kitwaremedical / slicercustomapptemplate Goto Github PK
View Code? Open in Web Editor NEWTemplate to be used as a starting point for creating a custom 3D Slicer application
License: Apache License 2.0
Template to be used as a starting point for creating a custom 3D Slicer application
License: Apache License 2.0
Slicer_BUILD_APPLICATIONUPDATE_SUPPORT
is twice in the main CMakeLists.txt
The Build.md file specifies the build process for Windows OS, Is there a version for building in Linux ?
How to get access to the {{cookiecutter.github_organization}}/{{cookiecutter.github_project}}
repository in order to build the SlicerCustomApplication.
Tying the command
git clone https://github.com/{{cookiecutter.github_organization}}/{{cookiecutter.github_project}}.git {{cookiecutter.github_project}}
gives a
_fatal: unable to access 'https://github.com/{{cookiecutter.github_organization}}/{{cookiecutter.github_project}}.git/': The requested URL returned error: 400
Error example:
File: Descending to: "D:/D/P/SC-0-build/Slicer-build/_CPack_Packages/win-amd64/NSIS/SlicerCustomAppTemplate-0.1.0-0000-00-00-win-amd64\lib\SlicerCustomAppTemplate-4.11\qt-scripted-modules\SegmentEditorEffects\SegmentEditorEffects\__pycache__\"
File: failed opening file "D:/D/P/SC-0-build/Slicer-build/_CPack_Packages/win-amd64/NSIS/SlicerCustomAppTemplate-0.1.0-0000-00-00-win-amd64\lib\SlicerCustomAppTemplate-4.11\qt-scripted-modules\SegmentEditorEffects\SegmentEditorEffects\__pycache__\AbstractScriptedSegmentEditorAutoCompleteEffect.cpython-36.pyc"
Error in script "D:/D/P/SC-0-build/Slicer-build/_CPack_Packages/win-amd64/NSIS/project.nsi" on line 639 -- aborting creation process
SlicerCustomAppTemplate/{{cookiecutter.project_name}}/CMakeLists.txt
Lines 31 to 35 in 5d91a64
Shouldn't that be?
set(APPLICATION_VERSION_MAJOR "0")
set(APPLICATION_VERSION_MINOR "1")
set(APPLICATION_VERSION_PATCH "0")
project(${APPLICATION_NAME} VERSION "${APPLICATION_VERSION_MAJOR}.${APPLICATION_VERSION_MINOR}.${APPLICATION_VERSION_PATCH}")
Thanks!
The current implementation of the template overrides the Slicer_VERSION_*
variables which cause build error because test like this one are failing:
#include "vtkSlicerVersionConfigure.h"
#if Slicer_VERSION_MAJOR > 4 || (Slicer_VERSION_MAJOR == 4 && Slicer_VERSION_MINOR >= 9)
#include "vtkTeemNRRDReader.h"
#include "vtkTeemNRRDWriter.h"
#else
#include "vtkNRRDReader.h"
#include "vtkNRRDWriter.h"
#endif
When running the first configure (and during the subsequent build) checkouts from git repositories fail with unsafe respository ( <repo name>) is owned by someone else
This did not occur on my first build (on the main HD) but happened when moving to a separate disk the remediation is to declare certain repositories as safe see https://stackoverflow.com/questions/71901632/fatal-error-unsafe-repository-home-repon-is-owned-by-someone-else
This might affect superbuilds in general as people upgrade git
This has been happening on two of my custom apps recently. I have to manually create the bin folder to allow the build to procede. @jcfr
Hello,
I'm currently trying to build a custom Slicer application using SlicerCAT template, and I've successfully built it on Linux using ninja, but when it comes to building it on Windows, I'm running into the following error:
