0001955: EMSegmenter shows up red in Modules Setting but works fine

ID	Project	Category	View Status	Date Submitted	Last Update

0001955	Slicer4	Core: Base Code	public	2012-04-27 12:24	2012-05-10 11:58

Reporter	pohl	Assigned To	jcfr
Priority	normal	Severity	text	Reproducibility	always
Status	closed	Resolution	fixed
Platform	Linux	OS	Ubuntu	OS Version	11.10
Product Version	Slicer 4.1.0
Target Version	Slicer 4.2.0	Fixed in Version	Slicer 4.2.0

Summary	0001955: EMSegmenter shows up red in Modules Setting but works fine
Description	EMSegmenter shows up red in Modules Setting but works fine - The log files do not show any error messages
Steps To Reproduce	1) Start Slicer 2) Edit->Modules settings, "EMSegmenter with altas" is in red color If you run EMSegmenter everything seems to work fine
Tags	No tags attached.

jcfr 2012-05-08 10:30 administrator ~0004200	Following Monday session I pushed r19972 [1] which was a follow up of r19685 [2]. Based on my understanding, we successfully resolved the problem, this will have to be verified with Kilian. I suggest you mark the issue as resolved. Kilian will then confirm it works before closing the issue. [1] http://viewvc.slicer.org/viewvc.cgi/Slicer4?view=revision&revision=19972 [2] http://viewvc.slicer.org/viewvc.cgi/Slicer4?view=revision&revision=19695

pohl 2012-05-08 14:41 developer ~0004203	it still shows up red in my ubuntu build

jcfr 2012-05-08 15:51 administrator ~0004205	If it shows red, it means the module failed to load. Starting Slicer using: ./Slicer --verbose-module-discovery should provide you with more details.

