Wednesday, August 12 2026 15:07:03
CIP
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Show Build Graphs----------- ENTRY ------------ ----------- PHASE 2 ------------ Configuring CIP... ChestConv: ON ----------- DONE ------------ -- Configuring SEM CLI module: ConvertDicom -- Configuring SEM CLI module: MergeParticleDataSets -- Configuring SEM CLI module: RemoveParticlesFromParticlesDataSet -- Configuring SEM CLI module: ExtractParticlesFromChestRegionChestType -- Configuring SEM CLI module: GenerateOtsuLungCast -- Configuring SEM CLI module: GenerateAtlasConvexHull -- Configuring SEM CLI module: RegisterLungAtlas -- Configuring SEM CLI module: ResampleLabelMap -- Configuring SEM CLI module: RescaleLabelMap -- Configuring CIP -- Configuring SEM CLI module: ResampleCT -- Configuring SEM CLI module: QualityControl -- Configuring SEM CLI module: RemoveChestTypeFromLabelMapUsingParticles -- Configuring SEM CLI module: SegmentLungLobes -- Configuring SEM CLI module: ReadDicomWriteTags -- Configuring SEM CLI module: SplitLeftLungRightLung -- Configuring SEM CLI module: ExtractChestLabelMap -- Configuring SEM CLI module: LabelParticlesByChestRegionChestType -- Configuring SEM CLI module: GenerateStenciledLabelMapFromParticles -- Configuring SEM CLI module: GenerateDistanceMapFromLabelMap -- Configuring SEM CLI module: FilterVesselParticleData -- Configuring SEM CLI module: FilterAirwayParticleData -- Configuring SEM CLI module: ScourParticleData -- Configuring SEM CLI module: ReadNRRDsWriteVTK -- Configuring SEM CLI module: ReadVTKWriteNRRDs -- Configuring SEM CLI module: ComputeCrossSectionalArea -- Configuring SEM CLI module: ComputeIntensityStatistics -- Configuring SEM CLI module: FilterFissureParticleData -- Configuring SEM CLI module: GenerateLobeSurfaceModels -- Configuring SEM CLI module: ClassifyFissureParticles -- Configuring SEM CLI module: CropLung -- Configuring SEM CLI module: GenerateModel -- Configuring SEM CLI module: GenerateImageSubVolumes -- Configuring SEM CLI module: GenerateMedianFilteredImage -- Configuring SEM CLI module: FindPatchMatch -- Configuring SEM CLI module: TransferRegionAndTypeIndicesToFromPoints -- Configuring SEM CLI module: EvaluateLungLobeSegmentationResults -- Configuring SEM CLI module: ConvertLabelMapValueToChestRegionChestType -- Configuring SEM CLI module: GenerateRegionHistogramsAndParenchymaPhenotypes -- Configuring SEM CLI module: ComputeDistanceMap -- Configuring SEM CLI module: TransferFieldDataToFromPointData -- Configuring SEM CLI module: PerturbParticles -- Configuring SEM CLI module: ReadWriteRegionAndTypePoints -- Configuring SEM CLI module: PerformMorphological -- Configuring SEM CLI module: GenerateOverlayImages -- Configuring SEM CLI module: GetTransformationSimilarityMetric -- Configuring SEM CLI module: GetTransformationKappa2D -- Configuring SEM CLI module: GetTransformationKappa -- Configuring SEM CLI module: ReadWriteImageData -- Configuring SEM CLI module: GetStructuresInLabelMap -- Configuring SEM CLI module: GeneratePartialLungLabelMap -- Configuring SEM CLI module: ReadVidaWriteCIP -- Configuring SEM CLI module: RegisterLabelMaps -- Configuring SEM CLI module: RegisterCT -- Configuring SEM CLI module: MergeChestLabelMaps -- Configuring SEM CLI module: MaskOutLabelMapStructures -- Configuring SEM CLI module: ComputeFeatureStrength -- Configuring SEM CLI module: LabelMapFromRegionAndTypePoints -- Configuring SEM CLI module: GenerateSimpleLungMask -- Configuring SEM CLI module: GenerateBinaryThinning3D -- Configuring SEM CLI module: ConvertChestRegionChestTypeToLabelMapValue -- Configuring SEM CLI module: FilterConnectedComponents -- Configuring SEM CLI module: EnhanceFissuresInImage -- Configuring SEM CLI module: ComputeFissureFeatureVectors -- Configuring SEM CLI module: FitLobeSurfaceModelsToParticleData -- Configuring SEM CLI module: GenerateLesionSegmentation -- Configuring SEM CLI module: RemapLabelMap -- Configuring SEM CLI module: GenerateNLMFilteredImage -- Configuring SEM CLI module: ComputeAirwayWallFromParticles -- Configuring SEM CLI module: RegionTypeLocationsToROIVolume -- Configuring SEM CLI module: ExtractFissureBoundaryFromLobeMap -- Configuring SEM CLI module: ExecuteSystemCommand Wrapping ChestConventions with Python in /Users/jonieva/Projects/CIP-build/CIPPython-install/bin/python -- Configuring done -- Generating done -- Build files have been written to: /Users/jonieva/Projects/CIP-build/CIP-build
Linking CXX shared library ../../lib/libvtkftgl-6.3.dylib [ 32%] Built target vtkftgl Linking CXX shared library ../../lib/libvtkRenderingFreeType-6.3.dylib [ 33%] Built target vtkRenderingFreeType Linking CXX shared library ../../lib/libvtkRenderingContext2D-6.3.dylib [ 33%] Built target vtkRenderingContext2D Linking CXX shared library ../../lib/libvtkChartsCore-6.3.dylib [ 34%] Built target vtkChartsCore [ 34%] Built target vtkDICOMParser Linking CXX shared library ../../lib/libvtkIOCore-6.3.dylib
