libpng warning: iCCP: known incorrect sRGB profile
libpng warning: iCCP: known incorrect sRGB profile
libpng warning: iCCP: known incorrect sRGB profile
libpng warning: iCCP: known incorrect sRGB profile
libpng warning: iCCP: known incorrect sRGB profile
libpng warning: iCCP: known incorrect sRGB profile
libpng warning: iCCP: known incorrect sRGB profile
libpng warning: iCCP: known incorrect sRGB profile
Switch to module: "Data"
Loaded volume from file: D:/Data Set/SET43/ProcessedImages/PreOp/Series5.nrrd. Dimensions: 512x512x392. Number of components: 1. Pixel type: short.
"Volume" Reader has successfully read the file "D:/Data Set/SET43/ProcessedImages/PreOp/Series5.nrrd" "[1.41s]"
"Markups" Reader has successfully read the file "D:/Data Set/SET43/ProcessedImages/PreOp/verD/VesselSeeds.fcsv" "[0.11s]"
"Markups" Reader has successfully read the file "D:/Data Set/SET43/ProcessedImages/PreOp/verD/SegmentationSeeds.fcsv" "[0.04s]"
Switch to module: "rev"
#segmentationseeds = 3
segmentationSeedList[i]* [0, 0, 0]
segmentationSeedList[i]* [0, 0, 0]
segmentationSeedList[i]* [0, 0, 0]
aortaSegmentationSeeds[i]* vtkMRMLMarkupsFiducialNode (0000029B2BBD8680)
ID: vtkMRMLMarkupsFiducialNode2
ClassName: vtkMRMLMarkupsFiducialNode
Name: SegmentationSeeds
Debug: false
MTime: 320684
Description:
SingletonTag: (none)
HideFromEditors: false
Selectable: true
Selected: false
UndoEnabled: false
Node references:
display [displayNodeRef]: vtkMRMLMarkupsFiducialDisplayNode2
storage [storageNodeRef]: vtkMRMLMarkupsFiducialStorageNode2
transform [transformNodeRef]: (none)
Debug: Off
Modified Time: 296587
Reference Count: 1
Registered Events: (none)
Name = (none)
RestoreSelectionState = 0
StorageNodeIDs[0]: vtkMRMLMarkupsFiducialStorageNode2
TransformNodeID: (none)
DisplayNodeIDs[0]: vtkMRMLMarkupsFiducialDisplayNode2
Locked: false
MarkupLabelFormat: %N-%d
InteractionHandleToWorldMatrix:
Debug: Off
Modified Time: 321694
Reference Count: 1
Registered Events: (none)
Elements:
0.569843 0.398524 -0.71865 -1.19486
0.398524 0.630782 0.665802 176.515
0.71865 -0.665802 0.200625 1210.64
0 0 0 1
MaximumNumberOfControlPoints: unlimited
RequiredNumberOfControlPoints: unlimited
NumberOfControlPoints: 3
Control Point 0:
ID: vtkMRMLMarkupsFiducialNode_0
Label: SegmentationSeeds-1
Description:
Associated node id: vtkMRMLScalarVolumeNode1
Selected: 1
Locked: 0
Visibility: 0
PositionStatus: 2
Position: 0.000125, 159.926, 1269.97
Orientation: 1, 0, 0, 0, 1, 0, 0, 0, 1
Control Point 1:
ID: vtkMRMLMarkupsFiducialNode_1
Label: SegmentationSeeds-2
Description:
Associated node id: vtkMRMLScalarVolumeNode1
Selected: 1
Locked: 0
Visibility: 0
PositionStatus: 2
Position: 3.37419, 177.429, 1223.97
Orientation: 1, 0, 0, 0, 1, 0, 0, 0, 1
Control Point 2:
ID: vtkMRMLMarkupsFiducialNode_2
Label: SegmentationSeeds-3
Description:
Associated node id: vtkMRMLScalarVolumeNode1
Selected: 1
Locked: 0
Visibility: 0
PositionStatus: 2
Position: -6.95889, 192.19, 1137.97
Orientation: 1, 0, 0, 0, 1, 0, 0, 0, 1
Processing started
Found SharedObject Module
ModuleType: SharedObjectModule
Crop Image (TubeTK) command line:
slicer:00007FFB522BBD43 --processinformationaddress 0000029B7F141FF8 --min 405, 119, 347 --max 113, 384, 261 slicer:0000029B59C01220#vtkMRMLScalarVolumeNode1 slicer:0000029B59C01220#vtkMRMLScalarVolumeNode2
Crop Image (TubeTK) standard output:
System: INBASDLP12595
Processor: Unknown P6 family
Cache: -1
Clock: 2208
Physical CPUs: 4
Logical CPUs: 8