C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\MSBuild\Microsoft\VC\v160\Microsoft.CppCommon.targets(241,5):
error MSB8066: Custom build for
'C:\Q2\B\CMakeFiles\7b4207946361042160f1562bac00b92a\Slicer-mkdir.rule;
C:\Q2\B\CMakeFiles\7b4207946361042160f1562bac00b92a\Slicer-download.rule;
C:\Q2\B\CMak eFiles\7b4207946361042160f1562bac00b92a\Slicer-update.rule;
C:\Q2\B\CMakeFiles\7b4207946361042160f1562bac00b92a\Slicer-patch.rule;
C:\Q2\B\CMakeFiles\7b420794 6361042160f1562bac00b92a\Slicer-configure.rule;
C:\Q2\B\CMakeFiles\7b4207946361042160f1562bac00b92a\Slicer-build.rule;
C:\Q2\B\CMakeFiles\7b4207946361042160f1 562bac00b92a\Slicer-forceconfigure.rule;
C:\Q2\B\CMakeFiles\7b4207946361042160f1562bac00b92a\Slicer-install.rule;
C:\Q2\B\CMakeFiles\02c0871b71c6c3da9888900d8 44fb2d2\Slicer-complete.rule;
C:\Q2\B\CMakeFiles\c3ce02f298c40f59a83219b3361ab890\Slicer.rule;
C:\Q2\B\slicersources-src\CMakeLists.txt' exited with code 1. [ C:\Q2\B\slicersources-build\Slicer.vcxproj]
When going back in the logs, I come across the following errors:
# ...
Creating library C:/Q2/B/Slicer-build/lib/Project-5.0/Release/qProjectApp.lib and object C:/Q2/B/Slicer-build/lib/Project-5.0/Release/qProjectApp.exp
qProjectApp.vcxproj -> C:\Q2\B\Slicer-build\bin\Release\qProjectApp.dll
Building Custom Rule C:/Q2/S/Applications/ProjectApp/CMakeLists.txt
Main.cxx
ProjectApp.vcxproj -> C:\Q2\B\Slicer-build\bin\Release\ProjectApp-real.exe
Copy 'python39.dll' along side 'ProjectApp' executable. See Slicer issue #1180
Configuring application launcher: Project [SplashScreen.png]
Building Custom Rule C:/Q2/S/Applications/ProjectApp/CMakeLists.txt
Qt: Untested Windows version 6.2 detected!
C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\MSBuild\Microsoft\VC\v160\Microsoft.CppCommon.targets(241,5):
error MSB8066: Custom build for
'C:\Q2\B\Slicer-build\CMakeFiles\55b89583821e3b8bbd118cc09ed193b4\ProjectUpdateLauncherIcon.rule;
C:\Q2\S\Applications\ProjectApp\CMakeLists.txt' exited with code -1073741819.
[C:\Q2\B\Slicer-build\Applications\ProjectApp\ProjectUpdateLauncherIcon.vcxproj]
[C:\Q2\B\slicersources-build\Slicer.vcxproj]
Qt: Untested Windows version 6.2 detected!
C:\Program Files (x86)\Microsoft Visual Studio\2019\Community\MSBuild\Microsoft\VC\v160\Microsoft.CppCommon.targets(241,5):
error MSB8066: Custom build for
'C:\Q2\B\Slicer-build\CMakeFiles\740b7a104d68be69a02df780eec2153d\ProjectW.exe.rule;
C:\Q2\B\Slicer-build\CMakeFiles\55b89583821e3b8bbd118cc09ed193b4\ProjectUpdate LauncherWIcon.rule;
C:\Q2\S\Applications\ProjectApp\CMakeLists.txt' exited with code -1073741819.
[C:\Q2\B\Slicer-build\Applications\ProjectApp\ProjectUpdateLauncherW Icon.vcxproj]
[C:\Q2\B\slicersources-build\Slicer.vcxproj]
Python Wrapping - generating SlicerBaseLogicPythonInit.cxx
Python Wrapping - generating vtkSlicerApplicationLogicPython.cxx
Python Wrapping - generating vtkSlicerModuleLogicPython.cxx
Python Wrapping - generating vtkSlicerTaskPython.cxx
Python Wrapping - generating vtkDataIOManagerLogicPython.cxx
# ...
However, I can still launch my custom app but the following logs show up in console and no plugins are loaded in Slicer (except my custom scripted module)
When loading module "DICOM" , the dependency "SubjectHierarchy" failed to be loaded.
