Wednesday, August 12 2026 01:38:25
CIP
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Show Build Graphs----------- ENTRY ------------ ----------- PHASE 2 ------------ Configuring CIP... -- Using Infovis Boost ----------- DONE ------------ Appending new list -- Configuring SEM CLI module: ExampleCLI -- 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: 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: GenerateParenchymaPhenotypes -- Configuring SEM CLI module: ComputeDistanceMap -- 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 -- Configuring SEM CLI module: GraphCutsOptimization -- Configuring SEM CLI module: SegmentLungAirways -- Configuring SEM CLI module: ComputeStrainFromDeformationField -- Configuring SEM CLI module: ComputeAirwayWallFromImages -- Configuring SEM CLI module: FitBSplineToDeformationField -- Configuring SEM CLI module: CreateVolumeFromSlices -- Configuring SEM CLI module: ReadParticlesWriteConnectedParticles -- Configuring SEM CLI module: LabelAirwayParticlesByGeneration -- Configuring SEM CLI module: GenerateStatisticsForAirwayGenerationLabeling -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/__init__.py Wrapping GraphCutsOptimization with Python in /Users/acil-user/Projects/CIP-build/CIPPython-install/bin/python2.7 and flags -fPIC -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/anatomic_structures_manager.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/chest_conventions.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/paths.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/example_pythonCLI.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/geometry_topology_data.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/tests -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/tests/baseline -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/tests/test_geometry_topology_data.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/tests/test_example.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/chest_conventions_static.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/cipChestConventionsXmlParser.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/hist_dist_scikit_knn.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/local_histogram_emphysema.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/kde_.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/hist_dist_knn.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/distance_feature_extractor.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/lattice_classifier.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/get_ct_patch_from_center.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/distance_feature_extractor_from_ROI.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_hist_dist_knn.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_kde_histogram_feature_extractor_from_ROI.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_distance_feature_extractor_from_ROI.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_distance_histogram_extractors.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_apply_reader_labels.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_hist_dist_scikit_knn.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_classify_image_subtypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_get_ct_patch_from_center.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_distance_feature_extractor.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_kde_histogram_feature_extractor.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_kde_histogram_feature_extractor_from_xmlpoints.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_distance_feature_extractor_from_xml_points.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/kde_histogram_feature_extractor_from_ROI.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/localHistogramModel.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/kde_histogram_feature_extractor_from_xmlpoints.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/localHistogramMapper.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/kde_bandwidth.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/distance_feature_extractor_from_xmlpoints.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/kde_histogram_feature_extractor.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/classify_image_subtypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/classification/apply_reader_labels.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/input_output -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/input_output/tests -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/input_output/tests/test_image_reader_writer.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/input_output/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/input_output/image_reader_writer.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn/lung_segmenter_dcnn.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn/metrics.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn/tests -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn/tests/test_lung_segmentation_dcnn.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn/tests/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn/tests/baseline -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn/utils.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn/deep_learning_models_manager.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/cip_convention_manager.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/cip_node.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflow_dispatcher.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflows -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/vessel_particles_workflow.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/parenchyma_phenotype_workflow.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/lung_lobe_segmentation_workflow.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/tests -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/tests/test_vessel_particles_mask_workflow.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/cip_workflow.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/parenchyma_phenotype_workflow_autocase.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/example.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/vessel_particles_mask_workflow.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/generate_classes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/setup.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/cip.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/cip_python_interfaces.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/base.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/unu -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/unu/unu.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/unu/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/particles -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/particles/fissure_particles.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/particles/vessel_particles.py -- 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/Users/acil-user/Projects/CIP-build/CIP-build/cip_python/particles/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/particles/airway_particles.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/particles/multires_vessel_particles.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/particles/particle_metrics.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/particles/multires_airway_particles.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/particles/transfer_particles_region_type_values.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/nodule_phenotypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/parenchyma_phenotypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/biomechanical_phenotypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/phenotypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests/test_body_composition_phenotypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests/test_emphysema_severity.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests/test_vasculature_phenotypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests/test_parenchyma_phenotypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/body_composition_phenotypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/vasculature_phenotypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/gas_trapping.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/vasculature.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/diaphragm_thickness.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/airway_phenotypes.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/bronchiectasis.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/phenotypes/emphysema_severity.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/qualitycontrol -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/lung_segmentation_qc.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/vasculature_qc.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/tests -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/body_composition_qc.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/xml_points_qc.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/qc_base.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/ct_registration_qc.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/ct_qc.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/registration -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/registration/tests -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/registration/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/registration/cip_registration.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/rind_core_partition.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/slic_segmenter.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/nodule_segmenter.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/comput_image_similarity.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/tests -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/tests/test_grid_segmenter.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/tests/test_rind_vs_core_partition.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/anterior_vs_posterior_partition.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/register_tobase_get_closest.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/lung_splitter.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/pectoralis_segmentor.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/construct_chest_atlas.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/chest_partition_manager.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/construct_pec_atlas_from_filenames.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/segment_chest_with_atlas.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/gaussian_rician.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/chest_partition.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/segmentation/grid_segmenter.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/anonymize_dicom.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/compute_dice_coefficient.