Wednesday, August 12 2026 03:42:50
CIP
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Show Build Graphs-- The C compiler identification is GNU 4.8.2 -- The CXX compiler identification is GNU 4.8.2 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done ----------- ENTRY ------------ Configuring Superbuild... -- Found Git: /usr/bin/git (found version "1.8.3.1") -- PRIMARY_PROJECT_NAME_DEPENDENCIES: CIPPython;SlicerExecutionModel;VTKv8;ITKv4;Boost;teem -- SuperBuild - First pass Python Deep Learning modules (keras, tensorflow) will be installed -- SuperBuild - First pass - done -- SuperBuild - CIP => Requires CIPPython[INCLUDED], SlicerExecutionModel, VTKv8, ITKv4, Boost[INCLUDED], teem, -- SuperBuild - SlicerExecutionModel => Requires ITKv4, -- SuperBuild - ITKv4 => Requires zlib, VTKv8, -- SuperBuild - zlib[OK] -- SuperBuild - ZLIB_INCLUDE_DIR:/home/centos/Projects/CIP-build/CIP-build/zlib-install/include -- SuperBuild - ZLIB_LIBRARY:/home/centos/Projects/CIP-build/CIP-build/zlib-install/lib/libzlib.a -- SuperBuild - ZLIB_ROOT:/home/centos/Projects/CIP-build/CIP-build/zlib-install -- SuperBuild - VTKv8 => Requires zlib[INCLUDED], Boost[INCLUDED], -- SuperBuild - VTKv8[OK] -- SuperBuild - PNG_INCLUDE_DIR:/home/centos/Projects/CIP-build/CIP-build/VTKv8/Utilities/vtkpng -- SuperBuild - PNG_LIBRARY:/home/centos/Projects/CIP-build/CIP-build/VTKv8-build/bin/libvtkpng.so -- SuperBuild - LIBXML_INCLUDE_DIR:/home/centos/Projects/CIP-build/CIP-build/VTKv8/ThirdParty/libxml2/vtklibxml2 -- SuperBuild - ITKv4[OK] -- SuperBuild - SlicerExecutionModel[OK] -- SuperBuild - teem => Requires zlib[INCLUDED], VTKv8[INCLUDED], -- SuperBuild - teem[OK] -- SuperBuild - CIP[OK] ----------- DONE ------------ -- Configuring done -- Generating done -- Build files have been written to: /home/centos/Projects/CIP-build/CIP-build
[100%] Built target ITKVtkGlue [100%] Built target ITKVtkGlue-all [100%] Built target MGHIO [100%] Built target MGHIO-all [ 33%] No install step for 'ITKv4' [ 34%] Completed 'ITKv4' [ 38%] Built target ITKv4 [ 39%] Performing update step for 'teem' [ 40%] 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 theWARNING:
You currently have a PYTHONPATH environment variable set. This may cause
unexpected behavior when running the Python interpreter in Miniconda2.