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(compress.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(uncompr.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(deflate.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inflate.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(trees.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(adler32.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(crc32.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inffast.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inftrees.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(zutil.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
[ 35%] Built target vtkIOCore Linking CXX shared library ../../lib/libvtkIOLegacy-6.3.dylib [ 36%] Built target vtkIOLegacy [ 36%] Built target vtkHashSource Linking CXX shared library ../../lib/libvtkParallelCore-6.3.dylib [ 37%] Built target vtkParallelCore Linking CXX shared library ../../lib/libvtkFiltersAMR-6.3.dylib [ 37%] Built target vtkFiltersAMR Linking CXX shared library ../../lib/libvtkFiltersFlowPaths-6.3.dylib [ 38%] Built target vtkFiltersFlowPaths
[ 42%] Built target vtkFiltersParallel Linking CXX shared library ../../lib/libvtkFiltersParallelImaging-6.3.dylib [ 43%] Built target vtkFiltersParallelImaging [ 43%] Built target vtkFiltersProgrammable [ 43%] Built target vtkFiltersSMP [ 43%] Built target vtkFiltersSelection [ 43%] Built target vtkFiltersTexture [ 43%] Built target verdict [ 43%] Built target vtkFiltersVerdict Linking CXX shared library ../../lib/libvtkIOGeometry-6.3.dylib
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(gzio.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
[ 44%] Built target vtkIOGeometry [ 44%] Built target vtkexpat Linking CXX shared library ../../lib/libvtkIOXMLParser-6.3.dylib [ 44%] Built target vtkIOXMLParser Linking CXX shared library ../../lib/libvtkIOXML-6.3.dylib [ 45%] Built target vtkIOXML Linking CXX shared library ../../../lib/libvtkmetaio-6.3.dylib
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(crc32.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(deflate.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inflate.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(trees.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(adler32.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(compress.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inffast.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inftrees.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(zutil.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
[ 46%] Built target vtkmetaio [ 48%] Built target vtkjpeg Linking C shared library ../../../lib/libvtkpng-6.3.dylib [ 49%] Built target vtkpng [ 49%] Built target vtkmkg3states Linking C shared library ../../../lib/libvtktiff-6.3.dylib [ 51%] Built target vtktiff Linking CXX shared library ../../lib/libvtkIOImage-6.3.dylib
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(gzio.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
[ 52%] Built target vtkIOImage Linking CXX shared library ../../lib/libvtkImagingHybrid-6.3.dylib [ 52%] Built target vtkImagingHybrid Linking CXX shared library ../../lib/libvtkInfovisLayout-6.3.dylib [ 53%] Built target vtkInfovisLayout [ 54%] Built target vtkInteractionStyle [ 54%] Built target vtkImagingColor Linking CXX shared library ../../lib/libvtkRenderingAnnotation-6.3.dylib [ 55%] Built target vtkRenderingAnnotation [ 56%] Built target vtkRenderingVolume
[ 42%] Built target ITKStatistics-all [ 42%] Built target ITKTransform-all [ 42%] Built target ITKImageFunction-all [ 42%] Built target ITKImageGrid-all [ 42%] Built target ITKAnisotropicSmoothing-all [ 42%] Built target ITKImageCompose-all [ 42%] Built target ITKMesh [ 42%] Built target ITKMesh-all [ 42%] Built target ITKZLIB-all Linking CXX shared library ../../../../../../lib/libITKMetaIO-4.8.dylib
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(crc32.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(deflate.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inflate.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(trees.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(adler32.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(compress.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inffast.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inftrees.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(zutil.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
[ 43%] Built target ITKMetaIO [ 43%] Built target ITKMetaIO-all [ 43%] Built target ITKSpatialObjects [ 43%] Built target ITKSpatialObjects-all [ 43%] Built target ITKImageStatistics-all [ 43%] Built target ITKPath [ 43%] Built target ITKPath-all [ 43%] Built target ITKImageIntensity-all [ 43%] Built target ITKImageLabel-all [ 43%] Built target ITKThresholding-all