pohl 2012-05-08 16:18 developer ~0004206	EMSegmenter with atlas works and there is no error : Attempt to register "Cameras" ........................................ [OK] Attempt to register "EventBroker" .................................... [OK] Attempt to register "Annotations" .................................... [OK] Attempt to register "Colors" ......................................... [OK] Attempt to register "CropVolume" ..................................... [OK] Attempt to register "Data" ........................................... [OK] Attempt to register "EMSegment" ...................................... [OK] Attempt to register "EMSegmentQuick" ................................. [OK] Attempt to register "Models" ......................................... [OK] Attempt to register "ModuleTemplate" ................................. [OK] Attempt to register "MultiVolumeExplorer" ............................ [OK] Attempt to register "OpenIGTLinkIF" .................................. [OK] Attempt to register "Reformat" ....................................... [OK] Attempt to register "SceneViews" ..................................... [OK] Attempt to register "TractographyDisplay" ............................ [OK] Attempt to register "TractographyFiducialSeeding" .................... [OK] Attempt to register "Tractography" ................................... [OK] Attempt to register "Transforms" ..................................... [OK] Attempt to register "ViewControllers" ................................ [OK] Attempt to register "VolumeRendering" ................................ [OK] Attempt to register "Volumes" ........................................ [OK] Attempt to register "Welcome" ........................................ [OK] Attempt to register "ChangeTracker" .................................. [OK] Attempt to register "DataProbe" ...................................... [OK] Attempt to register "DICOM" .......................................... [OK] Attempt to register "DICOM2FullBrainTractography" .................... [OK] Attempt to register "DICOMDiffusionVolumePlugin" ..................... [OK] Attempt to register "DICOMScalarVolumePlugin" ........................ [OK] Attempt to register "DICOMSlicerDataBundlePlugin" .................... [OK] Attempt to register "Editor" ......................................... [OK] Attempt to register "Endoscopy" ...................................... [OK] Attempt to register "LabelStatistics" ................................ [OK] Attempt to register "MultiVolumeImporter" ............................ [OK] Attempt to register "PerformanceTests" ............................... [OK] Attempt to register "SampleData" ..................................... [OK] Attempt to register "VectorToScalarVolume" ........................... [OK] Attempt to register "WebGLExport" .................................... [OK] Attempt to register "ACPCTransform" .................................. [OK] Attempt to register "AddScalarVolumes" ............................... [OK] Attempt to register "AffineRegistration" ............................. [OK] Attempt to register "BRAINSDemonWarp" ................................ [OK] Attempt to register "BRAINSFit" ...................................... [OK] Attempt to register "BRAINSResample" ................................. [OK] Attempt to register "BRAINSROIAuto" .................................. [OK] Attempt to register "BSplineDeformableRegistration" .................. [OK] Attempt to register "BSplineToDeformationField" ...................... [OK] Attempt to register "CastScalarVolume" ............................... [OK] Attempt to register "CheckerBoardFilter" ............................. [OK] Attempt to register "CLI4Test" ....................................... [OK] Attempt to register "ConnectedComponent" ............................. [OK] Attempt to register "CreateDICOMSeries" .............................. [OK] Attempt to register "CurvatureAnisotropicDiffusion" .................. [OK] Attempt to register "DicomToNrrdConverter" ........................... [OK] Attempt to register "DiffusionTensorScalarMeasurements" .............. [OK] Attempt to register "DiffusionTensorTest" ............................ [OK] Attempt to register "DiffusionWeightedVolumeMasking" ................. [OK] Attempt to register "DTIexport" ...................................... [OK] Attempt to register "DTIimport" ...................................... [OK] Attempt to register "DWIJointRicianLMMSEFilter" ...................... [OK] Attempt to register "DWIRicianLMMSEFilter" ........................... [OK] Attempt to register "DWIToDTIEstimation" ............................. [OK] Attempt to register "DWIUnbiasedNonLocalMeansFilter" ................. [OK] Attempt to register "EMSegmentCommandLine" ........................... [OK] Attempt to register "EMSegmentTransformToNewFormat" .................. [OK] Attempt to register "ExecutionModelTour" ............................. [OK] Attempt to register "ExpertAutomatedRegistration" .................... [OK] Attempt to register "ExtractSkeleton" ................................ [OK] Attempt to register "FiducialRegistration" ........................... [OK] Attempt to register "GaussianBlurImageFilter" ........................ [OK] Attempt to register "GradientAnisotropicDiffusion" ................... [OK] Attempt to register "GrayscaleFillHoleImageFilter" ................... [OK] Attempt to register "GrayscaleGrindPeakImageFilter" .................. [OK] Attempt to register "GrayscaleModelMaker" ............................ [OK] Attempt to register "HistogramMatching" .............................. [OK] Attempt to register "ImageLabelCombine" .............................. [OK] Attempt to register "IntensityDifferenceMetric" ...................... [OK] Attempt to register "LabelMapSmoothing" .............................. [OK] Attempt to register "ACPCTransform" .................................. [OK] Attempt to register "AddScalarVolumes" ............................... [OK] Attempt to register "AffineRegistration" ............................. [OK] Attempt to register "BRAINSDemonWarp" ................................ [OK] Attempt to register "BRAINSFit" ...................................... [OK] Attempt to register "BRAINSResample" ................................. [OK] Attempt to register "BRAINSROIAuto" .................................. [OK] Attempt to register "BSplineDeformableRegistration" .................. [OK] Attempt to register "BSplineToDeformationField" ...................... [OK] Attempt to register "CastScalarVolume" ............................... [OK] Attempt to register "CheckerBoardFilter" ............................. [OK] Attempt to register "CLI4Test" ....................................... [OK] Attempt to register "ConnectedComponent" ............................. [OK] Attempt to register "CreateDICOMSeries" .............................. [OK] Attempt to register "CurvatureAnisotropicDiffusion" .................. [OK] Attempt to register "DicomToNrrdConverter" ........................... [OK] Attempt to register "DiffusionTensorTest" ............................ [OK] Attempt to register "DWIJointRicianLMMSEFilter" ...................... [OK] Attempt to register "DWIRicianLMMSEFilter" ........................... [OK] Attempt to register "DWIUnbiasedNonLocalMeansFilter" ................. [OK] Attempt to register "ExecutionModelTour" ............................. [OK] Attempt to register "ExpertAutomatedRegistration" .................... [OK] Attempt to register "ExtractSkeleton" ................................ [OK] Attempt to register "FiducialRegistration" ........................... [OK] Attempt to register "GaussianBlurImageFilter" ........................ [OK] Attempt to register "GradientAnisotropicDiffusion" ................... [OK] Attempt to register "GrayscaleFillHoleImageFilter" ................... [OK] Attempt to register "GrayscaleGrindPeakImageFilter" .................. [OK] Attempt to register "HistogramMatching" .............................. [OK] Attempt to register "ImageLabelCombine" .............................. [OK] Attempt to register "LabelMapSmoothing" .............................. [OK] Attempt to register "LinearRegistration" ............................. [OK] Attempt to register "MaskScalarVolume" ............................... [OK] Attempt to register "MedianImageFilter" .............................. [OK] Attempt to register "MergeModels" .................................... [OK] Attempt to register "MeshContourSegmentation" ........................ [OK] Attempt to register "ModelMaker" ..................................... [OK] Attempt to register "ModelToLabelMap" ................................ [OK] Attempt to register "MRIBiasFieldCorrection" ......................... [OK] Attempt to register "MultiplyScalarVolumes" .......................... [OK] Attempt to register "MultiResolutionAffineRegistration" .............. [OK] Attempt to register "N4ITKBiasFieldCorrection" ....................... [OK] Attempt to register "OrientScalarVolume" ............................. [OK] Attempt to register "OtsuThresholdImageFilter" ....................... [OK] Attempt to register "OtsuThresholdSegmentation" ...................... [OK] Attempt to register "ResampleDTIVolume" .............................. [OK] Attempt to register "ResampleScalarVectorDWIVolume" .................. [OK] Attempt to register "ResampleScalarVolume" ........................... [OK] Attempt to register "RigidRegistration" .............................. [OK] Attempt to register "RobustStatisticsSegmenter" ...................... [OK] Attempt to register "SimpleRegionGrowingSegmentation" ................ [OK] Attempt to register "SubtractScalarVolumes" .......................... [OK] Attempt to register "TestGridTransformRegistration" .................. [OK] Attempt to register "ThresholdScalarVolume" .......................... [OK] Attempt to register "VBRAINSDemonWarp" ............................... [OK] Attempt to register "VotingBinaryHoleFillingImageFilter" ............. [OK] Attempt to register "PETStandardUptakeValueComputation" .............. [OK] Attempt to register "ProbeVolumeWithModel" ........................... [OK] Attempt to register "TractographyLabelMapSeeding" .................... [OK] Number of registered modules: 105 Attempt to instantiate "ACPCTransform" ............................... [OK] Attempt to instantiate "AddScalarVolumes" ............................ [OK] Attempt to instantiate "AffineRegistration" .......................... [OK] Attempt to instantiate "Annotations" ................................. [OK] Attempt to instantiate "BRAINSDemonWarp" ............................. [OK] Attempt to instantiate "BRAINSFit" ................................... [OK] Attempt to instantiate "BRAINSROIAuto" ............................... [OK] Attempt to instantiate "BRAINSResample" .............................. [OK] Attempt to instantiate "BSplineDeformableRegistration" ............... [OK] Attempt to instantiate "BSplineToDeformationField" ................... [OK] Attempt to instantiate "CLI4Test" .................................... [OK] Attempt to instantiate "Cameras" ..................................... [OK] Attempt to instantiate "CastScalarVolume" ............................ [OK] Attempt to instantiate "ChangeTracker" ............................... [OK] Attempt to instantiate "CheckerBoardFilter" .......................... [OK] Attempt to instantiate "Colors" ...................................... [OK] Attempt to instantiate "ConnectedComponent" .......................... [OK] Attempt to instantiate "CreateDICOMSeries" ........................... [OK] Attempt to instantiate "CropVolume" .................................. [OK] Attempt to instantiate "CurvatureAnisotropicDiffusion" ............... [OK] Attempt to instantiate "DICOM" ....................................... [OK] Attempt to instantiate "DICOM2FullBrainTractography" ................. [OK] Attempt to instantiate "DICOMDiffusionVolumePlugin" .................. [OK] Attempt to instantiate "DICOMScalarVolumePlugin" ..................... [OK] Attempt to instantiate "DICOMSlicerDataBundlePlugin" ................. [OK] Attempt to instantiate "DTIexport" ................................... [OK] Attempt to instantiate "DTIimport" ................................... [OK] Attempt to instantiate "DWIJointRicianLMMSEFilter" ................... [OK] Attempt to instantiate "DWIRicianLMMSEFilter" ........................ [OK] Attempt to instantiate "DWIToDTIEstimation" .......................... [OK] Attempt to instantiate "DWIUnbiasedNonLocalMeansFilter" .............. [OK] Attempt to instantiate "Data" ........................................ [OK] Attempt to instantiate "DataProbe" ................................... [OK] Attempt to instantiate "DicomToNrrdConverter" ........................ [OK] Attempt to instantiate "DiffusionTensorScalarMeasurements" ........... [OK] Attempt to instantiate "DiffusionTensorTest" ......................... [OK] Attempt to instantiate "DiffusionWeightedVolumeMasking" .............. [OK] Attempt to instantiate "EMSegment" ................................... [OK] Attempt to instantiate "EMSegmentCommandLine" ........................ [OK] Attempt to instantiate "EMSegmentQuick" .............................. [OK] Attempt to instantiate "EMSegmentTransformToNewFormat" ............... [OK] Attempt to instantiate "Editor" ...................................... [OK] Attempt to instantiate "Endoscopy" ................................... [OK] Attempt to instantiate "EventBroker" ................................. [OK] Attempt to instantiate "ExecutionModelTour" .......................... [OK] Attempt to instantiate "ExpertAutomatedRegistration" ................. [OK] Attempt to instantiate "ExtractSkeleton" ............................. [OK] Attempt to instantiate "FiducialRegistration" ........................ [OK] Attempt to instantiate "GaussianBlurImageFilter" ..................... [OK] Attempt to instantiate "GradientAnisotropicDiffusion" ................ [OK] Attempt to instantiate "GrayscaleFillHoleImageFilter" ................ [OK] Attempt to instantiate "GrayscaleGrindPeakImageFilter" ............... [OK] Attempt to instantiate "GrayscaleModelMaker" ......................... [OK] Attempt to instantiate "HistogramMatching" ........................... [OK] Attempt to instantiate "ImageLabelCombine" ........................... [OK] Attempt to instantiate "IntensityDifferenceMetric" ................... [OK] Attempt to instantiate "LabelMapSmoothing" ........................... [OK] Attempt to instantiate "LabelStatistics" ............................. [OK] Attempt to instantiate "LinearRegistration" .......................... [OK] Attempt to instantiate "MRIBiasFieldCorrection" ...................... [OK] Attempt to instantiate "MaskScalarVolume" ............................ [OK] Attempt to instantiate "MedianImageFilter" ........................... [OK] Attempt to instantiate "MergeModels" ................................. [OK] Attempt to instantiate "MeshContourSegmentation" ..................... [OK] Attempt to instantiate "ModelMaker" .................................. [OK] Attempt to instantiate "ModelToLabelMap" ............................. [OK] Attempt to instantiate "Models" ...................................... [OK] Attempt to instantiate "ModuleTemplate" .............................. [OK] Attempt to instantiate "MultiResolutionAffineRegistration" ........... [OK] Attempt to instantiate "MultiVolumeExplorer" ......................... [OK] Attempt to instantiate "MultiVolumeImporter" ......................... [OK] Attempt to instantiate "MultiplyScalarVolumes" ....................... [OK] Attempt to instantiate "N4ITKBiasFieldCorrection" .................... [OK] Attempt to instantiate "OpenIGTLinkIF" ............................... [OK] Attempt to instantiate "OrientScalarVolume" .......................... [OK] Attempt to instantiate "OtsuThresholdImageFilter" .................... [OK] Attempt to instantiate "OtsuThresholdSegmentation" ................... [OK] Attempt to instantiate "PETStandardUptakeValueComputation" ........... [OK] Attempt to instantiate "PerformanceTests" ............................ [OK] Attempt to instantiate "ProbeVolumeWithModel" ........................ [OK] Attempt to instantiate "Reformat" .................................... [OK] Attempt to instantiate "ResampleDTIVolume" ........................... [OK] Attempt to instantiate "ResampleScalarVectorDWIVolume" ............... [OK] Attempt to instantiate "ResampleScalarVolume" ........................ [OK] Attempt to instantiate "RigidRegistration" ........................... [OK] Attempt to instantiate "RobustStatisticsSegmenter" ................... [OK] Attempt to instantiate "SampleData" .................................. [OK] Attempt to instantiate "SceneViews" .................................. [OK] Attempt to instantiate "SimpleRegionGrowingSegmentation" ............. [OK] Attempt to instantiate "SubtractScalarVolumes" ....................... [OK] Attempt to instantiate "TestGridTransformRegistration" ............... [OK] Attempt to instantiate "ThresholdScalarVolume" ....................... [OK] Attempt to instantiate "Tractography" ................................ [OK] Attempt to instantiate "TractographyDisplay" ......................... [OK] Attempt to instantiate "TractographyFiducialSeeding" ................. [OK] Attempt to instantiate "TractographyLabelMapSeeding" ................. [OK] Attempt to instantiate "Transforms" .................................. [OK] Attempt to instantiate "VBRAINSDemonWarp" ............................ [OK] Attempt to instantiate "VectorToScalarVolume" ........................ [OK] Attempt to instantiate "ViewControllers" ............................. [OK] Attempt to instantiate "VolumeRendering" ............................. [OK] Attempt to instantiate "Volumes" ..................................... [OK] Attempt to instantiate "VotingBinaryHoleFillingImageFilter" .......... [OK] Attempt to instantiate "WebGLExport" ................................. [OK] Attempt to instantiate "Welcome" ..................................... [OK] Number of instantiated modules: 105 Loading module "ACPCTransform" Loading module "AddScalarVolumes" Loading module "AffineRegistration" Loading module "Annotations" RegisterIO "qSlicerAnnotationsIO" RegisterIO "qSlicerFiducialsIO" Loading module "BRAINSDemonWarp" Loading module "BRAINSFit" Loading module "BRAINSROIAuto" Loading module "BRAINSResample" Loading module "BSplineDeformableRegistration" Loading module "BSplineToDeformationField" Loading module "CLI4Test" Loading module "Cameras" Loading module "CastScalarVolume" Loading module "ChangeTracker" Loading module "CheckerBoardFilter" Loading module "Colors" RegisterIO "qSlicerColorsIO" Loading module "ConnectedComponent" Loading module "CreateDICOMSeries" Loading module "CropVolume" RegisterIO "qSlicerVolumesIO" Loading module "CurvatureAnisotropicDiffusion" Loading module "DICOM" Loading module "DICOM2FullBrainTractography" Loading module "DICOMDiffusionVolumePlugin" Loading module "DICOMScalarVolumePlugin" Loading module "DICOMSlicerDataBundlePlugin" Loading module "DTIexport" Loading module "DTIimport" Loading module "DWIJointRicianLMMSEFilter" Loading module "DWIRicianLMMSEFilter" Loading module "DWIToDTIEstimation" Loading module "DWIUnbiasedNonLocalMeansFilter" Loading module "Data" RegisterIO "qSlicerSceneIO" RegisterIO "qSlicerSceneBundleIO" RegisterIO "qSlicerSlicer2SceneReader" RegisterIO "qSlicerXcedeCatalogIO" Loading module "DataProbe" Loading module "DicomToNrrdConverter" Loading module "DiffusionTensorScalarMeasurements" Loading module "DiffusionTensorTest" Loading module "DiffusionWeightedVolumeMasking" Loading module "EMSegment" Loading module "EMSegmentCommandLine" Loading module "EMSegmentQuick" Loading module "EMSegmentTransformToNewFormat" Loading module "Editor" Loading module "Endoscopy" Loading module "EventBroker" Loading module "ExecutionModelTour" Loading module "ExpertAutomatedRegistration" Loading module "ExtractSkeleton" Loading module "FiducialRegistration" Loading module "GaussianBlurImageFilter" Loading module "GradientAnisotropicDiffusion" Loading module "GrayscaleFillHoleImageFilter" Loading module "GrayscaleGrindPeakImageFilter" Loading module "GrayscaleModelMaker" Loading module "HistogramMatching" Loading module "ImageLabelCombine" Loading module "IntensityDifferenceMetric" Loading module "LabelMapSmoothing" Loading module "LabelStatistics" Loading module "LinearRegistration" Loading module "MRIBiasFieldCorrection" Loading module "MaskScalarVolume" Loading module "MedianImageFilter" Loading module "MergeModels" Loading module "MeshContourSegmentation" Loading module "ModelMaker" Loading module "ModelToLabelMap" Loading module "Models" RegisterIO "qSlicerModelsIO" RegisterIO "qSlicerScalarOverlayIO" Loading module "ModuleTemplate" Loading module "MultiResolutionAffineRegistration" Loading module "MultiVolumeExplorer" Loading module "MultiVolumeImporter" Loading module "MultiplyScalarVolumes" Loading module "N4ITKBiasFieldCorrection" Loading module "OpenIGTLinkIF" Loading module "OrientScalarVolume" Loading module "OtsuThresholdImageFilter" Loading module "OtsuThresholdSegmentation" Loading module "PETStandardUptakeValueComputation" Loading module "PerformanceTests" Loading module "ProbeVolumeWithModel" Loading module "Reformat" Loading module "ResampleDTIVolume" Loading module "ResampleScalarVectorDWIVolume" Loading module "ResampleScalarVolume" Loading module "RigidRegistration" Loading module "RobustStatisticsSegmenter" Loading module "SampleData" Loading module "SceneViews" Loading module "SimpleRegionGrowingSegmentation" Loading module "SubtractScalarVolumes" Loading module "TestGridTransformRegistration" Loading module "ThresholdScalarVolume" Loading module "Tractography" Loading module "TractographyDisplay" RegisterIO "qSlicerFiberBundleIO" Loading module "TractographyFiducialSeeding" Loading module "TractographyLabelMapSeeding" Loading module "Transforms" RegisterIO "qSlicerTransformsIO" Loading module "VBRAINSDemonWarp" Loading module "VectorToScalarVolume" Loading module "ViewControllers" Loading module "VolumeRendering" RegisterIO "qSlicerVolumeRenderingIO" Loading module "Volumes" Loading module "VotingBinaryHoleFillingImageFilter" Loading module "WebGLExport" Loading module "Welcome" Number of loaded modules: 105

