Site Name: ubuntu
Build Name: CIP-Linux-3.13.0-53-generic-x86_64-incr-SL-ON (view notes)
Stamp: 20180702-0400-Nightly (related builds)
Time: 2018-07-02T17:27:28 EDT
Type: Nightly

OS Name: Linux
OS Platform: x86_64
OS Release: 3.13.0-53-generic
OS Version: #89-Ubuntu SMP Wed May 20 10:34:39 UTC 2015
CTest version: ctest-3.9.1

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Stage: Update (0 errors, 0 warnings)

Start Time: 2018-07-02T17:27:16 EDT
End Time: 2018-07-02T17:27:17 EDT
Update Command: "/usr/bin/git" "fetch"
Update Type: GIT
Number of Updates: 0

Configure (0 errors, 0 warnings)

Start Time: 2018-07-02T17:27:17 EDT
End Time: 2018-07-02T17:27:23 EDT
Configure Command: /home/jonieva/Downloads/cmake-3.9.1-Linux-x86_64/bin/cmake -DCMAKE_BUILD_TYPE:STRING=Release "-GUnix Makefiles" "/home/jonieva/Projects/CIP"
Configure Return Value: 0
Configure Output:
----------- 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: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/__init__.py
Wrapping GraphCutsOptimization with Python in /home/jonieva/Projects/CIP-build/CIPPython-install/bin/python2.7 and flags   -fPIC  -Wno-array-bounds -msse2 
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/paths.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/geometry_topology_data.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/cipChestConventionsXmlParser.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/chest_conventions.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/tests
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/tests/test_example.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/tests/test_geometry_topology_data.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/tests/baseline
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/deep_learning_models_manager.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/chest_conventions_static.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/example_pythonCLI.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/anatomic_structures_manager.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/kde_histogram_feature_extractor_from_ROI.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/distance_feature_extractor_from_xmlpoints.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/lattice_classifier.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/hist_dist_scikit_knn.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/kde_.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/hist_dist_knn.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/kde_bandwidth.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/localHistogramMapper.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/kde_histogram_feature_extractor_from_xmlpoints.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/apply_reader_labels.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/get_ct_patch_from_center.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/kde_histogram_feature_extractor.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/distance_feature_extractor.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/classify_image_subtypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_apply_reader_labels.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_get_ct_patch_from_center.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_distance_feature_extractor_from_ROI.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_hist_dist_scikit_knn.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_distance_feature_extractor_from_xml_points.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_distance_histogram_extractors.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_distance_feature_extractor.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_hist_dist_knn.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_kde_histogram_feature_extractor_from_xmlpoints.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_kde_histogram_feature_extractor.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_kde_histogram_feature_extractor_from_ROI.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/tests/test_classify_image_subtypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/distance_feature_extractor_from_ROI.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/local_histogram_emphysema.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/classification/localHistogramModel.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/input_output
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/input_output/image_reader_writer.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/input_output/tests
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/input_output/tests/test_image_reader_writer.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/input_output/tests/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/input_output/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/input_output/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/dcnn
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/dcnn/lung_segmenter_dcnn.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/dcnn/tests
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/dcnn/tests/test_lung_segmentation_dcnn.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/dcnn/tests/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/dcnn/tests/baseline
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/dcnn/metrics.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/dcnn/utils.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/dcnn/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/cip_python_interfaces.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/cip.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/setup.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/generate_classes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/base.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/cip/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/unu
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/unu/unu.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/unu/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/interfaces/unu/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/cip_node.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/cip_convention_manager.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflow_dispatcher.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/vessel_particles_mask_workflow.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/cip_workflow.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/example.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/vessel_particles_workflow.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/lung_lobe_segmentation_workflow.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/parenchyma_phenotype_workflow_autocase.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/tests
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/tests/test_vessel_particles_mask_workflow.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/tests/VesselParticlesMaskWorkflow
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/parenchyma_phenotype_workflow.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/workflows/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/nipype/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/feature_strength_map.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/fissure_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/multires_vessel_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/chest_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/particle_metrics.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/airway_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/transfer_particles_region_type_values.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/multires_airway_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/tests
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/tests/test_particle_metrics.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/tests/test_airway_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/tests/test_fissure_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/tests/test_vessel_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/tests/test_transfer_particles_region_type_values.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/tests/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/vessel_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/diaphragm_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/particles/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/nodule_phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/bronchiectasis.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/airway_phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/body_composition_phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/gas_trapping.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/biomechanical_phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/laa_phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests/test_vasculature_phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests/test_body_composition_phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests/test_parenchyma_phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests/test_emphysema_severity.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/tests/test_laa_phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/emphysema_severity.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/vasculature_phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/diaphragm_thickness.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/vasculature.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/parenchyma_phenotypes.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/phenotypes/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/qualitycontrol
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/qc_base.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/ct_registration_qc.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/ct_qc.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/lung_segmentation_qc.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/xml_points_qc.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/tests
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/vasculature_qc.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/qualitycontrol/body_composition_qc.py
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-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/registration/cip_registration.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/registration/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/registration/__init__.py
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-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/segmentation/segment_chest_with_atlas.py
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-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/segmentation/rind_vs_core_partition.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/segmentation/slic_segmenter.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/segmentation/chest_partition_manager.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/segmentation/tests
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-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/segmentation/tests/test_rind_vs_core_partition.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/segmentation/tests/__pycache__
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-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/segmentation/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils
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-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/read_geometrytopologypoint_write_dataframe.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/region_type_parser.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/WeightedFeatureMapDensity.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/biomechanical_metrics.py
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-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/apply_label_from_classification.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/feature_maps.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/read_geometrytopologypoint_write_polydata.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/weighted_feature_map_densities.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/read_nrrds_write_vtk.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/cluster_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/anonymize_dicom.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/merge_particle_files.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/polynomial_feature_map.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/get_closest_cases.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/query_dicom_directories.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/quick_airway_vessel_segmentation.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/locate_cardiac_gating_artifacts.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/tests
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-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/tests/test_read_geometrytopologypoint_write_dataframe.py
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-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/tests/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/tests/test_read_geometrytopologypoint_write_polydata.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/tests/test_anonymize_dicom.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/convert_labelmap_to_int.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/remap_lm.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/extract_2D_patches_from_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/generate_overlay_image.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/get_mi_similarity_vec.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/compute_dice_coefficient.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/generate_CLIs_description.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/utils/geometry_topology_data_extract_slices.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/visualization
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/visualization/display_particles.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/visualization/display_particles_volume.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/visualization/tests
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/visualization/__pycache__
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/visualization/__init__.py
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/tests/baseline
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/common/tests/baseline/crop_ct_2slices.nrrd
-- Up-to-date: /home/jonieva/Projects/CIP-build/CIP-build/cip_python/dcnn/tests/baseline
-- Up-to-date: /home/jonieva/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: /home/jonieva/Projects/CIP-build/CIP-build