[ 47%] Built target ITKDisplacementField-all [ 47%] Built target ITKEigen-all [ 47%] Built target ITKEXPAT [ 47%] Built target ITKExpat-all [ 48%] Built target ITKIOXML [ 48%] Built target ITKIOXML-all [ 48%] Built target ITKIOSpatialObjects [ 48%] Built target ITKIOSpatialObjects-all [ 48%] Built target ITKRegistrationCommon-all Linking CXX shared library ../../../../lib/libITKFEM-4.8.dylib
ld: warning: object file (CMakeFiles/ITKFEM.dir/dsrc2c.c.o) was built for newer OSX version (10.11) than being linked (10.6)
[ 50%] Built target ITKFEM [ 50%] Built target ITKFEM-all [ 50%] Built target ITKPDEDeformableRegistration-all [ 50%] Built target ITKFEMRegistration-all [ 50%] Built target gdcmcharls [ 51%] Built target gdcmCommon Linking CXX shared library ../../../../../../../lib/libitkgdcmDSED-4.8.dylib
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(crc32.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(deflate.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inflate.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(trees.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(adler32.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(compress.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inffast.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inftrees.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(zutil.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
[ 53%] Built target gdcmDSED Linking CXX shared library ../../../../../../../lib/libitkgdcmIOD-4.8.dylib [ 54%] Built target gdcmIOD Linking CXX shared library ../../../../../../../lib/libitkgdcmDICT-4.8.dylib [ 55%] Built target gdcmDICT [ 55%] Built target gdcmuuid [ 56%] Built target gdcmopenjpeg [ 59%] Built target gdcmjpeg8 [ 62%] Built target gdcmjpeg16 [ 65%] Built target gdcmjpeg12
[ 89%] Built target ITKIOCSV [ 89%] Built target ITKIOCSV-all Linking CXX shared library ../../../../lib/libITKIOGDCM-4.8.dylib [ 89%] Built target ITKIOGDCM [ 89%] Built target ITKIOGDCM-all [ 89%] Built target ITKIOIPL [ 89%] Built target ITKIOIPL-all [ 89%] Built target ITKIOGE [ 89%] Built target ITKIOGE-all Linking CXX shared library ../../../../lib/libITKIOGIPL-4.8.dylib
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(gzio.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(crc32.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(deflate.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inflate.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(zutil.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(trees.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(adler32.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(compress.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inffast.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
ld: warning: object file (/.../CIP-build/zlib-install/lib/libzlib.a(inftrees.c.o)) was built for newer OSX version (10.11) than being linked (10.6)
[ 89%] Built target ITKIOGIPL [ 89%] Built target ITKIOGIPL-all Linking CXX shared library ../../../../lib/libITKIOHDF5-4.8.dylib [ 89%] Built target ITKIOHDF5 [ 89%] Built target ITKIOHDF5-all [ 91%] Built target itkjpeg [ 91%] Built target ITKJPEG-all [ 91%] Built target ITKIOJPEG [ 91%] Built target ITKIOJPEG-all [ 91%] Built target itkmkg3states
[100%] Built target ITKVtkGlue [100%] Built target ITKVtkGlue-all [ 35%] No install step for 'ITKv4' [ 36%] Completed 'ITKv4' [ 40%] Built target ITKv4 [ 41%] Performing update step for 'SlicerExecutionModel' [ 43%] Performing configure step for 'SlicerExecutionModel' loading initial cache file /.../CIP-build/SlicerExecutionModel-prefix/tmp/SlicerExecutionModel-cache.cmake -- Configuring done -- Generating done
CMake Warning (dev):
Policy CMP0042 is not set: MACOSX_RPATH is enabled by default. Run "cmake --help-policy CMP0042" for policy details. Use the cmake_policy command to set the policy and suppress this warning. MACOSX_RPATH is not specified for the following targets: ModuleDescriptionParser This warning is for project developers. Use -Wno-dev to suppress it.
# All requested packages already installed. # packages in environment at /.../CIP-build/CIPPython-install: # nose 1.3.7 py27_0 [ 74%] Completed 'CIPPython' [ 78%] Built target CIPPython [ 79%] Performing update step for 'teem' [ 81%] Performing configure step for 'teem' loading initial cache file /.../CIP-build/teem-prefix/tmp/teem-cache.cmake -- Configuring done
CMake Warning (dev):
Policy CMP0042 is not set: MACOSX_RPATH is enabled by default. Run "cmake --help-policy CMP0042" for policy details. Use the cmake_policy command to set the policy and suppress this warning. MACOSX_RPATH is not specified for the following targets: teem This warning is for project developers. Use -Wno-dev to suppress it. -- Generating done