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/biomechanical_metrics.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/interpolate_volume.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/feature_maps.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/apply_label_from_classification.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/merge_particle_files.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/read_geometrytopologypoint_write_dataframe.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/weighted_feature_map_densities.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/polynomial_feature_map.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/generate_CLIs_description.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/locate_cardiac_gating_artifacts.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/tests -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/tests/test_region_type_parser.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/tests/test_weighted_feature_map_densities.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/tests/test_anonymize_dicom.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/tests/test_remap_lm.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/tests/test_read_geometrytopologypoint_write_dataframe.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/tests/test_compute_dice_coefficient.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/tests/test_read_geometrytopologypoint_write_polydata.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/tests/test_feature_maps.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/gco_python -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/gco_python/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/gco_python/setup.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/extract_2D_patches_from_particles.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/quick_airway_vessel_segmentation.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/get_closest_cases.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/query_dicom_directories.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/read_geometrytopologypoint_write_polydata.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/cluster_particles.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/get_mi_similarity_vec.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/geometry_topology_data_extract_slices.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/read_nrrds_write_vtk.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/convert_labelmap_to_int.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/WeightedFeatureMapDensity.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/generate_overlay_image.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/region_type_parser.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/utils/remap_lm.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/visualization -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/visualization/display_particles_volume.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/visualization/tests -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/visualization/__init__.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/visualization/display_particles.py -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/tests/baseline -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/common/tests/baseline/crop_ct_2slices.nrrd -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn/tests/baseline -- Up-to-date: /Users/acil-user/Projects/CIP-build/CIP-build/cip_python/dcnn/tests/baseline/crop_ct_2slices_dcnnLungSegmentationLabelmap.nrrd -- Configuring done -- Generating done -- Build files have been written to: /Users/acil-user/Projects/CIP-build/CIP-build
[ 20%] Built target vtkFiltersGeometryObjects [ 21%] Built target vtkCommonComputationalGeometryObjects [ 24%] Built target vtkFiltersGeneralObjects [ 25%] Built target vtkFiltersSourcesObjects [ 25%] Built target vtkCommonColorObjects [ 29%] Built target vtkRenderingCoreObjects [ 30%] Built target vtkRenderingFreeTypeObjects [ 31%] Built target vtkRenderingContext2DObjects Scanning dependencies of target H5make_libsettings [ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/H5make_libsettings.dir/H5make_libsettings.c.o
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5make_libsettings.c:44:10: fatal error: 'stdio.h' file not found
#include <stdio.h>
^
1 error generated.
[ 31%] Linking C executable ../../../../bin/vtkH5make_libsettings
clang: error: no such file or directory: 'CMakeFiles/H5make_libsettings.dir/H5make_libsettings.c.o'
[ 31%] Built target H5make_libsettings Scanning dependencies of target H5detect [ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/H5detect.dir/H5detect.c.o In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5detect.c:57: In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Linking C executable ../../../../bin/vtkH5detect
clang: error: no such file or directory: 'CMakeFiles/H5detect.dir/H5detect.c.o'
[ 31%] Built target H5detect Scanning dependencies of target vtkhdf5 [ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5.c.o In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5.c:24: In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5checksum.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5checksum.c:35:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5dbg.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5dbg.c:34:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5system.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5system.c:35:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5timer.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5timer.c:35:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5trace.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5trace.c:36:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5A.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5A.c:30:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Abtree2.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Abtree2.c:37:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Adense.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Adense.c:39:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Adeprec.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Adeprec.c:44:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Aint.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Aint.c:38:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Atest.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Atest.c:38:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5AC.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5AC.c:41:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 31%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5B.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5B.c:106:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5B2.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5B2.c:41:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5B2cache.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5B2cache.c:37:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5B2dbg.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5B2dbg.c:36:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5B2hdr.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5B2hdr.c:36:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5B2int.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5B2int.c:36:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5B2stat.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5B2stat.c:33:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5B2test.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5B2test.c:35:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Bcache.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Bcache.c:37:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Bdbg.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Bdbg.c:37:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5D.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5D.c:29:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dcompact.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dcompact.c:34:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dbtree.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dbtree.c:35:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dchunk.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dchunk.c:53:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dcontig.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dcontig.c:36:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Ddbg.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Ddbg.c:29:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Ddeprec.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Ddeprec.c:43:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Defl.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Defl.c:31:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dfill.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dfill.c:36:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dint.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dint.c:29:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dio.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dio.c:26:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dlayout.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dlayout.c:26:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dmpio.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dmpio.c:36:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Doh.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Doh.c:27:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dscatgath.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dscatgath.c:26:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dselect.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dselect.c:32:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Dtest.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Dtest.c:33:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5E.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5E.c:57:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Edeprec.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Edeprec.c:43:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Eint.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Eint.c:40:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5F.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5F.c:29:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Faccum.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Faccum.c:39:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Fcwfs.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Fcwfs.c:44:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
[ 32%] Building C object ThirdParty/hdf5/vtkhdf5/src/CMakeFiles/vtkhdf5.dir/H5Fdbg.c.o
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5Fdbg.c:26:
In file included from /.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5private.h:37:
/.../CIP-build/VTKv8/ThirdParty/hdf5/vtkhdf5/src/H5public.h:42:10: fatal error: 'sys/types.h' file not found
#include <sys/types.h>
^
1 error generated.