jcfr 2012-05-08 22:14 administrator ~0004209	See http://viewvc.slicer.org/viewvc.cgi/Slicer4?view=revision&revision=20040

jcfr 2012-05-10 11:58 administrator ~0004291	Closed following test of Kilian on Ubuntu 11.04 and 11.10

Date Modified	Username	Field	Change
2012-04-27 12:24	pohl	New Issue
2012-04-27 12:24	pohl	Status	new => assigned
2012-04-27 12:24	pohl	Assigned To	=> finetjul
2012-04-27 12:44	finetjul	Severity	major => text
2012-05-08 10:30	jcfr	Note Added: 0004200
2012-05-08 10:36	finetjul	Status	assigned => resolved
2012-05-08 10:36	finetjul	Fixed in Version	=> Slicer 4.x AHM Summer 2012
2012-05-08 10:36	finetjul	Resolution	open => fixed
2012-05-08 14:41	pohl	Note Added: 0004203
2012-05-08 14:41	pohl	Status	resolved => feedback
2012-05-08 14:41	pohl	Resolution	fixed => reopened
2012-05-08 15:51	jcfr	Note Added: 0004205
2012-05-08 16:18	pohl	Note Added: 0004206
2012-05-08 18:52	finetjul	Status	feedback => assigned
2012-05-08 18:52	finetjul	Assigned To	finetjul => jcfr
2012-05-08 22:14	jcfr	Note Added: 0004209
2012-05-08 22:14	jcfr	Status	assigned => resolved
2012-05-08 22:14	jcfr	Resolution	reopened => fixed
2012-05-10 11:58	jcfr	Note Added: 0004291
2012-05-10 11:58	jcfr	Status	resolved => closed

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