When loading module "DICOM" , the dependency "SubjectHierarchy" failed to be loaded.
When loading module "DICOMPatcher" , the dependency "DICOM" failed to be loaded.
When loading module "SegmentEditor" , the dependency "Segmentations" failed to be loaded.
When loading module "SegmentStatistics" , the dependency "SubjectHierarchy" failed to be loaded.
I did not modify the initial CMakeFile.txt
and I've launched the build following the instructions in BUILD.md:
cd C:\Q
mkdir B
cd B
cmake -G "Visual Studio 16 2019" -A x64 -DCMAKE_BUILD_TYPE=Release -DQt5_DIR:PATH=C:/Qt/5.15.2/msvc2019_64/lib/cmake/Qt5 ..\S
cmake --build . --config Release -- /maxcpucount:4
Environment:
Thanks in advance
Following Slicer/Slicer@dedb6c0 (COMP: Require at least C++17), the default value for CMAKE_CXX_STANDARD
was changed from 14
to 17
.
The template should be updated accordingly.
The default config has SurfaceToolbox disabled:
But Slicer sets a separate variable Slicer_BUILD_SurfaceToolbox that is on by default so the modules are built and show up in the UI anyway. I'm not sure what the desired behavior is but the inconsistency should be fixed.
References:
SlicerCustomAppTemplate/{{cookiecutter.project_name}}/CMakeLists.txt
Lines 54 to 56 in 90a6854
When I downloaded it, I encountered the following problems
$ git clone https://github.com/{{cookiecutter.github_organization}}/{{cookiecutter.github_project}}.git {{cookiecutter.github_project}}
Cloning into '{{cookiecutter.github_project}}'...
fatal: unable to access 'https://github.com/{{cookiecutter.github_organization}}/{{cookiecutter.github_project}}.git/': The requested URL returned error: 400
Is there anyone who can give me some advice? Thank you.
The scripted module tests crash for custom app, also confirmed to be the case with the template without anything additional. This happens using the latest master, on Windows 10 with Qt 5.10.1.
I cannot debug it with setting the launcher as executable, as it runs the test on a different thread. I'd appreciate any ideas. Thank you!
e:\e\tD\Slicer-build>ctest -C Debug -V -R py_nomainwindow_
UpdateCTestConfiguration from :E:/e/tD/Slicer-build/DartConfiguration.tcl
Parse Config file:E:/e/tD/Slicer-build/DartConfiguration.tcl
Add coverage exclude regular expressions.
Add coverage exclude: /CMakeFiles/CMakeTmp/
Add coverage exclude: .*/moc_.*
Add coverage exclude: .*/ui_.*
Add coverage exclude: .*/qrc_.*
Add coverage exclude: .*/Testing/.*
Add coverage exclude: .*Python.cxx
Add coverage exclude: .*PythonInit.cxx
Add coverage exclude: .*/DesignerPlugins/.*
Add coverage exclude: .*/generated_cpp/.*
SetCTestConfiguration:CMakeCommand:C:/Program Files/CMake/bin/cmake.exe
UpdateCTestConfiguration from :E:/e/tD/Slicer-build/DartConfiguration.tcl
Parse Config file:E:/e/tD/Slicer-build/DartConfiguration.tcl
Test project E:/e/tD/Slicer-build
Constructing a list of tests
Done constructing a list of tests
Updating test list for fixtures
Added 0 tests to meet fixture requirements
Checking test dependency graph...
