Fix py_QuantitativeReportingTests

[jcfr]

$ ctest -V

    Start 1: py_QuantitativeReportingTests

1: Test command: /home/kitware/Dashboards/Nightly/Slicer-0-build/Slicer-build/Slicer "--no-splash" "--testing" "--launcher-additional-settings" "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting-build/AdditionalLauncherSettings.ini" "--additional-module-paths" "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting-build/lib/Slicer-4.9/qt-scripted-modules" "/home/kitware/Dashboards/Nightly/S-0-E-b/SlicerDevelopmentToolbox-build/./lib/Slicer-4.9/qt-loadable-modules" "/home/kitware/Dashboards/Nightly/S-0-E-b/SlicerDevelopmentToolbox-build/./lib/Slicer-4.9/cli-modules" "/home/kitware/Dashboards/Nightly/S-0-E-b/PETDICOMExtension-build/./lib/Slicer-4.9/qt-loadable-modules" "/home/kitware/Dashboards/Nightly/S-0-E-b/PETDICOMExtension-build/./lib/Slicer-4.9/cli-modules" "/home/kitware/Dashboards/Nightly/S-0-E-b/DCMQI-build/dcmqi-build/dcmqi-build/bin" "/home/kitware/Dashboards/Nightly/S-0-E-b/SlicerDevelopmentToolbox-build/./lib/Slicer-4.9/qt-scripted-modules" "--additional-module-paths" "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting-build/lib/Slicer-4.9/qt-scripted-modules" "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting-build/lib/Slicer-4.9/cli-modules" "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting-build/lib/Slicer-4.9/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting-build/Testing', '/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting/Testing'], 'QuantitativeReportingTests')"
1: Test timeout computed to be: 1500
1: Number of registered modules: 145 
1: SystemError: /home/kitware/Dashboards/Nightly/Slicer-0-build/Python-2.7.13/Objects/classobject.c:521: bad argument to internal function
1: qSlicerPythonCppAPI::instantiateClass  - [ "__init__" ] - Failed to instantiate scripted pythonqt class "__init__" 0x7f08d4ab9810 
1: Fail to instantiate module  "__init__" 
1: Number of instantiated modules: 144 
1: Number of loaded modules: 144 
1: Switch to module:  "Welcome" 
1: -------------------------------------------
1: path: ['/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting-build/Testing', '/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting/Testing']
1: testname: QuantitativeReportingTests
1: -------------------------------------------
1: Closing the scene
1: Starting test_create_report
1: Switch to module:  "QuantitativeReporting" 
1: Loading testdata
1: test_create_report (QuantitativeReportingTests.QuantitativeReportingTest) ... ERROR
1: Closing the scene
1: test_import_labelmap (QuantitativeReportingTests.QuantitativeReportingTest) ... Traceback (most recent call last):
1:   File "/home/kitware/Dashboards/Nightly/Slicer-0-build/Slicer-build/lib/Slicer-4.9/qt-scripted-modules/SegmentEditor.py", line 143, in onSceneEndClose
1:     if self.parent.isEntered:
1: AttributeError: QGroupBox has no attribute named 'isEntered'
1: Starting test_import_labelmap
1: Loading testdata
1: ERROR
1: Closing the scene
1: test_import_segmentation (QuantitativeReportingTests.QuantitativeReportingTest) ... Traceback (most recent call last):
1:   File "/home/kitware/Dashboards/Nightly/Slicer-0-build/Slicer-build/lib/Slicer-4.9/qt-scripted-modules/SegmentEditor.py", line 143, in onSceneEndClose
1:     if self.parent.isEntered:
1: AttributeError: QGroupBox has no attribute named 'isEntered'
1: Starting test_import_segmentation
1: Loading testdata
1: ERROR
1: Closing the scene
1: test_read_report (QuantitativeReportingTests.QuantitativeReportingTest) ... Traceback (most recent call last):
1:   File "/home/kitware/Dashboards/Nightly/Slicer-0-build/Slicer-build/lib/Slicer-4.9/qt-scripted-modules/SegmentEditor.py", line 143, in onSceneEndClose
1:     if self.parent.isEntered:
1: AttributeError: QGroupBox has no attribute named 'isEntered'
1: Starting test_read_report
1: ERROR
1: runTest (slicer.ScriptedLoadableModule.ScriptedLoadableModuleTest) ... No test is defined in ScriptedLoadableModuleTest
1: ok
1: 
1: ======================================================================
1: ERROR: test_create_report (QuantitativeReportingTests.QuantitativeReportingTest)
1: ----------------------------------------------------------------------
1: Traceback (most recent call last):
1:   File "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting/Testing/QuantitativeReportingTests.py", line 186, in test_create_report
1:     self.loadTestVolume()
1:   File "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting/Testing/QuantitativeReportingTests.py", line 119, in loadTestVolume
