deletions(-)
diff --git a/workflow/scripts/parseMeta.py b/workflow/scripts/parseMeta.py
index 83f4a80..d2fb8fa 100644
--- a/workflow/scripts/parseMeta.py
+++ b/workflow/scripts/parseMeta.py
@@ -33,11 +33,8 @@ def main():
ends = "se"
elif (metaFile.Paired_End.unique() == "Paired End"):
ends = "pe"
- elif (metaFile.Paired_End.unique() == ""):
- ends = "uk"
else:
- print("Ends metadata not match expected options: " + metaFile.Paired_End.unique())
- exit(1)
+ ends = "uk"
print(ends)
if (args.parameter == "endsManual"):
if (len(metaFile[metaFile["File_Type"] == "FastQ"]) == 1):
--
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