Checking test dependency graph end
test 292
Start 292: py_nomainwindow_SubjectHierarchyFoldersTest1
292: Test command: E:\e\tD\Slicer-build\testingTest.exe "--no-splash" "--testing" "--disable-cli-modules" "--no-main-window" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/Debug" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/Release" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/MinSizeRel" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/RelWithDebInfo" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/cli-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['E:/e/tD/Slicer-build/Modules/Loadable/SubjectHierarchy/Testing/Python', 'E:/e/tD/slicersources-src/Modules/Loadable/SubjectHierarchy/Testing/Python'], 'SubjectHierarchyFoldersTest1')"
292: Test timeout computed to be: 1500
292: error: [E:/e/tD/Slicer-build/bin/Debug/testingTestApp-real.exe] exit abnormally - Report the problem.
1/11 Test #292: py_nomainwindow_SubjectHierarchyFoldersTest1 .................***Failed 2.76 sec
test 372
Start 372: py_nomainwindow_SegmentationsModuleTest1
372: Test command: E:\e\tD\Slicer-build\testingTest.exe "--no-splash" "--testing" "--disable-cli-modules" "--no-main-window" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/Debug" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/Release" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/MinSizeRel" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/RelWithDebInfo" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/cli-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['E:/e/tD/Slicer-build/Modules/Loadable/Segmentations/Testing/Python', 'E:/e/tD/slicersources-src/Modules/Loadable/Segmentations/Testing/Python'], 'SegmentationsModuleTest1')"
372: Test timeout computed to be: 1500
372: error: [E:/e/tD/Slicer-build/bin/Debug/testingTestApp-real.exe] exit abnormally - Report the problem.
2/11 Test #372: py_nomainwindow_SegmentationsModuleTest1 .....................***Failed 2.76 sec
test 373
Start 373: py_nomainwindow_SegmentationsModuleTest2
373: Test command: E:\e\tD\Slicer-build\testingTest.exe "--no-splash" "--testing" "--disable-cli-modules" "--no-main-window" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/Debug" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/Release" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/MinSizeRel" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/RelWithDebInfo" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/cli-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['E:/e/tD/Slicer-build/Modules/Loadable/Segmentations/Testing/Python', 'E:/e/tD/slicersources-src/Modules/Loadable/Segmentations/Testing/Python'], 'SegmentationsModuleTest2')"
373: Test timeout computed to be: 1500
373: error: [E:/e/tD/Slicer-build/bin/Debug/testingTestApp-real.exe] exit abnormally - Report the problem.
3/11 Test #373: py_nomainwindow_SegmentationsModuleTest2 .....................***Failed 2.82 sec
test 374
Start 374: py_nomainwindow_SegmentationWidgetsTest1
374: Test command: E:\e\tD\Slicer-build\testingTest.exe "--no-splash" "--testing" "--disable-cli-modules" "--no-main-window" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/Debug" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/Release" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/MinSizeRel" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules/RelWithDebInfo" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/cli-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['E:/e/tD/Slicer-build/Modules/Loadable/Segmentations/Testing/Python', 'E:/e/tD/slicersources-src/Modules/Loadable/Segmentations/Testing/Python'], 'SegmentationWidgetsTest1')"
374: Test timeout computed to be: 1500
374: error: [E:/e/tD/Slicer-build/bin/Debug/testingTestApp-real.exe] exit abnormally - Report the problem.
4/11 Test #374: py_nomainwindow_SegmentationWidgetsTest1 .....................***Failed 2.77 sec
test 417
Start 417: py_nomainwindow_qSlicerCropVolumeSequenceModuleGenericTest
417: Test command: E:\e\tD\Slicer-build\testingTest.exe "--no-splash" "--testing" "--no-main-window" "--disable-cli-modules" "--additional-module-path" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/cli-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['E:/e/tD/Slicer-build/Modules/Scripted/CropVolumeSequence', 'E:/e/tD/slicersources-src/Modules/Scripted/CropVolumeSequence'], 'qSlicerCropVolumeSequenceModuleGenericTest')"
417: Test timeout computed to be: 1500
417: error: [E:/e/tD/Slicer-build/bin/Debug/testingTestApp-real.exe] exit abnormally - Report the problem.