For best results, please verify that your PYTHONPATH only points to
directories of packages that are compatible with the Python interpreter
in Miniconda2: /.../CIP-build/CIPPython-install
[ 67%] Performing installtensorflow step for 'CIPPython'
Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
markdown 2.6.11: | 0% markdown 2.6.11: ##1 | 21% markdown 2.6.11: ########## | 100%
libgfortran-ng 7.2.0: | 0% libgfortran-ng 7.2.0: #######5 | 75% libgfortran-ng 7.2.0: #########8 | 99% libgfortran-ng 7.2.0: ########## | 100% Using cached https://files.pythonhosted.org/packages/2a/f3/de9c1bd16311982711209edaa8c6caa962db30ebb6a8cc6f1dcd2d3ef616/scipy-1.1.0-cp27-cp27mu-manylinux1_x86_64.whl Requirement already satisfied: numpy>=1.9.1 in ./CIPPython-install/lib/python2.7/site-packages (from keras==2.0.8) Installing collected packages: pyyaml, scipy, keras Successfully installed keras-2.0.8 pyyaml-3.13 scipy-1.1.0 You are using pip version 9.0.1, however version 18.0 is available. You should consider upgrading via the 'pip install --upgrade pip' command. [ 69%] Performing installnipype step for 'CIPPython' Solving environment: ...working... done
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current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
## Package Plan ##Downloading and Extracting Packages Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [ 71%] Performing installnetworkx step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
networkx 1.11: | 0% networkx 1.11: | 1% networkx 1.11: #######5 | 75% networkx 1.11: ########5 | 86% networkx 1.11: #########3 | 93% networkx 1.11: ########## | 100%
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==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
## Package Plan ##You are using pip version 9.0.1, however version 18.0 is available. You should consider upgrading via the 'pip install --upgrade pip' command. [ 75%] 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 18.0 is available. You should consider upgrading via the 'pip install --upgrade pip' command. [ 77%] Performing installnumpy step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
openssl 1.0.2o: | 0% openssl 1.0.2o: #######5 | 75% openssl 1.0.2o: ######## | 80% openssl 1.0.2o: ########9 | 89% openssl 1.0.2o: #########8 | 98% openssl 1.0.2o: ########## | 100%
numpy-base 1.15.0: | 0% numpy-base 1.15.0: #######5 | 75% numpy-base 1.15.0: ########6 | 86% numpy-base 1.15.0: #########1 | 92% numpy-base 1.15.0: #########7 | 97% numpy-base 1.15.0: ########## | 100% Downloading and Extracting Packages Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [ 78%] Performing installcython step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
cython 0.28.5: | 0% cython 0.28.5: #######5 | 75% cython 0.28.5: #########2 | 93% cython 0.28.5: ########## | 100%
Downloading and Extracting Packages Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [ 79%] Performing installscipy step for 'CIPPython' Solving environment: ...working... done
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current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
scipy 1.1.0: | 0% scipy 1.1.0: | 0% scipy 1.1.0: 8 | 8% scipy 1.1.0: ###7 | 38% scipy 1.1.0: ######8 | 69% scipy 1.1.0: ########5 | 86% scipy 1.1.0: #########7 | 98% scipy 1.1.0: ########## | 100%
Downloading and Extracting Packages Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [ 80%] Performing installvtk step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
vtk 6.3.0: | 0% vtk 6.3.0: 7 | 7% vtk 6.3.0: ##6 | 27% vtk 6.3.0: ####7 | 47% vtk 6.3.0: ######7 | 68% vtk 6.3.0: ########2 | 82% vtk 6.3.0: #########2 | 92% vtk 6.3.0: #########9 | 100% vtk 6.3.0: ########## | 100%
Downloading and Extracting Packages Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [ 81%] Performing installpandas step for 'CIPPython' Solving environment: ...working... done
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latest version: 4.5.9
Please update conda by running
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pandas 0.23.4: | 0% pandas 0.23.4: ####9 | 50% pandas 0.23.4: #######5 | 75% pandas 0.23.4: ########5 | 86% pandas 0.23.4: #########5 | 95% pandas 0.23.4: ########## | 100%
Downloading and Extracting Packages Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [ 83%] Performing installnose step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
nose 1.3.7: | 0% nose 1.3.7: #######5 | 75% nose 1.3.7: ########## | 100%
Downloading and Extracting Packages Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [ 84%] Performing installsphinx step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
