xnatqa 0.0.8__py3-none-any.whl → 0.0.10__py3-none-any.whl

xnatqa/xnatqa.py

@@ -3,27 +3,26 @@ import argparse
 from xnatqa.tag import tag_scans
 from xnatqa.launch import launch
 
-# parse input arguments
-parser = argparse.ArgumentParser(description="Auto Labeler")
-parser.add_argument("--dicom_dir", default="/input", help = "where the DICOMs are located", required=True)
-parser.add_argument("--host", default="https://xnat2.bu.edu", help="BU XNAT host", required=True)
-parser.add_argument("--user", help="BU XNAT2 username", required=True)
-parser.add_argument("--password", help="BU XNAT2 Password", required=True)
-parser.add_argument("--experiment", default = "", required=True)
+def main():
 
-args, unknown_args = parser.parse_known_args()
-dicom_dir  = os.path.join(args.dicom_dir, 'SCANS')
-host       = args.host
-user       = args.user
-password   = args.password
-experiment = args.experiment
+    # parse input arguments
+    parser = argparse.ArgumentParser(description="XNAT QA Workflow")
+    parser.add_argument("--dicom_dir", default="/input", help = "where the DICOMs are located", required=True)
+    parser.add_argument("--experiment", default = "", required=True)
 
-# run xnat authentication for this container. writes an ~/.xnat_auth file to the home directory
-# this file is used in all subsequent calls to XNAT
-os.system(f'xnat_auth --alias xnat --url {host} --username {user} --password {password}')
+    args, unknown_args = parser.parse_known_args()
+    dicom_dir  = os.path.join(args.dicom_dir, 'SCANS')
+    experiment = args.experiment
 
-# tag all scans in this session
-tag_scans(dicom_dir, experiment)
+    # run xnat authentication for this container. writes an ~/.xnat_auth file to the home directory
+    # this file is used in all subsequent calls to XNAT
+    os.system(f'xnat_auth --alias xnat --url $XNAT_HOST --username $XNAT_USER --password $XNAT_PASS')
 
-# launch all QA jobs for this session
-launch(experiment)
+    # tag all scans in this session
+    tag_scans(dicom_dir, experiment)
+
+    # launch all QA jobs for this session
+    launch(experiment)
+
+if __name__ == "__main__":
+    main()

{xnatqa-0.0.8.dist-info → xnatqa-0.0.10.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: xnatqa
-Version: 0.0.8
+Version: 0.0.10
 Summary: A workflow for automatically labeling and running QA on MRI scans within XNAT
 Author-email: Kyle Kurkela <kkurkela@bu.edu>
 License-Expression: MIT

xnatqa-0.0.10.dist-info/RECORD

@@ -0,0 +1,10 @@
+xnatqa/__init__.py,sha256=RIG_ihjfFD1upKlhlxI-9Fs4ISf0lIW4Zg7CaFirV4A,644
+xnatqa/xnatqa.py,sha256=RuQlEAEODNWnu5gN4zcxiK59vjkANX4RG1JanvFRrfM,960
+xnatqa/launch/__init__.py,sha256=zT6XGXWBHOtHZ_TVmlN9vp3V8JqUAYscxMBUZJJBlgo,1178
+xnatqa/tag/__init__.py,sha256=kjdB9zSA_YHGOPmG_BDM0HtSK6thmBt0Awd4Zj6NN5A,8921
+xnatqa-0.0.10.dist-info/licenses/LICENSE,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
+xnatqa-0.0.10.dist-info/METADATA,sha256=M8Dd-yP3hg_AhC_BT0JRG3Bkng7bdDWaqIxYql5-Qcs,1200
+xnatqa-0.0.10.dist-info/WHEEL,sha256=CmyFI0kx5cdEMTLiONQRbGQwjIoR1aIYB7eCAQ4KPJ0,91
+xnatqa-0.0.10.dist-info/entry_points.txt,sha256=UqPAByHiJTqwkT0UBymn6EOIGBlPsb9mEZK86HIahs8,46
+xnatqa-0.0.10.dist-info/top_level.txt,sha256=FmRWgO6ww0FwyNs5ccyhP9FcAxI129qSJqLs2OKOxJw,7
+xnatqa-0.0.10.dist-info/RECORD,,

xnatqa-0.0.8.dist-info/RECORD

@@ -1,10 +0,0 @@
-xnatqa/__init__.py,sha256=RIG_ihjfFD1upKlhlxI-9Fs4ISf0lIW4Zg7CaFirV4A,644
-xnatqa/xnatqa.py,sha256=UoX74fhC5I3Cj4nyc1ORtH8P5sGApySvQ2UmeO2kpHM,1157
-xnatqa/launch/__init__.py,sha256=zT6XGXWBHOtHZ_TVmlN9vp3V8JqUAYscxMBUZJJBlgo,1178
-xnatqa/tag/__init__.py,sha256=kjdB9zSA_YHGOPmG_BDM0HtSK6thmBt0Awd4Zj6NN5A,8921
-xnatqa-0.0.8.dist-info/licenses/LICENSE,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-xnatqa-0.0.8.dist-info/METADATA,sha256=VrY4Obk0gvF8Ryk6gGQGL_DXv5GlIa71Itx6c0pUxSM,1199
-xnatqa-0.0.8.dist-info/WHEEL,sha256=CmyFI0kx5cdEMTLiONQRbGQwjIoR1aIYB7eCAQ4KPJ0,91
-xnatqa-0.0.8.dist-info/entry_points.txt,sha256=UqPAByHiJTqwkT0UBymn6EOIGBlPsb9mEZK86HIahs8,46
-xnatqa-0.0.8.dist-info/top_level.txt,sha256=FmRWgO6ww0FwyNs5ccyhP9FcAxI129qSJqLs2OKOxJw,7
-xnatqa-0.0.8.dist-info/RECORD,,