5/11 Test #417: py_nomainwindow_qSlicerCropVolumeSequenceModuleGenericTest ...***Failed 2.76 sec
test 419
Start 419: py_nomainwindow_qSlicerEditorModuleGenericTest
419: Test command: E:\e\tD\Slicer-build\testingTest.exe "--no-splash" "--testing" "--no-main-window" "--disable-cli-modules" "--additional-module-path" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/cli-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['E:/e/tD/Slicer-build/Modules/Scripted/Editor', 'E:/e/tD/slicersources-src/Modules/Scripted/Editor'], 'qSlicerEditorModuleGenericTest')"
419: Test timeout computed to be: 1500
419: error: [E:/e/tD/Slicer-build/bin/Debug/testingTestApp-real.exe] exit abnormally - Report the problem.
6/11 Test #419: py_nomainwindow_qSlicerEditorModuleGenericTest ...............***Failed 2.77 sec
test 422
Start 422: py_nomainwindow_qSlicerScreenCaptureModuleGenericTest
422: Test command: E:\e\tD\Slicer-build\testingTest.exe "--no-splash" "--testing" "--no-main-window" "--disable-cli-modules" "--additional-module-path" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/cli-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['E:/e/tD/Slicer-build/Modules/Scripted/ScreenCapture', 'E:/e/tD/slicersources-src/Modules/Scripted/ScreenCapture'], 'qSlicerScreenCaptureModuleGenericTest')"
422: Test timeout computed to be: 1500
422: error: [E:/e/tD/Slicer-build/bin/Debug/testingTestApp-real.exe] exit abnormally - Report the problem.
7/11 Test #422: py_nomainwindow_qSlicerScreenCaptureModuleGenericTest ........***Failed 2.77 sec
test 425
Start 425: py_nomainwindow_qSlicerSegmentStatisticsModuleGenericTest
425: Test command: E:\e\tD\Slicer-build\testingTest.exe "--no-splash" "--testing" "--no-main-window" "--disable-cli-modules" "--additional-module-path" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/cli-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['E:/e/tD/Slicer-build/Modules/Scripted/SegmentStatistics', 'E:/e/tD/slicersources-src/Modules/Scripted/SegmentStatistics'], 'qSlicerSegmentStatisticsModuleGenericTest')"
425: Test timeout computed to be: 1500
425: error: [E:/e/tD/Slicer-build/bin/Debug/testingTestApp-real.exe] exit abnormally - Report the problem.
8/11 Test #425: py_nomainwindow_qSlicerSegmentStatisticsModuleGenericTest ....***Failed 2.81 sec
test 427
Start 427: py_nomainwindow_qSlicerSelfTestsModuleGenericTest
427: Test command: E:\e\tD\Slicer-build\testingTest.exe "--no-splash" "--testing" "--no-main-window" "--disable-cli-modules" "--additional-module-path" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/cli-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['E:/e/tD/Slicer-build/Modules/Scripted/SelfTests', 'E:/e/tD/slicersources-src/Modules/Scripted/SelfTests'], 'qSlicerSelfTestsModuleGenericTest')"
427: Test timeout computed to be: 1500
427: error: [E:/e/tD/Slicer-build/bin/Debug/testingTestApp-real.exe] exit abnormally - Report the problem.
9/11 Test #427: py_nomainwindow_qSlicerSelfTestsModuleGenericTest ............***Failed 2.85 sec
test 428
Start 428: py_nomainwindow_qSlicerDICOMModuleGenericTest
428: Test command: E:\e\tD\Slicer-build\testingTest.exe "--no-splash" "--testing" "--no-main-window" "--disable-cli-modules" "--additional-module-path" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/cli-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['E:/e/tD/Slicer-build/Modules/Scripted/DICOM', 'E:/e/tD/slicersources-src/Modules/Scripted/DICOM'], 'qSlicerDICOMModuleGenericTest')"
428: Test timeout computed to be: 1500
428: error: [E:/e/tD/Slicer-build/bin/Debug/testingTestApp-real.exe] exit abnormally - Report the problem.