View Configure Summary

Build (0 errors, 86 warnings)

Build command: /home/jonieva/Downloads/cmake-3.9.1-Linux-x86_64/bin/cmake --build . --config "Release" -- -i
Start Time: 2018-07-02T17:27:28 EDT
End Time: 2018-07-03T09:36:40 EDT

View Errors Summary

Build Warnings (86)

Build Log line 174


File: /home/jonieva/Projects/CIP-build/boost/coroutine/detail/config.hpp Line: 17
common.mkdir bin.v2/libs/coroutine
common.mkdir bin.v2/libs/coroutine/build
common.mkdir bin.v2/libs/coroutine/build/gcc-4.8
common.mkdir bin.v2/libs/coroutine/build/gcc-4.8/release
common.mkdir bin.v2/libs/coroutine/build/gcc-4.8/release/link-static
common.mkdir bin.v2/libs/coroutine/build/gcc-4.8/release/link-static/threading-multi
common.mkdir bin.v2/libs/coroutine/build/gcc-4.8/release/link-static/threading-multi/detail
gcc.compile.c++ bin.v2/libs/coroutine/build/gcc-4.8/release/link-static/threading-multi/detail/coroutine_context.o
In file included from ./boost/coroutine/detail/coroutine_context.hpp:16:0,
                 from libs/coroutine/src/detail/coroutine_context.cpp:7:
./boost/coroutine/detail/config.hpp:17:4: warning: #warning "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING." [-Wcpp]
 #  warning                  "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING."
    ^
gcc.compile.c++ bin.v2/libs/coroutine/build/gcc-4.8/release/link-static/threading-multi/exceptions.o
In file included from ./boost/coroutine/exceptions.hpp:19:0,
                 from libs/coroutine/src/exceptions.cpp:7:

Build Log line 180


File: /home/jonieva/Projects/CIP-build/boost/coroutine/detail/config.hpp Line: 17
./boost/coroutine/detail/config.hpp:17:4: warning: #warning "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING." [-Wcpp]
 #  warning                  "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING."
    ^
common.mkdir bin.v2/libs/coroutine/build/gcc-4.8/release/link-static/threading-multi/posix
gcc.compile.c++ bin.v2/libs/coroutine/build/gcc-4.8/release/link-static/threading-multi/posix/stack_traits.o
In file included from ./boost/coroutine/stack_traits.hpp:14:0,
                 from libs/coroutine/src/posix/stack_traits.cpp:7:

Build Log line 187


File: /home/jonieva/Projects/CIP-build/boost/coroutine/detail/config.hpp Line: 17
./boost/coroutine/detail/config.hpp:17:4: warning: #warning "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING." [-Wcpp]
 #  warning                  "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING."
    ^
gcc.archive bin.v2/libs/coroutine/build/gcc-4.8/release/link-static/threading-multi/libboost_coroutine.a
common.copy /.../CIP-build/Boost-install/lib/libboost_coroutine.a
common.mkdir bin.v2/libs/stacktrace/build/gcc-4.8/release
common.mkdir bin.v2/libs/stacktrace/build/gcc-4.8/release/link-static
common.mkdir bin.v2/libs/stacktrace/build/gcc-4.8/release/link-static/threading-multi
gcc.compile.c++ bin.v2/libs/stacktrace/build/gcc-4.8/release/link-static/threading-multi/noop.o
gcc.archive bin.v2/libs/stacktrace/build/gcc-4.8/release/link-static/threading-multi/libboost_stacktrace_noop.a
common.copy /.../CIP-build/Boost-install/lib/libboost_stacktrace_noop.a

Build Log line 224


File: /home/jonieva/Projects/CIP-build/boost/type_erasure/detail/adapt_to_vtable.hpp Line: 315
In file included from ./boost/preprocessor/iteration/detail/iter/forward1.hpp:47:0,
                 from ./boost/type_erasure/detail/adapt_to_vtable.hpp:268,
                 from ./boost/type_erasure/call.hpp:33,
                 from ./boost/type_erasure/constructible.hpp:22,
                 from ./boost/type_erasure/builtin.hpp:17,
                 from ./boost/type_erasure/detail/normalize.hpp:34,
                 from ./boost/type_erasure/detail/check_map.hpp:24,
                 from ./boost/type_erasure/register_binding.hpp:14,
                 from libs/type_erasure/src/dynamic_binding.cpp:13:
./boost/type_erasure/detail/adapt_to_vtable.hpp: In static member function ‘static R boost::type_erasure::detail::vtable_adapter<PrimitiveConcept, R()>::value()’:
./boost/type_erasure/detail/adapt_to_vtable.hpp:315:11: warning: typedef ‘traits’ locally defined but not used [-Wunused-local-typedefs]
         > traits;
           ^
./boost/type_erasure/detail/adapt_to_vtable.hpp: In static member function ‘static boost::type_erasure::detail::storage boost::type_erasure::detail::vtable_adapter<PrimitiveConcept, boost::type_erasure::detail::storage()>::value()’:

Build Log line 228


File: /home/jonieva/Projects/CIP-build/boost/type_erasure/detail/adapt_to_vtable.hpp Line: 332
./boost/type_erasure/detail/adapt_to_vtable.hpp:332:11: warning: typedef ‘traits’ locally defined but not used [-Wunused-local-typedefs]
         > traits;
           ^
gcc.archive bin.v2/libs/type_erasure/build/gcc-4.8/release/link-static/threading-multi/libboost_type_erasure.a
common.copy /.../CIP-build/Boost-install/lib/libboost_type_erasure.a
common.mkdir bin.v2/libs/container/build/gcc-4.8/release/threading-multi
gcc.compile.c bin.v2/libs/container/build/gcc-4.8/release/threading-multi/alloc_lib.o
gcc.compile.c++ bin.v2/libs/container/build/gcc-4.8/release/threading-multi/dlmalloc.o
gcc.compile.c++ bin.v2/libs/container/build/gcc-4.8/release/threading-multi/global_resource.o
gcc.compile.c++ bin.v2/libs/container/build/gcc-4.8/release/threading-multi/monotonic_buffer_resource.o
gcc.compile.c++ bin.v2/libs/container/build/gcc-4.8/release/threading-multi/pool_resource.o

Build Log line 285


File: /home/jonieva/Projects/CIP-build/boost/coroutine/detail/config.hpp Line: 17
common.mkdir bin.v2/libs/context/build/gcc-4.8/release/threading-multi/posix
gcc.compile.c++ bin.v2/libs/context/build/gcc-4.8/release/threading-multi/posix/stack_traits.o
gcc.link.dll bin.v2/libs/context/build/gcc-4.8/release/threading-multi/libboost_context.so.1.65.1
common.copy /.../CIP-build/Boost-install/lib/libboost_context.so.1.65.1
ln-UNIX /.../CIP-build/Boost-install/lib/libboost_context.so
common.mkdir bin.v2/libs/coroutine/build/gcc-4.8/release/threading-multi
common.mkdir bin.v2/libs/coroutine/build/gcc-4.8/release/threading-multi/detail
gcc.compile.c++ bin.v2/libs/coroutine/build/gcc-4.8/release/threading-multi/detail/coroutine_context.o
In file included from ./boost/coroutine/detail/coroutine_context.hpp:16:0,
                 from libs/coroutine/src/detail/coroutine_context.cpp:7:
./boost/coroutine/detail/config.hpp:17:4: warning: #warning "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING." [-Wcpp]
 #  warning                  "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING."
    ^
gcc.compile.c++ bin.v2/libs/coroutine/build/gcc-4.8/release/threading-multi/exceptions.o
In file included from ./boost/coroutine/exceptions.hpp:19:0,
                 from libs/coroutine/src/exceptions.cpp:7:

Build Log line 291


File: /home/jonieva/Projects/CIP-build/boost/coroutine/detail/config.hpp Line: 17
./boost/coroutine/detail/config.hpp:17:4: warning: #warning "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING." [-Wcpp]
 #  warning                  "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING."
    ^
common.mkdir bin.v2/libs/coroutine/build/gcc-4.8/release/threading-multi/posix
gcc.compile.c++ bin.v2/libs/coroutine/build/gcc-4.8/release/threading-multi/posix/stack_traits.o
In file included from ./boost/coroutine/stack_traits.hpp:14:0,
                 from libs/coroutine/src/posix/stack_traits.cpp:7:

Build Log line 298


File: /home/jonieva/Projects/CIP-build/boost/coroutine/detail/config.hpp Line: 17
./boost/coroutine/detail/config.hpp:17:4: warning: #warning "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING." [-Wcpp]
 #  warning                  "Boost.Coroutine is now deprecated. Please switch to Boost.Coroutine2. To disable this warning message, define BOOST_COROUTINES_NO_DEPRECATION_WARNING."
    ^
gcc.link.dll bin.v2/libs/coroutine/build/gcc-4.8/release/threading-multi/libboost_coroutine.so.1.65.1
common.copy /.../CIP-build/Boost-install/lib/libboost_coroutine.so.1.65.1
ln-UNIX /.../CIP-build/Boost-install/lib/libboost_coroutine.so
common.mkdir bin.v2/libs/stacktrace/build/gcc-4.8/release/threading-multi
gcc.compile.c++ bin.v2/libs/stacktrace/build/gcc-4.8/release/threading-multi/noop.o
gcc.link.dll bin.v2/libs/stacktrace/build/gcc-4.8/release/threading-multi/libboost_stacktrace_noop.so.1.65.1
common.copy /.../CIP-build/Boost-install/lib/libboost_stacktrace_noop.so.1.65.1
ln-UNIX /.../CIP-build/Boost-install/lib/libboost_stacktrace_noop.so

Build Log line 333


File: /home/jonieva/Projects/CIP-build/boost/type_erasure/detail/adapt_to_vtable.hpp Line: 315
In file included from ./boost/preprocessor/iteration/detail/iter/forward1.hpp:47:0,
                 from ./boost/type_erasure/detail/adapt_to_vtable.hpp:268,
                 from ./boost/type_erasure/call.hpp:33,
                 from ./boost/type_erasure/constructible.hpp:22,
                 from ./boost/type_erasure/builtin.hpp:17,
                 from ./boost/type_erasure/detail/normalize.hpp:34,
                 from ./boost/type_erasure/detail/check_map.hpp:24,
                 from ./boost/type_erasure/register_binding.hpp:14,
                 from libs/type_erasure/src/dynamic_binding.cpp:13:
./boost/type_erasure/detail/adapt_to_vtable.hpp: In static member function ‘static R boost::type_erasure::detail::vtable_adapter<PrimitiveConcept, R()>::value()’:
./boost/type_erasure/detail/adapt_to_vtable.hpp:315:11: warning: typedef ‘traits’ locally defined but not used [-Wunused-local-typedefs]
         > traits;
           ^
./boost/type_erasure/detail/adapt_to_vtable.hpp: In static member function ‘static boost::type_erasure::detail::storage boost::type_erasure::detail::vtable_adapter<PrimitiveConcept, boost::type_erasure::detail::storage()>::value()’:

