From 29e5ce6bae57b8bfd70efee59cf7b1601df5d29f Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Tue, 19 Jan 2021 20:16:23 -0600
Subject: [PATCH] Further remove parsing restrictions from
stranded/spike/species
---
workflow/scripts/parse_meta.py | 6 ++++++
1 file changed, 6 insertions(+)
diff --git a/workflow/scripts/parse_meta.py b/workflow/scripts/parse_meta.py
index 9a38f29..f0dbf67 100644
--- a/workflow/scripts/parse_meta.py
+++ b/workflow/scripts/parse_meta.py
@@ -67,6 +67,8 @@ def main():
stranded = "stranded"
elif (metaFile.Has_Strand_Specific_Information.unique() == "no"):
stranded = "unstranded"
+ else
+ stranded = metaFile.Has_Strand_Specific_Information.unique()[0]
print(stranded)
# Get spike-in metadata from 'Experiment Settings.csv'
@@ -75,6 +77,8 @@ def main():
spike = "yes"
elif (metaFile.Used_Spike_Ins.unique() == "no"):
spike = "no"
+ else
+ stranded = metaFile.Used_Spike_Ins.unique()[0]
print(spike)
# Get species metadata from 'Experiment.csv'
@@ -83,6 +87,8 @@ def main():
species = "Mus musculus"
elif (metaFile.Species.unique() == "Homo sapiens"):
species = "Homo sapiens"
+ else
+ stranded = metaFile.Species.unique()[0]
print(species)
# Get read length metadata from 'Experiment Settings.csv'
--
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