From 532692ac999d09d7ebb8a18d08269ab4986a3021 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Mon, 30 Nov 2020 22:14:56 -0600
Subject: [PATCH] Cleanup uploadInputBag.py
---
workflow/scripts/uploadInputBag.py | 19 ++++++++++---------
1 file changed, 10 insertions(+), 9 deletions(-)
diff --git a/workflow/scripts/uploadInputBag.py b/workflow/scripts/uploadInputBag.py
index a9276e7..ab4d338 100644
--- a/workflow/scripts/uploadInputBag.py
+++ b/workflow/scripts/uploadInputBag.py
@@ -6,12 +6,13 @@ from datetime import datetime
def get_args():
parser = argparse.ArgumentParser()
- parser.add_argument('-f', '--file', help="file", required=True)
- parser.add_argument('-l', '--loc', help="location", required=True)
- parser.add_argument('-s', '--md5', help="md5", required=True)
- parser.add_argument('-b', '--bytes', help="bytes", required=True)
- parser.add_argument('-o', '--host', help="bytes", required=True)
- parser.add_argument('-c', '--cookie', help="bytes", required=True)
+ parser.add_argument('-f', '--file', help="file name", required=True)
+ parser.add_argument('-l', '--loc', help="datahub location", required=True)
+ parser.add_argument('-s', '--md5', help="md5 sum", required=True)
+ parser.add_argument('-b', '--bytes', help="size in bytes", required=True)
+ parser.add_argument('-n', '--notes', help="notes", default="", required=False)
+ parser.add_argument('-o', '--host', help="datahub host", required=True)
+ parser.add_argument('-c', '--cookie', help="cookie token", required=True)
args = parser.parse_args()
return args
@@ -26,7 +27,7 @@ def main(hostname, catalog_number, credential):
"File_MD5": args.md5,
"File_Bytes": args.bytes,
"File_Creation_Time": datetime.now().replace(microsecond=0).isoformat(),
- "Notes": "TEST",
+ "Notes": args.notes,
"Bag_Type": "Replicate_Input_Seq"
}
@@ -34,8 +35,8 @@ def main(hostname, catalog_number, credential):
rid = entities[0]["RID"]
print(rid)
-
-
+
+
if __name__ == '__main__':
args = get_args()
cli = BaseCLI("Custom RNASeq query", None, 1)
--
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