The maximum number of reported warnings or errors has been reached!!!
View Errors Summary[ 10%] Performing update step for 'CIPPython' Current branch master is up to date. [ 12%] No configure step for 'CIPPython' [ 13%] No build step for 'CIPPython' [ 14%] Performing install step for 'CIPPython' /.../CIP-build/CIPPython-install already exists. Miniconda will not be installed [ 15%] Performing installtensorflow step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
## Package Plan ##Requirement already satisfied: scipy>=0.14 in ./CIPPython-install/lib/python2.7/site-packages (from keras==2.0.8) Requirement already satisfied: numpy>=1.9.1 in ./CIPPython-install/lib/python2.7/site-packages (from keras==2.0.8) Requirement already satisfied: pyyaml in ./CIPPython-install/lib/python2.7/site-packages (from keras==2.0.8) Requirement already satisfied: six>=1.9.0 in ./CIPPython-install/lib/python2.7/site-packages (from keras==2.0.8) You are using pip version 9.0.1, however version 18.1 is available. You should consider upgrading via the 'pip install --upgrade pip' command. [ 18%] Performing installnipype step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.[ 19%] Performing installnetworkx step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.[ 20%] Performing installscikit-image step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.You are using pip version 9.0.1, however version 18.1 is available. You should consider upgrading via the 'pip install --upgrade pip' command. [ 24%] Performing installnibabel step for 'CIPPython' Requirement already satisfied: nibabel in ./CIPPython-install/lib/python2.7/site-packages You are using pip version 9.0.1, however version 18.1 is available. You should consider upgrading via the 'pip install --upgrade pip' command. [ 25%] Performing installnumpy step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
## Package Plan ## certifi: 2018.10.15-py27_1000 conda-forge --> 2018.10.15-py27_0
openssl: 1.0.2p-h470a237_1 conda-forge --> 1.0.2p-h1de35cc_0
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
[ 26%] Performing installcython step for 'CIPPython'
Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.[ 27%] Performing installscipy step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.[ 28%] Performing installvtk step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.[ 30%] Performing installpandas step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.[ 31%] Performing installnose step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.[ 32%] Performing installsphinx step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.[ 33%] Performing installsimpleitk step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.[ 34%] Performing installxml step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.[ 36%] Performing installscikit-learn step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.11
Please update conda by running
$ conda update -n base conda
# All requested packages already installed.[100%] Linking CXX shared library ../../lib/libvtkTestingRendering-8.1.dylib [100%] Built target vtkTestingRendering [100%] Linking CXX shared library ../../lib/libvtkViewsInfovis-8.1.dylib [100%] Built target vtkViewsInfovis [ 55%] No install step for 'VTKv8' [ 56%] Completed 'VTKv8' [ 60%] Built target VTKv8 [ 61%] Performing update step for 'teem' [ 62%] Performing configure step for 'teem' loading initial cache file /.../CIP-build/teem-prefix/tmp/teem-cache-Release.cmake
CMake Warning (dev) at CMakeLists.txt:555 (install):
Policy CMP0062 is not set: Disallow install() of export() result. Run
"cmake --help-policy CMP0062" for policy details. Use the cmake_policy
command to set the policy and suppress this warning.
The file
/.../CIP-build/teem-build/TeemLibraryDepends.cmake
was generated by the export() command. It should not be installed with the
install() command. Use the install(EXPORT) mechanism instead. See thecmake-packages(7) manual for more. This warning is for project developers. Use -Wno-dev to suppress it. -- 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: teem This warning is for project developers. Use -Wno-dev to suppress it.
[100%] Built target MGHIO [100%] Built target MGHIO-all [ 74%] No install step for 'ITKv4' [ 75%] Completed 'ITKv4' [ 79%] Built target ITKv4 [ 80%] Performing update step for 'SlicerExecutionModel' [ 81%] Performing configure step for 'SlicerExecutionModel' loading initial cache file /.../CIP-build/SlicerExecutionModel-prefix/tmp/SlicerExecutionModel-cache-Release.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.
