Using the XNATSlicer plugin

Support
1

Dear

I really want to use the XNATSlicer plugin, although I can not perform the integration through 3D Slicer 4.8.1, it complains the error below.
I believe I stopped making some steps on the server or on my local machine, do I need to install some library on the server?

Hugs

Ernanez

Python 2.7.13 (default, Dec 20 2017, 00:45:45) [MSC v.1800 64 bit (AMD64)] on win32
>>> 
Traceback (most recent call last):
  File "C:/Users/HU/AppData/Roaming/NA-MIC/Extensions-26813/XNATSlicer/lib/Slicer-4.8/qt-scripted-modules/XnatSlicer.py", line 925, in onLoginButtonClicked
    self.beginXnat()
  File "C:/Users/HU/AppData/Roaming/NA-MIC/Extensions-26813/XNATSlicer/lib/Slicer-4.8/qt-scripted-modules/XnatSlicer.py", line 577, in beginXnat
    self.View.begin()
  File "C:\Users\HU\AppData\Roaming\NA-MIC\Extensions-26813\XNATSlicer\lib\Slicer-4.8\qt-scripted-modules\XnatSlicerLib\ui\View.py", line 111, in begin
    "'HOST_NAME' (HOST_URL):\n%s" %(str(e)))
  File "C:\Users\HU\AppData\Roaming\NA-MIC\Extensions-26813\XNATSlicer\lib\Slicer-4.8\qt-scripted-modules\XnatSlicerLib\ui\View.py", line 150, in showError
    msg.replace('HOST_NAME', hostName).\
UnicodeDecodeError: 'ascii' codec can't decode byte 0xe3 in position 68: ordinal not in range(128)
2

It seems that your computer name has special characters in it. Rename your computer to only contain ASCII characters and try again.

3

Hi Iasssoan

What exactly would “HOST_NAME” be my user, my domain?
in both cases it has no special character is admin and pacspesquisa.unifesp.br is my domain

4

Host name is the name of the computer. It is not the same as name of user or domain.

I don’t know how much the XNat extension is used anymore. Girder is a new data management platform that Kitware is actively developing that you might consider as well.

5

@ernandez.santos I was going to suggest that you ask on the XNAT forum, but I see you already did here: https://groups.google.com/d/topic/xnat_discussion/iPDAXWZ0jms/discussion. Based on the lack of responses, it could be that this extension is no longer supported by the XNAT team.

6

Hi Andras,
i was able to connect properly to the xnat and its showing me the data in the left window but when I try to load one of the data into slicer window on the right its giving me error as follow:

[Qt] QSqlQuery::prepare: database not open
[Qt] SQL failed:
[Qt]
[Qt] Error:
[Qt] No query Unable to fetch row
[Qt] Failed to find patient with PatientsName=APT240 and PatientID=APT240
[Qt] Failed to find patient for SOP Instance UID = 1.3.46.670589.11.42221.5.0.8048.2022112109125589081
[Qt] Failed to find patient with PatientsName=APT240 and PatientID=APT240
[Qt] Failed to find patient for SOP Instance UID = 1.3.46.670589.11.42221.5.0.8048.2022112109090012081
[Qt] Failed to find patient with PatientsName=APT240 and PatientID=APT240
[Qt] Failed to find patient for SOP Instance UID = 1.3.46.670589.11.42221.5.0.8048.2022112109082171394
[Qt] Failed to find patient with PatientsName=APT240 and PatientID=APT240
[Qt] Failed to find patient for SOP Instance UID = 1.3.46.670589.11.42221.5.0.8048.2022112109134992983
[Qt] Failed to find patient with PatientsName=APT240 and PatientID=APT240
[Qt] Failed to find patient for SOP Instance UID = 1.3.46.670589.11.42221.5.0.8048.2022112109082131353
[Qt] Required information (patient name, patient ID, study instance UID) is missing from dataset
[Qt] Failed to find patient with PatientsName=APT240 and PatientID=APT240
[Qt] Failed to find patient for SOP Instance UID = 1.3.46.670589.11.42221.5.0.8048.2022112109132302540
[Qt] Required information (patient name, patient ID, study instance UID) is missing from dataset
[Qt] Required information (patient name, patient ID, study instance UID) is missing from dataset
[Qt] Required information (patient name, patient ID, study instance UID) is missing from dataset
[Qt] Required information (patient name, patient ID, study instance UID) is missing from dataset
[Qt] Required information (patient name, patient ID, study instance UID) is missing from dataset
[Qt] Required information (patient name, patient ID, study instance UID) is missing from dataset
[Qt] Required information (patient name, patient ID, study instance UID) is missing from dataset
[Qt] Required information (patient name, patient ID, study instance UID) is missing from dataset
[Qt] Failed to find patient with PatientsName= and PatientID=
Traceback (most recent call last):
File “/home/useradmin/Downloads/Slicer-5.7.0-2024-02-06-linux-amd64/slicer.org/Extensions-32706/XNATSlicer/lib/Slicer-5.7/qt-scripted-modules/XnatSlicerLib/io/Workflow_Load.py”, line 225, in __clearSceneButtonClicked
self.beginWorkflow()
File “/home/useradmin/Downloads/Slicer-5.7.0-2024-02-06-linux-amd64/slicer.org/Extensions-32706/XNATSlicer/lib/Slicer-5.7/qt-scripted-modules/XnatSlicerLib/io/Workflow_Load.py”, line 317, in beginWorkflow
self.MODULE.XnatIo.startDownloadQueue()
File “/home/useradmin/Downloads/Slicer-5.7.0-2024-02-06-linux-amd64/slicer.org/Extensions-32706/XNATSlicer/lib/Slicer-5.7/qt-scripted-modules/XnatSlicerLib/ext/Xnat/Xnat.py”, line 681, in startDownloadQueue
self.runEventCallbacks(‘downloadQueueFinished’)
File “/home/useradmin/Downloads/Slicer-5.7.0-2024-02-06-linux-amd64/slicer.org/Extensions-32706/XNATSlicer/lib/Slicer-5.7/qt-scripted-modules/XnatSlicerLib/ext/Xnat/Xnat.py”, line 617, in runEventCallbacks
callback(*args)
File “/home/useradmin/Downloads/Slicer-5.7.0-2024-02-06-linux-amd64/slicer.org/Extensions-32706/XNATSlicer/lib/Slicer-5.7/qt-scripted-modules/XnatSlicerLib/io/Workflow_Load.py”, line 283, in onDownloadFinished
loader.load()
File “/home/useradmin/Downloads/Slicer-5.7.0-2024-02-06-linux-amd64/slicer.org/Extensions-32706/XNATSlicer/lib/Slicer-5.7/qt-scripted-modules/XnatSlicerLib/io/Loader_Dicom.py”, line 169, in load
return self.loadDicomsFromDatabase(self.extractedFiles)
File “/home/useradmin/Downloads/Slicer-5.7.0-2024-02-06-linux-amd64/slicer.org/Extensions-32706/XNATSlicer/lib/Slicer-5.7/qt-scripted-modules/XnatSlicerLib/io/Loader_Dicom.py”, line 223, in loadDicomsFromDatabase
loadables = dicomScalarVolumePlugin.examine([matchedDatabaseFiles])
File “/home/useradmin/Downloads/Slicer-5.7.0-2024-02-06-linux-amd64/lib/Slicer-5.7/qt-scripted-modules/DICOMLib/DICOMPlugin.py”, line 157, in examine
return self.examineForImport(fileList)
File “/home/useradmin/Downloads/Slicer-5.7.0-2024-02-06-linux-amd64/bin/…/lib/Slicer-5.7/qt-scripted-modules/DICOMScalarVolumePlugin.py”, line 166, in examineForImport
loadablesForFiles = self.examineFiles(files)
File “/home/useradmin/Downloads/Slicer-5.7.0-2024-02-06-linux-amd64/bin/…/lib/Slicer-5.7/qt-scripted-modules/DICOMScalarVolumePlugin.py”, line 193, in examineFiles
seriesUID = slicer.dicomDatabase.fileValue(files[0], self.tags[“seriesUID”])
IndexError: list index out of range
[Qt] QSqlQuery::prepare: database not open

what could be the reason. for every data i try to load i get the same error.

thank you

regards,
Saima

7

Please go to the DICOM module and check that the DICOM database has been created (no yellow message is shown near the top-right of the Slicer application window.

1 Like
8

yup did it. Its running perfectly fine. thanks alot

1 Like