10/11 Test #428: py_nomainwindow_qSlicerDICOMModuleGenericTest ................***Failed 2.85 sec
test 429
Start 429: py_nomainwindow_qSlicerDICOMPatcherModuleGenericTest
429: Test command: E:\e\tD\Slicer-build\testingTest.exe "--no-splash" "--testing" "--no-main-window" "--disable-cli-modules" "--additional-module-path" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "--additional-module-paths" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-scripted-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/cli-modules" "E:/e/tD/Slicer-build/lib/testingTest-4.11/qt-loadable-modules" "--python-code" "import slicer.testing; slicer.testing.runUnitTest(['E:/e/tD/Slicer-build/Modules/Scripted/DICOMPatcher', 'E:/e/tD/slicersources-src/Modules/Scripted/DICOMPatcher'], 'qSlicerDICOMPatcherModuleGenericTest')"
429: Test timeout computed to be: 1500
429: error: [E:/e/tD/Slicer-build/bin/Debug/testingTestApp-real.exe] exit abnormally - Report the problem.
11/11 Test #429: py_nomainwindow_qSlicerDICOMPatcherModuleGenericTest .........***Failed 2.83 sec
0% tests passed, 11 tests failed out of 11
Total Test time (real) = 30.94 sec
The following tests FAILED:
292 - py_nomainwindow_SubjectHierarchyFoldersTest1 (Failed)
372 - py_nomainwindow_SegmentationsModuleTest1 (Failed)
373 - py_nomainwindow_SegmentationsModuleTest2 (Failed)
374 - py_nomainwindow_SegmentationWidgetsTest1 (Failed)
417 - py_nomainwindow_qSlicerCropVolumeSequenceModuleGenericTest (Failed)
419 - py_nomainwindow_qSlicerEditorModuleGenericTest (Failed)
422 - py_nomainwindow_qSlicerScreenCaptureModuleGenericTest (Failed)
425 - py_nomainwindow_qSlicerSegmentStatisticsModuleGenericTest (Failed)
427 - py_nomainwindow_qSlicerSelfTestsModuleGenericTest (Failed)
428 - py_nomainwindow_qSlicerDICOMModuleGenericTest (Failed)
429 - py_nomainwindow_qSlicerDICOMPatcherModuleGenericTest (Failed)
Errors while running CTest
Observed an instance where initial build of a new custom app fails due to an ITK external module attempting to build before ITK.
cookiecutter
to create a new custom appProject builds successfully. ITK external module targets depend on ITK target.
Build fails. ITK external modules are among the first build targets run, but since ITK has not been built yet they fail to find a suitable ITK.