Build Log line 337


File: /home/jonieva/Projects/CIP-build/boost/type_erasure/detail/adapt_to_vtable.hpp Line: 332
./boost/type_erasure/detail/adapt_to_vtable.hpp:332:11: warning: typedef ‘traits’ locally defined but not used [-Wunused-local-typedefs]
         > traits;
           ^
gcc.link.dll bin.v2/libs/type_erasure/build/gcc-4.8/release/threading-multi/libboost_type_erasure.so.1.65.1
common.copy /.../CIP-build/Boost-install/lib/libboost_type_erasure.so.1.65.1
ln-UNIX /.../CIP-build/Boost-install/lib/libboost_type_erasure.so
common.mkdir bin.v2/libs/system/build/gcc-4.8/release/link-static
common.mkdir bin.v2/libs/system/build/gcc-4.8/release/link-static/threading-multi
gcc.compile.c++ bin.v2/libs/system/build/gcc-4.8/release/link-static/threading-multi/error_code.o
gcc.archive bin.v2/libs/system/build/gcc-4.8/release/link-static/threading-multi/libboost_system.a
common.copy /.../CIP-build/Boost-install/lib/libboost_system.a

Build Log line 363


File: /home/jonieva/Projects/CIP-build/boost/timer/timer.hpp Line: 44
gcc.archive bin.v2/libs/chrono/build/gcc-4.8/release/link-static/threading-multi/libboost_chrono.a
common.copy /.../CIP-build/Boost-install/lib/libboost_chrono.a
common.mkdir bin.v2/libs/timer
common.mkdir bin.v2/libs/timer/build
common.mkdir bin.v2/libs/timer/build/gcc-4.8
common.mkdir bin.v2/libs/timer/build/gcc-4.8/release
common.mkdir bin.v2/libs/timer/build/gcc-4.8/release/link-static
common.mkdir bin.v2/libs/timer/build/gcc-4.8/release/link-static/threading-multi
gcc.compile.c++ bin.v2/libs/timer/build/gcc-4.8/release/link-static/threading-multi/auto_timers_construction.o
In file included from libs/timer/src/auto_timers_construction.cpp:23:0:
./boost/timer/timer.hpp:44:43: warning: use of C++0x long long integer constant [-Wlong-long]
     void clear() { wall = user = system = 0LL; }
                                           ^
gcc.compile.c++ bin.v2/libs/timer/build/gcc-4.8/release/link-static/threading-multi/cpu_timer.o
In file included from libs/timer/src/cpu_timer.cpp:16:0:

Build Log line 368


File: /home/jonieva/Projects/CIP-build/boost/timer/timer.hpp Line: 44
./boost/timer/timer.hpp:44:43: warning: use of C++0x long long integer constant [-Wlong-long]
     void clear() { wall = user = system = 0LL; }
                                           ^

Build Log line 371


File: /home/jonieva/Projects/CIP-build/libs/timer/src/cpu_timer.cpp Line: 108
libs/timer/src/cpu_timer.cpp:108:23: warning: use of C++0x long long integer constant [-Wlong-long]
         tick_factor = 1000000000LL / tick_factor;  // compute factor
                       ^
gcc.archive bin.v2/libs/timer/build/gcc-4.8/release/link-static/threading-multi/libboost_timer.a
common.copy /.../CIP-build/Boost-install/lib/libboost_timer.a
common.mkdir bin.v2/libs/test
common.mkdir bin.v2/libs/test/build
common.mkdir bin.v2/libs/test/build/gcc-4.8
common.mkdir bin.v2/libs/test/build/gcc-4.8/release
common.mkdir bin.v2/libs/test/build/gcc-4.8/release/link-static
common.mkdir bin.v2/libs/test/build/gcc-4.8/release/link-static/threading-multi
[ 49%] Performing update step for 'CIPPython'
Current branch master is up to date.
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Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.5

Please update conda by running

    $ conda update -n base conda


certifi 2018.4.16:            |   0% certifi 2018.4.16: 8          |   8% certifi 2018.4.16: ########## | 100% 

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==> WARNING: A newer version of conda exists. <==
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  latest version: 4.5.5

Please update conda by running

    $ conda update -n base conda



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==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.5

Please update conda by running

    $ conda update -n base conda



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==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.5

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 10.0.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
[ 62%] 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 10.0.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
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==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.4

Please update conda by running

    $ conda update -n base conda


certifi 2018.4.16:            |   0% certifi 2018.4.16: ########## | 100% 
numpy-base 1.14.5:            |   0% numpy-base 1.14.5: #######5   |  75% numpy-base 1.14.5: ########7  |  87% numpy-base 1.14.5: #########3 |  93% numpy-base 1.14.5: #########8 |  99% numpy-base 1.14.5: ########## | 100% 

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==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.4

Please update conda by running

    $ conda update -n base conda



# All requested packages already installed.
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Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.4

Please update conda by running

    $ conda update -n base conda



# All requested packages already installed.
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==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.4

Please update conda by running

    $ conda update -n base conda



# All requested packages already installed.
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==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.4

Please update conda by running

    $ conda update -n base conda



# All requested packages already installed.
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Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.4

