From 538a507480f0986f35288af732863150285181a4 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Tue, 19 Jan 2021 20:01:30 -0600
Subject: [PATCH] Remove redundant check for multiple fastqs in parse metadata
---
CHANGELOG.md | 1 +
workflow/scripts/parse_meta.py | 4 ----
2 files changed, 1 insertion(+), 4 deletions(-)
diff --git a/CHANGELOG.md b/CHANGELOG.md
index 03e3146..1e0882b 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -9,6 +9,7 @@
* Only use fastq's that match *[_.]R[1-2].fastq.gz naming convention (#107)
* Add error output for no fastq's
* Update input bag export config to only fetch fastq's that match *[_.]R[1-2].fastq.gz naming convention
+* Remove check for multiple fastq check in parse metadata (redundant and no longer valid)
*Known Bugs*
* Override params (inputBag, fastq, species) aren't checked for integrity
diff --git a/workflow/scripts/parse_meta.py b/workflow/scripts/parse_meta.py
index c2c71e0..9986619 100644
--- a/workflow/scripts/parse_meta.py
+++ b/workflow/scripts/parse_meta.py
@@ -35,10 +35,6 @@ def main():
else:
rep = metaFile["Replicate_RID"].unique()[0]
print(rep)
- if (len(metaFile[metaFile["File_Type"] == "FastQ"]) > 2):
- print("There are more then 2 fastq's in the metadata: " +
- " ".join(metaFile[metaFile["File_Type"] == "FastQ"].RID))
- exit(1)
# Check experiment RID metadata from 'Experiment.csv'
if (args.parameter == "expRID"):
--
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