sphinx 1.7.6: | 0% sphinx 1.7.6: #######5 | 75% sphinx 1.7.6: ########7 | 87% sphinx 1.7.6: #########4 | 94% sphinx 1.7.6: ########## | 100%
snowballstemmer 1.2.1: | 0% snowballstemmer 1.2.1: ########## | 100% Downloading and Extracting Packages Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [ 85%] Performing installsimpleitk step for 'CIPPython' Solving environment: ...working... done
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current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
simpleitk 1.1.0: | 0% simpleitk 1.1.0: | 0% simpleitk 1.1.0: #4 | 14% simpleitk 1.1.0: ### | 30% simpleitk 1.1.0: ####8 | 49% simpleitk 1.1.0: ######7 | 68% simpleitk 1.1.0: ########1 | 81% simpleitk 1.1.0: #########9 | 99% simpleitk 1.1.0: ########## | 100%
Downloading and Extracting Packages Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [ 86%] Performing installxml step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
lxml 4.2.4: | 0% lxml 4.2.4: #######5 | 75% lxml 4.2.4: #########9 | 100% lxml 4.2.4: ########## | 100%
Downloading and Extracting Packages Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [ 87%] Performing installscikit-learn step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.9
Please update conda by running
$ conda update -n base conda
scikit-learn 0.19.1: | 0% scikit-learn 0.19.1: ######1 | 61% scikit-learn 0.19.1: #######9 | 80% scikit-learn 0.19.1: #########3 | 93% scikit-learn 0.19.1: ########## | 100%
[ 3%] Building CXX object Common/CMakeFiles/CIPCommon.dir/cipLeftLobesThinPlateSplineSurfaceModelToParticlesMetric.cxx.o [ 3%] Building CXX object Common/CMakeFiles/CIPCommon.dir/cipRightLobesThinPlateSplineSurfaceModelToParticlesMetric.cxx.o [ 4%] Building CXX object Common/CMakeFiles/CIPCommon.dir/cipThinPlateSplineSurfaceModelToParticlesMetric.cxx.o [ 4%] Building CXX object Common/CMakeFiles/CIPCommon.dir/cipNelderMeadSimplexOptimizer.cxx.o [ 4%] Building CXX object Common/CMakeFiles/CIPCommon.dir/cipParticleToThinPlateSplineSurfaceMetric.cxx.o [ 4%] Building CXX object Common/CMakeFiles/CIPCommon.dir/cipHelper.cxx.o [ 4%] Building CXX object Common/CMakeFiles/CIPCommon.dir/cipExceptionObject.cxx.o [ 4%] Building CXX object Common/CMakeFiles/CIPCommon.dir/cipChestConventions.cxx.o [ 5%] Building CXX object Common/CMakeFiles/CIPCommon.dir/cipGeometryTopologyData.cxx.o /.../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)’:
/.../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)’:
/.../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)’:
/.../CIP/Common/cipGeometryTopologyData.cxx:267:9: warning: address of local variable ‘p’ returned [-Wreturn-local-addr]
POINT p;
^
[ 5%] Building CXX object Common/CMakeFiles/CIPCommon.dir/vtkSimpleLungMask.cxx.o
[ 5%] Building CXX object Common/CMakeFiles/CIPCommon.dir/vtkImageStatistics.cxx.o
[ 5%] Building CXX object Common/CMakeFiles/CIPCommon.dir/vtkComputeAirwayWall.cxx.o
[ 5%] Building CXX object Common/CMakeFiles/CIPCommon.dir/vtkImageReformatAlongRay2.cxx.o
[ 5%] Building CXX object Common/CMakeFiles/CIPCommon.dir/vtkComputeAirwayWallPolyData.cxx.o
[ 5%] Building CXX object Common/CMakeFiles/CIPCommon.dir/vtkImageResliceWithPlane.cxx.o
[ 6%] Building CXX object Common/CMakeFiles/CIPCommon.dir/vtkComputeCentroid.cxx.o
[ 6%] Building CXX object Common/CMakeFiles/CIPCommon.dir/vtkImageTubularConfidence.cxx.ocreating build/temp.linux-x86_64-2.7/home creating build/temp.linux-x86_64-2.7/home/centos creating build/temp.linux-x86_64-2.7/home/centos/Projects creating build/temp.linux-x86_64-2.7/.../CIP creating build/temp.linux-x86_64-2.7/.../CIP/cip_python creating build/temp.linux-x86_64-2.7/.../CIP/cip_python/utils creating build/temp.linux-x86_64-2.7/.../CIP/cip_python/utils/gco_python creating build/temp.linux-x86_64-2.7/.../CIP/Utilities creating build/temp.linux-x86_64-2.7/.../CIP/Utilities/GraphCutsOptimization /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:1823:0,
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:
/.../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)’:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:311:10: warning: ‘GCoptimization::m_smoothcostFn’ will be initialized after [-Wreorder]
void* m_smoothcostFn;
^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:310:10: warning: ‘void* GCoptimization::m_datacostFn’ [-Wreorder]
void* m_datacostFn;
^
/.../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:
/.../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*);
^
/.../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*);
^
/.../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:
/.../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*);
^
/.../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*);
^
/.../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:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:324:52: warning: ‘GCoptimization::m_updateLabelingDataCosts’ will be initialized after [-Wreorder]
void (GCoptimization::*m_updateLabelingDataCosts)();
^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:317:59: warning: ‘GCoptimization::EnergyType (GCoptimization::* GCoptimization::m_giveSmoothEnergyInternal)()’ [-Wreorder]
EnergyType (GCoptimization::*m_giveSmoothEnergyInternal)();
^
/.../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:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:328:57: warning: ‘GCoptimization::m_solveSpecialCases’ will be initialized after [-Wreorder]
bool (GCoptimization::*m_solveSpecialCases)(EnergyType&);
^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:326:36: warning: ‘void (* GCoptimization::m_datacostFnDelete)(void*)’ [-Wreorder]
void (*m_datacostFnDelete)(void* f);
^
/.../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:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:327:38: warning: ‘GCoptimization::m_smoothcostFnDelete’ will be initialized after [-Wreorder]
void (*m_smoothcostFnDelete)(void* f);
^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:298:11: warning: ‘int GCoptimization::m_random_label_order’ [-Wreorder]
int m_random_label_order;
^
/.../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:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:308:18: warning: ‘GCoptimization::m_verbosity’ will be initialized after [-Wreorder]
int m_verbosity;
^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:307:18: warning: ‘bool GCoptimization::m_labelingInfoDirty’ [-Wreorder]
bool m_labelingInfoDirty;
^
/.../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:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:307:18: warning: ‘GCoptimization::m_labelingInfoDirty’ will be initialized after [-Wreorder]
bool m_labelingInfoDirty;
^
/.../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,
^
/.../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:
/.../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,
^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:292:11: warning: ‘GCoptimization::LabelID* GCoptimization::m_labeling’ [-Wreorder]
LabelID *m_labeling;
^
/.../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:
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:303:18: warning: ‘GCoptimization::m_activeLabelCounts’ will be initialized after [-Wreorder]
SiteID* m_activeLabelCounts;
^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:296:11: warning: ‘int GCoptimization::m_stepsThisCycle’ [-Wreorder]
int m_stepsThisCycle;
^
/.../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)’:
/.../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
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFnFromArray>::m_dc’ will be initialized after [-Wreorder]
DataCostT& m_dc;
^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning: ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFnFromArray>::m_site’ [-Wreorder]
SiteID m_site;
^
/.../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
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFunctor>::m_dc’ will be initialized after [-Wreorder]
DataCostT& m_dc;
^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning: ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFunctor>::m_site’ [-Wreorder]
SiteID m_site;
^
/.../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
/.../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
/.../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
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunction>::m_dc’ will be initialized after [-Wreorder]
DataCostT& m_dc;
^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning: ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunction>::m_site’ [-Wreorder]
SiteID m_site;
^
/.../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
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunctionExtra>::m_dc’ will be initialized after [-Wreorder]
DataCostT& m_dc;
^
/.../CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning: ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunctionExtra>::m_site’ [-Wreorder]
SiteID m_site;
^
/.../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*)’:
/.../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)’:
/.../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()’:
/.../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