Please update conda by running

    $ conda update -n base conda



# All requested packages already installed.
[ 71%] Performing installsphinx step for 'CIPPython'
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==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.4

Please update conda by running

    $ conda update -n base conda



# All requested packages already installed.
[ 72%] Performing installsimpleitk step for 'CIPPython'
Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.4

Please update conda by running

    $ conda update -n base conda



# All requested packages already installed.
[ 73%] Performing installxml step for 'CIPPython'
Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.4

Please update conda by running

    $ conda update -n base conda



# All requested packages already installed.
[ 74%] Performing installscikit-learn step for 'CIPPython'
Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.4.10
  latest version: 4.5.4

Please update conda by running

    $ conda update -n base conda



# All requested packages already installed.
[ 75%] Completed 'CIPPython'
[ 79%] Built target CIPPython
[ 80%] Creating directories for 'teem'
[ 81%] Performing download step (git clone) for 'teem'
-- Avoiding repeated git clone, stamp file is up to date: '/.../CIP-build/teem-prefix/src/teem-stamp/teem-gitclone-lastrun.txt'
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[ 84%] Performing update step for 'teem'
[ 85%] 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 the

Build Log line 3109


File: Common/cipGeometryTopologyData.cxx Line: 104
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/.../CIP/Common/cipGeometryTopologyData.cxx: In member function ‘cip::GeometryTopologyData::BOUNDINGBOX* cip::GeometryTopologyData::InsertBoundingBox(unsigned char, unsigned char, unsigned char, cip::GeometryTopologyData::StartType, cip::GeometryTopologyData::SizeType, std::string)’:
/.../CIP/Common/cipGeometryTopologyData.cxx:104:15: warning: address of local variable ‘bb’ returned [-Wreturn-local-addr]
   BOUNDINGBOX bb;
               ^
/.../CIP/Common/cipGeometryTopologyData.cxx: In member function ‘cip::GeometryTopologyData::BOUNDINGBOX* cip::GeometryTopologyData::InsertBoundingBox(int, unsigned char, unsigned char, unsigned char, cip::GeometryTopologyData::StartType, cip::GeometryTopologyData::SizeType, std::string, std::string, std::string, std::string)’:

Build Log line 3113


File: Common/cipGeometryTopologyData.cxx Line: 157
/.../CIP/Common/cipGeometryTopologyData.cxx:157:15: warning: address of local variable ‘bb’ returned [-Wreturn-local-addr]
   BOUNDINGBOX bb;
               ^
/.../CIP/Common/cipGeometryTopologyData.cxx: In member function ‘cip::GeometryTopologyData::POINT* cip::GeometryTopologyData::InsertPoint(unsigned char, unsigned char, unsigned char, cip::GeometryTopologyData::CoordinateType, std::string)’:

Build Log line 3117


File: Common/cipGeometryTopologyData.cxx Line: 231
/.../CIP/Common/cipGeometryTopologyData.cxx:231:9: warning: address of local variable ‘p’ returned [-Wreturn-local-addr]
   POINT p;
         ^
/.../CIP/Common/cipGeometryTopologyData.cxx: In member function ‘cip::GeometryTopologyData::POINT* cip::GeometryTopologyData::InsertPoint(int, unsigned char, unsigned char, unsigned char, cip::GeometryTopologyData::CoordinateType, std::string, std::string, std::string, std::string)’:

Build Log line 3121


File: Common/cipGeometryTopologyData.cxx Line: 267
/.../CIP/Common/cipGeometryTopologyData.cxx:267:9: warning: address of local variable ‘p’ returned [-Wreturn-local-addr]
   POINT p;
         ^
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[  6%] Building CXX object Common/CMakeFiles/CIPCommon.dir/vtkImageTubularConfidence.cxx.o
[  9%] Building CXX object IO/CMakeFiles/CIPIO.dir/cipLobeSurfaceModelIO.cxx.o
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[ 10%] Built target CIPIO
running build_ext
skipping '/.../CIP/cip_python/utils/gco_python/gco_python.cpp' Cython extension (up-to-date)
building 'pygco' extension
/usr/bin/cc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/.../CIP/Utilities/GraphCutsOptimization -I/.../CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include -I/.../CIP-build/CIPPython-install/include/python2.7 -c /.../CIP/cip_python/utils/gco_python/gco_python.cpp -o build/temp.linux-x86_64-2.7/.../CIP/cip_python/utils/gco_python/gco_python.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++ [enabled by default]
In file included from /.../CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1818:0,
                 from /.../CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
                 from /.../CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
                 from /.../CIP/cip_python/utils/gco_python/gco_python.cpp:449:

Build Log line 3170


File: CIPPython-install/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h Line: 15
/.../CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
 #warning "Using deprecated NumPy API, disable it by " \
  ^
/usr/bin/cc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/.../CIP/Utilities/GraphCutsOptimization -I/.../CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include -I/.../CIP-build/CIPPython-install/include/python2.7 -c /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp -o build/temp.linux-x86_64-2.7/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++ [enabled by default]
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h: In constructor ‘GCoptimization::GCoptimization(GCoptimization::SiteID, GCoptimization::LabelID)’:

Build Log line 3177


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 311
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:311:10: warning: ‘GCoptimization::m_smoothcostFn’ will be initialized after [-Wreorder]
  void*   m_smoothcostFn;
          ^

Build Log line 3180


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 310
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:310:10: warning:   ‘void* GCoptimization::m_datacostFn’ [-Wreorder]
  void*   m_datacostFn;
          ^

Build Log line 3183


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 89
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning:   when initialized here [-Wreorder]
 GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) 
 ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:

Build Log line 3187


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 321
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:321:86: warning: ‘GCoptimization::m_setupDataCostsSwap’ will be initialized after [-Wreorder]
  void (GCoptimization::*m_setupDataCostsSwap)(SiteID,LabelID,LabelID,EnergyT*,SiteID*);
                                                                                      ^