1:     qrWidget.loadTestData(self.collection, imageDataType="volume", uid=self.data["volume"]["uid"])
1:   File "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting-build/lib/Slicer-4.9/qt-scripted-modules/QuantitativeReporting.py", line 197, in loadTestData
1:     if not len(slicer.dicomDatabase.filesForSeries(uid)):
1: AttributeError: 'NoneType' object has no attribute 'filesForSeries'
1: 
1: ======================================================================
1: ERROR: test_import_labelmap (QuantitativeReportingTests.QuantitativeReportingTest)
1: ----------------------------------------------------------------------
1: Traceback (most recent call last):
1:   File "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting/Testing/QuantitativeReportingTests.py", line 229, in test_import_labelmap
1:     self.loadTestVolume()
1:   File "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting/Testing/QuantitativeReportingTests.py", line 119, in loadTestVolume
1:     qrWidget.loadTestData(self.collection, imageDataType="volume", uid=self.data["volume"]["uid"])
1:   File "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting-build/lib/Slicer-4.9/qt-scripted-modules/QuantitativeReporting.py", line 197, in loadTestData
1:     if not len(slicer.dicomDatabase.filesForSeries(uid)):
1: AttributeError: 'NoneType' object has no attribute 'filesForSeries'
1: 
1: ======================================================================
1: ERROR: test_import_segmentation (QuantitativeReportingTests.QuantitativeReportingTest)
1: ----------------------------------------------------------------------
1: Traceback (most recent call last):
1:   File "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting/Testing/QuantitativeReportingTests.py", line 269, in test_import_segmentation
1:     self.loadTestVolume()
1:   File "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting/Testing/QuantitativeReportingTests.py", line 119, in loadTestVolume
1:     qrWidget.loadTestData(self.collection, imageDataType="volume", uid=self.data["volume"]["uid"])
1:   File "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting-build/lib/Slicer-4.9/qt-scripted-modules/QuantitativeReporting.py", line 197, in loadTestData
1:     if not len(slicer.dicomDatabase.filesForSeries(uid)):
1: AttributeError: 'NoneType' object has no attribute 'filesForSeries'
1: 
1: ======================================================================
1: ERROR: test_read_report (QuantitativeReportingTests.QuantitativeReportingTest)
1: ----------------------------------------------------------------------
1: Traceback (most recent call last):
1:   File "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting/Testing/QuantitativeReportingTests.py", line 143, in test_read_report
1:     loadTestData()
1:   File "/home/kitware/Dashboards/Nightly/S-0-E-b/QuantitativeReporting/Testing/QuantitativeReportingTests.py", line 135, in loadTestData
1:     if not len(slicer.dicomDatabase.filesForSeries(fileData['uid'])):
1: AttributeError: 'NoneType' object has no attribute 'filesForSeries'
1: 
1: ----------------------------------------------------------------------
1: Ran 5 tests in 11.788s
1: 
1: FAILED (errors=4)
1: Traceback (most recent call last):
1:   File "<string>", line 1, in <module>
1:   File "/home/kitware/Dashboards/Nightly/Slicer-0-build/Slicer-build/bin/Python/slicer/testing.py", line 25, in runUnitTest
1:     exitFailure()
1:   File "/home/kitware/Dashboards/Nightly/Slicer-0-build/Slicer-build/bin/Python/slicer/testing.py", line 10, in exitFailure
1:     raise Exception(message)
1: Exception
1: Switch to module:  "" 
1/1 Test #1: py_QuantitativeReportingTests ....***Failed   24.00 sec

0% tests passed, 1 tests failed out of 1

Total Test time (real) =  24.00 sec

The following tests FAILED:
      1 - py_QuantitativeReportingTests (Failed)
Errors while running CTest

[che85]

@jcfr Thanks a lot for the help today.

Is it uncommon to use the slicer.dicomDatabase in tests? If so, are there any examples how to handle such situations?

[jcfr]

You could look into using the context manager DICOMUtils.TemporaryDICOMDatabase(self.dicomDatabaseDir)

For example, see https://github.com/SlicerRt/SlicerRT/commit/eb6d8e7fefa239bce34815243b76651a9d27264d

[cpinter]

https://github.com/SlicerRt/SlicerRT/blob/master/Testing/Python/IGRTWorkflow_SelfTest.py#L125-L146

One more example: https://github.com/SlicerRt/GelDosimetryAnalysis/blob/master/GelDosimetryAnalysis/GelDosimetryAnalysis.py#L2221-L2244