I just tried running cookiecutter with the default options. My system is MacOS 10.12. The command line and output are as follows:
$ cookiecutter gh:KitwareMedical/SlicerCustomAppTemplate
You've downloaded /Users/michaelschumaker/.cookiecutters/SlicerCustomAppTemplate before. Is it okay to delete and re-download it? [yes]:
project_name [SlicerCustomAppTemplate]:
github_organization [Kitware]:
github_project [SlicerCustomAppTemplate]:
org_domain [kitware.com]:
org_name [Kitware, Inc.]:
app_name [SlicerCustomAppTemplate]:
app_version_major [0]:
app_version_minor [1]:
app_version_patch [0]:
app_description_summary [Customized version of Slicer]:
Traceback (most recent call last):
File "/usr/local/bin/cookiecutter", line 11, in <module>
sys.exit(main())
File "/Library/Python/2.7/site-packages/click/core.py", line 722, in __call__
return self.main(*args, **kwargs)
File "/Library/Python/2.7/site-packages/click/core.py", line 697, in main
rv = self.invoke(ctx)
File "/Library/Python/2.7/site-packages/click/core.py", line 895, in invoke
return ctx.invoke(self.callback, **ctx.params)
File "/Library/Python/2.7/site-packages/click/core.py", line 535, in invoke
return callback(*args, **kwargs)
File "/Library/Python/2.7/site-packages/cookiecutter/cli.py", line 120, in main
password=os.environ.get('COOKIECUTTER_REPO_PASSWORD')
File "/Library/Python/2.7/site-packages/cookiecutter/main.py", line 94, in cookiecutter
output_dir=output_dir
File "/Library/Python/2.7/site-packages/cookiecutter/generate.py", line 364, in generate_files
generate_file(project_dir, infile, context, env)
File "/Library/Python/2.7/site-packages/cookiecutter/generate.py", line 172, in generate_file
rendered_file = tmpl.render(**context)
File "/Library/Python/2.7/site-packages/jinja2/environment.py", line 1008, in render
return self.environment.handle_exception(exc_info, True)
File "/Library/Python/2.7/site-packages/jinja2/environment.py", line 780, in handle_exception
reraise(exc_type, exc_value, tb)
File "./CMakeLists.txt", line 22, in top-level template code
File "/Library/Python/2.7/site-packages/jinja2_github.py", line 26, in _head
return Github().get_repo(repo).get_branch(repo_branch).commit.sha
File "/Library/Python/2.7/site-packages/github/Repository.py", line 1242, in get_branch
self.url + "/branches/" + branch
File "/Library/Python/2.7/site-packages/github/Requester.py", line 260, in requestJsonAndCheck
return self.__check(*self.requestJson(verb, url, parameters, headers, input, self.__customConnection(url)))
File "/Library/Python/2.7/site-packages/github/Requester.py", line 317, in requestJson
return self.__requestEncode(cnx, verb, url, parameters, headers, input, encode)
File "/Library/Python/2.7/site-packages/github/Requester.py", line 370, in __requestEncode
status, responseHeaders, output = self.__requestRaw(cnx, verb, url, requestHeaders, encoded_input)
File "/Library/Python/2.7/site-packages/github/Requester.py", line 394, in __requestRaw
response = cnx.getresponse()
File "/Library/Python/2.7/site-packages/github/Requester.py", line 107, in getresponse
r = verb(url, headers=self.headers, data=self.input, timeout=self.timeout, verify=self.verify)
File "/Library/Python/2.7/site-packages/requests/sessions.py", line 525, in get
return self.request('GET', url, **kwargs)
File "/Library/Python/2.7/site-packages/requests/sessions.py", line 512, in request
resp = self.send(prep, **send_kwargs)
File "/Library/Python/2.7/site-packages/requests/sessions.py", line 622, in send
r = adapter.send(request, **kwargs)
File "/Library/Python/2.7/site-packages/requests/adapters.py", line 511, in send
raise SSLError(e, request=request)
requests.exceptions.SSLError: HTTPSConnectionPool(host='api.github.com', port=443): Max retries exceeded with url: /repos/Slicer/Slicer/branches/master (Caused by SSLError(SSLError(1, u'[SSL: TLSV1_ALERT_PROTOCOL_VERSION] tlsv1 alert protocol version (_ssl.c:590)'),))
@dzenanz Instead of this approach (which lead to huge logo in the case of non-dpi), I suggest we use Qt::AA_UseHighDpiPixmaps
.
Related pull requests and issues:
I have observed this is multiple custom app. When loading STLs in the Add Data dialog, the default option is as a segmentation.