Virtual Memory: Total: 31500 Available: 18715
Physical Memory: Total: 7948 Available: 422
OSName: Windows
Release: Professional
Version: (Build 9200)
Platform: AMD64
Operating System is 64 bit
ITK Version: 5.2.0
Name Of Probe (Time) Iterations Total (s) Min (s) Mean (s) Max (s) StdDev (s)
CropFilter 1 0.00491142 0.00491142 0.00491142 0.00491142 0
Load data 1 0.0829341 0.0829341 0.0829341 0.0829341 0
Save data 1 0.00578618 0.00578618 0.00578618 0.00578618 0
Generic Warning: In D:\W7\S1-rel\Slicer\Libs\MRML\Core\vtkDataFileFormatHelper.cxx, line 237
vtkDataFileFormatHelper::GetFileExtensionFromFormatString: please update deprecated extension-only format specifier to 'File format name (.ext)' format! Current format string: .nrrd
Found SharedObject Module
ModuleType: SharedObjectModule
ITKSNAPLevelSetSegmentation command line:
slicer:00007FFB1858B820 --processinformationaddress 0000029B7F146198 --initialPoints -0.000125,-159.926,1269.97 --initialPoints -3.37419,-177.429,1223.97 --initialPoints 6.95889,-192.19,1137.97 --Iterations 300 --lowerThreshold 200 --upperThreshold 600 --radius 3 --TimeStep 20 --removeHiInts --postProcess slicer:0000029B59C01220#vtkMRMLScalarVolumeNode2 slicer:0000029B59C01220#vtkMRMLScalarVolumeNode3
ITKSNAPLevelSetSegmentation standard output:
Reading input volume...
System: INBASDLP12595
Processor: Unknown P6 family
Cache: -1
Clock: 2208
Physical CPUs: 4
Logical CPUs: 8
Virtual Memory: Total: 31500 Available: 18588
Physical Memory: Total: 7948 Available: 468
OSName: Windows
Release: Professional
Version: (Build 9200)
Platform: AMD64
Operating System is 64 bit
ITK Version: 5.2.0
Name Of Probe (Time) Iterations Total (s) Min (s) Mean (s) Max (s) StdDev (s)
ITK SNAP levelset segmentation1 42.4244 42.4244 42.4244 42.4244 0
Loading Input Volume File 1 0.0266049 0.0266049 0.0266049 0.0266049 0
Postprocess segmentation 1 0.275661 0.275661 0.275661 0.275661 0
Generic Warning: In D:\W7\S1-rel\Slicer\Libs\MRML\Core\vtkDataFileFormatHelper.cxx, line 237
vtkDataFileFormatHelper::GetFileExtensionFromFormatString: please update deprecated extension-only format specifier to 'File format name (.ext)' format! Current format string: .nrrd
Warning: In D:\W7\S1-rel\Slicer\Libs\MRML\Core\vtkMRMLDisplayNode.cxx, line 955
vtkMRMLModelDisplayNode (0000029B2BBD5D10): SliceIntersectionVisibilityOff method is deprecated, please use Visibility2DOff instead
Found CommandLine Module, target is D:/W7/S1-rel/S-bld/Slicer-build/lib/S1-4.13/cli-modules/RelWithDebInfo/GrayscaleModelMaker.exe
ModuleType: CommandLineModule
Grayscale Model Maker command line:
D:/W7/S1-rel/S-bld/Slicer-build/lib/S1-4.13/cli-modules/RelWithDebInfo/GrayscaleModelMaker.exe --threshold 0.1 --name Model --smooth 15 --decimate 0.25 --splitnormals --pointnormals C:/Users/MT00716003/AppData/Local/Temp/S1/BJBEA_vtkMRMLScalarVolumeNodeD.nrrd C:/Users/MT00716003/AppData/Local/Temp/S1/BJBEA_vtkMRMLModelNodeE.vtp
Grayscale Model Maker standard output:
vtkDebugLeaks has found no leaks.
Grayscale Model Maker completed without errors
Found SharedObject Module
ModuleType: SharedObjectModule
DanielssonDistanceMapImageFilter command line:
slicer:00007FFB18219F4D --processinformationaddress 0000029B7F143A38 --isBinary --invert --useImageSpacing slicer:0000029B59C01220#vtkMRMLScalarVolumeNode3 slicer:0000029B59C01220#vtkMRMLScalarVolumeNode4
DanielssonDistanceMapImageFilter standard output:
Reading input volume...
Calculating Distance Map...
Writing output volume...