Build Log line 3190


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 319
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:319:83: warning:   ‘void (GCoptimization::* GCoptimization::m_setupDataCostsExpansion)(GCoptimization::SiteID, GCoptimization::LabelID, GCoptimization::EnergyT*, GCoptimization::SiteID*)’ [-Wreorder]
  void (GCoptimization::*m_setupDataCostsExpansion)(SiteID,LabelID,EnergyT*,SiteID*);
                                                                                   ^

Build Log line 3193


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 89
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning:   when initialized here [-Wreorder]
 GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) 
 ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:

Build Log line 3197


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 322
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:322:88: warning: ‘GCoptimization::m_setupSmoothCostsSwap’ will be initialized after [-Wreorder]
  void (GCoptimization::*m_setupSmoothCostsSwap)(SiteID,LabelID,LabelID,EnergyT*,SiteID*);
                                                                                        ^

Build Log line 3200


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 320
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:320:85: warning:   ‘void (GCoptimization::* GCoptimization::m_setupSmoothCostsExpansion)(GCoptimization::SiteID, GCoptimization::LabelID, GCoptimization::EnergyT*, GCoptimization::SiteID*)’ [-Wreorder]
  void (GCoptimization::*m_setupSmoothCostsExpansion)(SiteID,LabelID,EnergyT*,SiteID*);
                                                                                     ^

Build Log line 3203


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 89
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning:   when initialized here [-Wreorder]
 GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) 
 ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:

Build Log line 3207


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 324
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:324:52: warning: ‘GCoptimization::m_updateLabelingDataCosts’ will be initialized after [-Wreorder]
  void (GCoptimization::*m_updateLabelingDataCosts)();
                                                    ^

Build Log line 3210


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 317
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:317:59: warning:   ‘GCoptimization::EnergyType (GCoptimization::* GCoptimization::m_giveSmoothEnergyInternal)()’ [-Wreorder]
  EnergyType (GCoptimization::*m_giveSmoothEnergyInternal)();
                                                           ^

Build Log line 3213


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 89
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning:   when initialized here [-Wreorder]
 GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) 
 ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:

Build Log line 3217


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 328
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:328:57: warning: ‘GCoptimization::m_solveSpecialCases’ will be initialized after [-Wreorder]
  bool (GCoptimization::*m_solveSpecialCases)(EnergyType&);
                                                         ^

Build Log line 3220


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 326
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:326:36: warning:   ‘void (* GCoptimization::m_datacostFnDelete)(void*)’ [-Wreorder]
  void (*m_datacostFnDelete)(void* f);
                                    ^

Build Log line 3223


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 89
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning:   when initialized here [-Wreorder]
 GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) 
 ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:

Build Log line 3227


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 327
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:327:38: warning: ‘GCoptimization::m_smoothcostFnDelete’ will be initialized after [-Wreorder]
  void (*m_smoothcostFnDelete)(void* f);
                                      ^

Build Log line 3230


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 298
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:298:11: warning:   ‘int GCoptimization::m_random_label_order’ [-Wreorder]
  int      m_random_label_order;
           ^

Build Log line 3233


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 89
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning:   when initialized here [-Wreorder]
 GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) 
 ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:

Build Log line 3237


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 308
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:308:18: warning: ‘GCoptimization::m_verbosity’ will be initialized after [-Wreorder]
  int             m_verbosity;
                  ^

Build Log line 3240


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 307
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:307:18: warning:   ‘bool GCoptimization::m_labelingInfoDirty’ [-Wreorder]
  bool            m_labelingInfoDirty;
                  ^

Build Log line 3243


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 89
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning:   when initialized here [-Wreorder]
 GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) 
 ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:

Build Log line 3247


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 307
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:307:18: warning: ‘GCoptimization::m_labelingInfoDirty’ will be initialized after [-Wreorder]
  bool            m_labelingInfoDirty;
                  ^

Build Log line 3250


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 293
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:293:11: warning:   ‘GCoptimization::SiteID* GCoptimization::m_lookupSiteVar’ [-Wreorder]
  SiteID  *m_lookupSiteVar; // holds index of variable corresponding to site participating in a move,
           ^

Build Log line 3253


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 89
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning:   when initialized here [-Wreorder]
 GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) 
 ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:

Build Log line 3257


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 293
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:293:11: warning: ‘GCoptimization::m_lookupSiteVar’ will be initialized after [-Wreorder]
  SiteID  *m_lookupSiteVar; // holds index of variable corresponding to site participating in a move,
           ^

Build Log line 3260


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 292
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:292:11: warning:   ‘GCoptimization::LabelID* GCoptimization::m_labeling’ [-Wreorder]
  LabelID *m_labeling;
           ^

Build Log line 3263


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 89
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning:   when initialized here [-Wreorder]
 GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) 
 ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:

Build Log line 3267


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 303
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:303:18: warning: ‘GCoptimization::m_activeLabelCounts’ will be initialized after [-Wreorder]
  SiteID*         m_activeLabelCounts;
                  ^

Build Log line 3270


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 296
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:296:11: warning:   ‘int GCoptimization::m_stepsThisCycle’ [-Wreorder]
  int      m_stepsThisCycle;
           ^

Build Log line 3273


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 89
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning:   when initialized here [-Wreorder]
 GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) 
 ^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp: In member function ‘void GCoptimization::updateLabelingInfo(bool, bool, bool)’:

Build Log line 3277


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 1177
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:1177:15: warning: unused variable ‘energy’ [-Wunused-variable]
    EnergyType energy = 0;
               ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h: In instantiation of ‘GCoptimization::GreedyIter<DataCostT>::GreedyIter(DataCostT&, GCoptimization::SiteID) [with DataCostT = GCoptimization::DataCostFnFromArray; GCoptimization::SiteID = int]’:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:591:45:   required from ‘GCoptimization::EnergyType GCoptimization::solveGreedy() [with DataCostT = GCoptimization::DataCostFnFromArray; GCoptimization::EnergyType = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:510:36:   required from ‘bool GCoptimization::solveSpecialCases(GCoptimization::EnergyType&) [with DataCostT = GCoptimization::DataCostFnFromArray; GCoptimization::EnergyType = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:121:26:   required from here

Build Log line 3285


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 520
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFnFromArray>::m_dc’ will be initialized after [-Wreorder]
   DataCostT& m_dc;
              ^

Build Log line 3288


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 519
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning:   ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFnFromArray>::m_site’ [-Wreorder]
   SiteID m_site;
          ^

Build Log line 3291


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 491
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:491:3: warning:   when initialized here [-Wreorder]
   GreedyIter(DataCostT& dc, SiteID numSites)
   ^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h: In instantiation of ‘GCoptimization::GreedyIter<DataCostT>::GreedyIter(DataCostT&, GCoptimization::SiteID) [with DataCostT = GCoptimization::DataCostFunctor; GCoptimization::SiteID = int]’:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:591:45:   required from ‘GCoptimization::EnergyType GCoptimization::solveGreedy() [with DataCostT = GCoptimization::DataCostFunctor; GCoptimization::EnergyType = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:510:36:   required from ‘bool GCoptimization::solveSpecialCases(GCoptimization::EnergyType&) [with DataCostT = GCoptimization::DataCostFunctor; GCoptimization::EnergyType = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:769:30:   required from here

Build Log line 3298


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 520
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFunctor>::m_dc’ will be initialized after [-Wreorder]
   DataCostT& m_dc;
              ^

Build Log line 3301


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 519
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning:   ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFunctor>::m_site’ [-Wreorder]
   SiteID m_site;
          ^

Build Log line 3304


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 491
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:491:3: warning:   when initialized here [-Wreorder]
   GreedyIter(DataCostT& dc, SiteID numSites)
   ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:111:0,
                 from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:
/.../CIP/Utilities/GraphCutsOptimization/maxflow.cpp: In instantiation of ‘void Graph<captype, tcaptype, flowtype>::process_sink_orphan(Graph<captype, tcaptype, flowtype>::node*) [with captype = int; tcaptype = int; flowtype = long long int]’:
/.../CIP/Utilities/GraphCutsOptimization/maxflow.cpp:584:43:   required from ‘flowtype Graph<captype, tcaptype, flowtype>::maxflow(bool, Block<int>*) [with captype = int; tcaptype = int; flowtype = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/energy.h:325:33:   required from ‘Energy<captype, tcaptype, flowtype>::TotalValue Energy<captype, tcaptype, flowtype>::minimize() [with captype = int; tcaptype = int; flowtype = long long int; Energy<captype, tcaptype, flowtype>::TotalValue = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:1241:37:   required from here

Build Log line 3313


File: Utilities/GraphCutsOptimization/maxflow.cpp Line: 443
/.../CIP/Utilities/GraphCutsOptimization/maxflow.cpp:443:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
  if (i->parent = a0_min)
  ^
/.../CIP/Utilities/GraphCutsOptimization/maxflow.cpp: In instantiation of ‘void Graph<captype, tcaptype, flowtype>::process_source_orphan(Graph<captype, tcaptype, flowtype>::node*) [with captype = int; tcaptype = int; flowtype = long long int]’:
/.../CIP/Utilities/GraphCutsOptimization/maxflow.cpp:585:45:   required from ‘flowtype Graph<captype, tcaptype, flowtype>::maxflow(bool, Block<int>*) [with captype = int; tcaptype = int; flowtype = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/energy.h:325:33:   required from ‘Energy<captype, tcaptype, flowtype>::TotalValue Energy<captype, tcaptype, flowtype>::minimize() [with captype = int; tcaptype = int; flowtype = long long int; Energy<captype, tcaptype, flowtype>::TotalValue = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:1241:37:   required from here

Build Log line 3320


File: Utilities/GraphCutsOptimization/maxflow.cpp Line: 366
/.../CIP/Utilities/GraphCutsOptimization/maxflow.cpp:366:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
  if (i->parent = a0_min)
  ^
In file included from /.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h: In instantiation of ‘GCoptimization::GreedyIter<DataCostT>::GreedyIter(DataCostT&, GCoptimization::SiteID) [with DataCostT = GCoptimization::DataCostFnFromFunction; GCoptimization::SiteID = int]’:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:591:45:   required from ‘GCoptimization::EnergyType GCoptimization::solveGreedy() [with DataCostT = GCoptimization::DataCostFnFromFunction; GCoptimization::EnergyType = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:510:36:   required from ‘bool GCoptimization::solveSpecialCases(GCoptimization::EnergyType&) [with DataCostT = GCoptimization::DataCostFnFromFunction; GCoptimization::EnergyType = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:235:30:   required from ‘void GCoptimization::specializeDataCostFunctor(UserFunctor) [with UserFunctor = GCoptimization::DataCostFnFromFunction]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:717:54:   required from here

Build Log line 3329


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 520
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunction>::m_dc’ will be initialized after [-Wreorder]
   DataCostT& m_dc;
              ^

Build Log line 3332


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 519
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning:   ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunction>::m_site’ [-Wreorder]
   SiteID m_site;
          ^