Example affected app (AevaSlicer): https://data.kitware.com/#collection/5e387f9caf2e2eed3562242e/folder/5e3888e3af2e2eed35628e50
The following code should be updated:
To have the following:
Before:
GIT_TAG b0b9be57cb7d1a1e462143ec74e3d37d271d114d
After:
GIT_TAG b0b9be57cb7d1a1e462143ec74e3d37d271d114d # 2023-03.04
When trying to use a lower case starting letter, cookiecutter appears to store it internally as uppercase
$ cookiecutter gh:KitwareMedical/SlicerCustomAppTemplate
You've downloaded C:\Users\sam.horvath\.cookiecutters\SlicerCustomAppTemplate be fore. Is it okay to delete and re-download it? [yes]: yes
project_name [SlicerCustomAppTemplate]: aevaSlicer
github_organization [Kitware]:
github_project [AevaSlicer]: aevaSlicer
org_domain [kitware.com]:
org_name [Kitware, Inc.]:
app_name [AevaSlicer]: aevaSlicer
app_version_major [0]:
app_version_minor [1]:
app_version_patch [0]:
app_description_summary [Customized version of Slicer]:
Traceback (most recent call last):
File "c:\users\sam.horvath\appdata\local\programs\python\python37\lib\runpy.py ", line 193, in _run_module_as_main
"__main__", mod_spec)
File "c:\users\sam.horvath\appdata\local\programs\python\python37\lib\runpy.py ", line 85, in _run_code
exec(code, run_globals)
File "C:\Users\sam.horvath\AppData\Local\Programs\Python\Python37\Scripts\cook iecutter.exe\__main__.py", line 9, in <module>
File "c:\users\sam.horvath\appdata\local\programs\python\python37\lib\site-pac kages\click\core.py", line 764, in __call__
return self.main(*args, **kwargs)
File "c:\users\sam.horvath\appdata\local\programs\python\python37\lib\site-pac kages\click\core.py", line 717, in main
rv = self.invoke(ctx)
File "c:\users\sam.horvath\appdata\local\programs\python\python37\lib\site-pac kages\click\core.py", line 956, in invoke
return ctx.invoke(self.callback, **ctx.params)
File "c:\users\sam.horvath\appdata\local\programs\python\python37\lib\site-pac kages\click\core.py", line 555, in invoke
return callback(*args, **kwargs)
File "c:\users\sam.horvath\appdata\local\programs\python\python37\lib\site-pac kages\cookiecutter\cli.py", line 121, in main
password=os.environ.get('COOKIECUTTER_REPO_PASSWORD')
File "c:\users\sam.horvath\appdata\local\programs\python\python37\lib\site-pac kages\cookiecutter\main.py", line 94, in cookiecutter
output_dir=output_dir
File "c:\users\sam.horvath\appdata\local\programs\python\python37\lib\site-pac kages\cookiecutter\generate.py", line 364, in generate_files
generate_file(project_dir, infile, context, env)
File "c:\users\sam.horvath\appdata\local\programs\python\python37\lib\site-pac kages\cookiecutter\generate.py", line 176, in generate_file
with io.open(outfile, 'w', encoding='utf-8') as fh:
OSError: [Errno 22] Invalid argument: 'D:\\Cookiecutter\\AevaSlicer\x1b[D\x1b[D\ x1b[D\x1b[D\x1b[D\x1b[D\x1b[D\x1b[D\x1b[D\x1b[D\x1b[a\\CMakeLists.txt'
Note how the defaults for later prompts are uppercase
SlicerVirtualReality builds VTKRenderingOpenVR, which is fine, its build directory is [SuperBuild_DIR]\VTKRenderingOpenVR-build. However, when building it, openvr.h is not found. The problem is that the additional include directories contains [SuperBuild_DIR]\OpenVR\headers, but OpenVR is deployed in [SuperBuild_DIR]\slicersources-build\OpenVR.
Any ideas what needs to be changed so that OpenVR is not in slicersources-build but one level above? Thanks!
when implementing set(Slicer_DEFAULT_HOME_MODULE "DICOM")
in the toplevel CMAKE file the application fails to enter the DICOM module on startup, conversely if the module is set in DefaultSettings.ini
the module correctly comes up.
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