System: INBASDLP12595
Processor: Unknown P6 family
Cache: -1
Clock: 2208
Physical CPUs: 4
Logical CPUs: 8
Virtual Memory: Total: 31500 Available: 18382
Physical Memory: Total: 7948 Available: 399
OSName: Windows
Release: Professional
Version: (Build 9200)
Platform: AMD64
Operating System is 64 bit
ITK Version: 5.2.0
Name Of Probe (Time) Iterations Total (s) Min (s) Mean (s) Max (s) StdDev (s)
Calculating Distance Map 1 0.966541 0.966541 0.966541 0.966541 0
Loading Input Volume File 1 0.0153461 0.0153461 0.0153461 0.0153461 0
Writing Output Volume 1 0.0407743 0.0407743 0.0407743 0.0407743 0
Generic Warning: In D:\W7\S1-rel\Slicer\Libs\MRML\Core\vtkDataFileFormatHelper.cxx, line 237
vtkDataFileFormatHelper::GetFileExtensionFromFormatString: please update deprecated extension-only format specifier to 'File format name (.ext)' format! Current format string: .nrrd
Found SharedObject Module
ModuleType: SharedObjectModule
Minimal Path Extraction (TubeTK) command line:
slicer:00007FFB17D6279C --processinformationaddress 0000029B7F1405B8 --startPoint 6.95889,-192.19,1137.97 --targetPoint -0.000125,-159.926,1269.97 --bendInBranchVesselOption NoBend --connectionOption Connect_To_Target_Tube_Surface --startRadius 2 --maxRadius 6 --stepRadius 0.5 --optimizer Regular_Step_Gradient_Descent --terminationValue 0.5 --numberOfIterations 10000 --stepLengthFactor 0.1 --stepLengthRelax 0.999 slicer:0000029B59C01220#vtkMRMLScalarVolumeNode4 D:/Data Set/SET43/ProcessedImages/PreOp/Results_124330/Centerlines/Centerline.tre
Minimal Path Extraction (TubeTK) standard output:
System: INBASDLP12595
Processor: Unknown P6 family
Cache: -1
Clock: 2208
Physical CPUs: 4
Logical CPUs: 8
Virtual Memory: Total: 31500 Available: 18589
Physical Memory: Total: 7948 Available: 588
OSName: Windows
Release: Professional
Version: (Build 9200)
Platform: AMD64
Operating System is 64 bit
ITK Version: 5.2.0
Name Of Probe (Time) Iterations Total (s) Min (s) Mean (s) Max (s) StdDev (s)
Extract minimal path 1 0.0921171 0.0921171 0.0921171 0.0921171 0
Load data 1 0.0139458 0.0139458 0.0139458 0.0139458 0
Set parameters 1 1.04904e-05 1.04904e-05 1.04904e-05 1.04904e-05 0
Write output data 1 0.0453134 0.0453134 0.0453134 0.0453134 0
Found SharedObject Module
ModuleType: SharedObjectModule
ExtractTubeRadius command line:
slicer:00007FFB176634A3 --processinformationaddress 0000029B7F144DE8 slicer:0000029B59C01220#vtkMRMLScalarVolumeNode4 D:/Data Set/SET43/ProcessedImages/PreOp/Results_124330/Centerlines/Centerline.tre
ExtractTubeRadius standard output:
Reading input volume...
Writing output tubes...
System: INBASDLP12595
Processor: Unknown P6 family
Cache: -1
Clock: 2208
Physical CPUs: 4
Logical CPUs: 8
Virtual Memory: Total: 31500 Available: 18587
Physical Memory: Total: 7948 Available: 588
OSName: Windows
Release: Professional
Version: (Build 9200)
Platform: AMD64
Operating System is 64 bit
ITK Version: 5.2.0
Name Of Probe (Time) Iterations Total (s) Min (s) Mean (s) Max (s) StdDev (s)
Calculating Radius 1 1.40585 1.40585 1.40585 1.40585 0
Loading Input Volume File 1 0.0145824 0.0145824 0.0145824 0.0145824 0
Read tubes 1 0.0241792 0.0241792 0.0241792 0.0241792 0
Writing Output tubes 1 0.0539179 0.0539179 0.0539179 0.0539179 0
Found SharedObject Module
ModuleType: SharedObjectModule
Convert Tubes to Surface (TubeTK) command line:
slicer:00007FFB1729FC7C --processinformationaddress 0000029B7F142688 --centerline C:/Users/MT00716003/AppData/Local/Temp/S1/BJBEA_vtkMRMLModelNodeF.vtp D:/Data Set/SET43/ProcessedImages/PreOp/Results_124330/Centerlines/Centerline.tre D:/Data Set/SET43/ProcessedImages/PreOp/Results_124330/Centerlines/CenterlineAsSrf.vtk