Build Log line 3335


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 491
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:491:3: warning:   when initialized here [-Wreorder]
   GreedyIter(DataCostT& dc, SiteID numSites)
   ^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h: In instantiation of ‘GCoptimization::GreedyIter<DataCostT>::GreedyIter(DataCostT&, GCoptimization::SiteID) [with DataCostT = GCoptimization::DataCostFnFromFunctionExtra; GCoptimization::SiteID = int]’:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:591:45:   required from ‘GCoptimization::EnergyType GCoptimization::solveGreedy() [with DataCostT = GCoptimization::DataCostFnFromFunctionExtra; GCoptimization::EnergyType = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:510:36:   required from ‘bool GCoptimization::solveSpecialCases(GCoptimization::EnergyType&) [with DataCostT = GCoptimization::DataCostFnFromFunctionExtra; GCoptimization::EnergyType = long long int]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:235:30:   required from ‘void GCoptimization::specializeDataCostFunctor(UserFunctor) [with UserFunctor = GCoptimization::DataCostFnFromFunctionExtra]’
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:725:70:   required from here

Build Log line 3343


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 520
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunctionExtra>::m_dc’ will be initialized after [-Wreorder]
   DataCostT& m_dc;
              ^

Build Log line 3346


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 519
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning:   ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunctionExtra>::m_site’ [-Wreorder]
   SiteID m_site;
          ^

Build Log line 3349


File: Utilities/GraphCutsOptimization/GCoptimization.h Line: 491
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:491:3: warning:   when initialized here [-Wreorder]
   GreedyIter(DataCostT& dc, SiteID numSites)
   ^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp: In member function ‘void GCoptimizationGridGraph::computeNeighborWeights(GCoptimization::EnergyTermType*, GCoptimization::EnergyTermType*)’:

Build Log line 3353


File: Utilities/GraphCutsOptimization/GCoptimization.cpp Line: 1514
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:1514:38: warning: ‘weight’ may be used uninitialized in this function [-Wmaybe-uninitialized]
    m_neighborsWeights[i*4+n] = weight;
                                      ^
/usr/bin/cc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/.../CIP/Utilities/GraphCutsOptimization -I/.../CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include -I/.../CIP-build/CIPPython-install/include/python2.7 -c /.../CIP/Utilities/GraphCutsOptimization/graph.cpp -o build/temp.linux-x86_64-2.7/.../CIP/Utilities/GraphCutsOptimization/graph.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++ [enabled by default]
/usr/bin/cc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/.../CIP/Utilities/GraphCutsOptimization -I/.../CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include -I/.../CIP-build/CIPPython-install/include/python2.7 -c /.../CIP/Utilities/GraphCutsOptimization/LinkedBlockList.cpp -o build/temp.linux-x86_64-2.7/.../CIP/Utilities/GraphCutsOptimization/LinkedBlockList.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++ [enabled by default]
/.../CIP/Utilities/GraphCutsOptimization/LinkedBlockList.cpp: In member function ‘void LinkedBlockList::addFront(ListType)’:

Build Log line 3361


File: Utilities/GraphCutsOptimization/LinkedBlockList.cpp Line: 18
/.../CIP/Utilities/GraphCutsOptimization/LinkedBlockList.cpp:18:35: warning: array subscript has type ‘char’ [-Wchar-subscripts]
  m_head ->m_item[m_head_block_size] = item;
                                   ^
/.../CIP/Utilities/GraphCutsOptimization/LinkedBlockList.cpp: In member function ‘void* LinkedBlockList::next()’:

Build Log line 3365


File: Utilities/GraphCutsOptimization/LinkedBlockList.cpp Line: 26
/.../CIP/Utilities/GraphCutsOptimization/LinkedBlockList.cpp:26:53: warning: array subscript has type ‘char’ [-Wchar-subscripts]
  ListType toReturn = m_cursor -> m_item[m_cursor_ind];
                                                     ^
/usr/bin/cc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/.../CIP/Utilities/GraphCutsOptimization -I/.../CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include -I/.../CIP-build/CIPPython-install/include/python2.7 -c /.../CIP/Utilities/GraphCutsOptimization/maxflow.cpp -o build/temp.linux-x86_64-2.7/.../CIP/Utilities/GraphCutsOptimization/maxflow.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++ [enabled by default]
/usr/bin/c++ -pthread -shared -B /.../CIP-build/CIPPython-install/compiler_compat -L/.../CIP-build/CIPPython-install/lib -Wl,-rpath=/.../CIP-build/CIPPython-install/lib -Wl,--no-as-needed -Wl,--sysroot=/ build/temp.linux-x86_64-2.7/.../CIP/cip_python/utils/gco_python/gco_python.o build/temp.linux-x86_64-2.7/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.o build/temp.linux-x86_64-2.7/.../CIP/Utilities/GraphCutsOptimization/graph.o build/temp.linux-x86_64-2.7/.../CIP/Utilities/GraphCutsOptimization/LinkedBlockList.o build/temp.linux-x86_64-2.7/.../CIP/Utilities/GraphCutsOptimization/maxflow.o -L/.../CIP/Utilities/GraphCutsOptimization -L/.../CIP-build/CIPPython-install/lib -lpython2.7 -o /.../CIP-build/CIP-build/cip_python/utils/pygco.so
[ 10%] Built target CIP_PYTHON
Scanning dependencies of target cipNelderMeadSimplexOptimizerTEST
[ 10%] Building CXX object Common/Testing/CMakeFiles/cipNelderMeadSimplexOptimizerTEST.dir/cipNelderMeadSimplexOptimizerTEST.cxx.o
[ 11%] Linking CXX executable cipNelderMeadSimplexOptimizerTEST
[ 11%] Built target cipNelderMeadSimplexOptimizerTEST
Scanning dependencies of target itkCIPExtractChestLabelMapImageFilterTEST
[ 11%] Building CXX object Common/Testing/CMakeFiles/itkCIPExtractChestLabelMapImageFilterTEST.dir/itkCIPExtractChestLabelMapImageFilterTEST.cxx.o
[ 11%] Linking CXX executable itkCIPExtractChestLabelMapImageFilterTEST
[ 11%] Built target itkCIPExtractChestLabelMapImageFilterTEST

View Warnings Summary

Test (93 passed, 3 failed, 0 not run)
View Tests Summary