Wednesday, August 12 2026 10:48:07
CIP
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Show Build Graphs----------- ENTRY ------------ Configuring Superbuild... -- 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:/cip/CIP-build/zlib-install/include -- SuperBuild - ZLIB_LIBRARY:/cip/CIP-build/zlib-install/lib/libzlib.a -- SuperBuild - ZLIB_ROOT:/cip/CIP-build/zlib-install -- SuperBuild - VTKv8 => Requires zlib[INCLUDED], Boost[INCLUDED], -- SuperBuild - VTKv8[OK] -- SuperBuild - PNG_INCLUDE_DIR:/cip/CIP-build/VTKv8/Utilities/vtkpng -- SuperBuild - PNG_LIBRARY:/cip/CIP-build/VTKv8-build/bin/libvtkpng.so -- SuperBuild - LIBXML_INCLUDE_DIR:/cip/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: /cip/CIP-build
CMake Deprecation Warning at CMakeLists.txt:42 (cmake_policy): The OLD behavior for policy CMP0054 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD.
CMake Warning (dev) at CMakeLists.txt:142 (find_package):
Policy CMP0074 is not set: find_package uses <PackageName>_ROOT variables.
Run "cmake --help-policy CMP0074" for policy details. Use the cmake_policy
command to set the policy and suppress this warning.
CMake variable ZLIB_ROOT is set to:
/cip/CIP-build/zlib-install
For compatibility, CMake is ignoring the variable.
This warning is for project developers. Use -Wno-dev to suppress it.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/CIP-build/teem-build/TeemLibraryDepends.cmake
was generated by the export() command. It should not be installed with the
install() command. Use the install(EXPORT) mechanism instead. See theCMake Deprecation Warning at Modules/ThirdParty/VNL/src/vxl/CMakeLists.txt:28 (cmake_policy): The OLD behavior for policy CMP0033 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD.
CMake Warning (dev) at Modules/ThirdParty/VNL/src/vxl/config/cmake/Modules/FindZLIB.cmake:20 (find_package):
Policy CMP0074 is not set: find_package uses <PackageName>_ROOT variables.
Run "cmake --help-policy CMP0074" for policy details. Use the cmake_policy
command to set the policy and suppress this warning.
CMake variable ZLIB_ROOT is set to:
/cip/CIP-build/zlib-install
For compatibility, CMake is ignoring the variable.
Call Stack (most recent call first):Modules/ThirdParty/VNL/src/vxl/v3p/CMakeLists.txt:19 (include) This warning is for project developers. Use -Wno-dev to suppress it. -- Performing Test ITK_PRIVATE_DYNAMIC_CAST - Success
CMake Warning (dev) at Modules/ThirdParty/ZLIB/CMakeLists.txt:8 (find_package):
Policy CMP0074 is not set: find_package uses <PackageName>_ROOT variables.
Run "cmake --help-policy CMP0074" for policy details. Use the cmake_policy
command to set the policy and suppress this warning.
CMake variable ZLIB_ROOT is set to:
/cip/CIP-build/zlib-install
For compatibility, CMake is ignoring the variable.
This warning is for project developers. Use -Wno-dev to suppress it.-- Found ZLIB: /cip/CIP-build/zlib-install/lib/libzlib.a (found version "1.2.3")
CMake Warning (dev) at Modules/ThirdParty/GDCM/src/gdcm/CMakeLists.txt:401 (find_package):
Policy CMP0074 is not set: find_package uses <PackageName>_ROOT variables.
Run "cmake --help-policy CMP0074" for policy details. Use the cmake_policy
command to set the policy and suppress this warning.
CMake variable ZLIB_ROOT is set to:
/cip/CIP-build/zlib-install
For compatibility, CMake is ignoring the variable.
This warning is for project developers. Use -Wno-dev to suppress it.WARNING:
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/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: 4.5.10
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%
numpy-base 1.14.3: | 0% numpy-base 1.14.3: #######5 | 75% numpy-base 1.14.3: ########6 | 87% numpy-base 1.14.3: #########3 | 94% numpy-base 1.14.3: #########9 | 99% numpy-base 1.14.3: ########## | 100% Downloading https://files.pythonhosted.org/packages/2a/f3/de9c1bd16311982711209edaa8c6caa962db30ebb6a8cc6f1dcd2d3ef616/scipy-1.1.0-cp27-cp27mu-manylinux1_x86_64.whl (30.8MB) Requirement already satisfied: numpy>=1.9.1 in ./CIPPython-install/lib/python2.7/site-packages (from keras==2.0.8) Installing collected packages: scipy, keras Successfully installed keras-2.0.8 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
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.10
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: 4.5.10
Please update conda by running
$ conda update -n base conda
networkx 1.11: | 0% networkx 1.11: | 1% networkx 1.11: 6 | 6% networkx 1.11: #######5 | 75% networkx 1.11: ########6 | 87% networkx 1.11: #########5 | 95% networkx 1.11: ########## | 100%
prov 1.5.1: | 0% prov 1.5.1: 6 | 7% prov 1.5.1: #######5 | 75% prov 1.5.1: #########6 | 96% prov 1.5.1: ########## | 100% Downloading and Extracting Packages Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done [ 72%] Performing installscikit-image step for 'CIPPython' Solving environment: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.10
Please update conda by running
$ conda update -n base conda
## Package Plan ##[ 75%] Performing installnibabel step for 'CIPPython' The directory '/home/ubuntu/.cache/pip/http' or its parent directory is not owned by the current user and the cache has been disabled. Please check the permissions and owner of that directory. If executing pip with sudo, you may want sudo's -H flag. The directory '/home/ubuntu/.cache/pip' or its parent directory is not owned by the current user and caching wheels has been disabled. check the permissions and owner of that directory. If executing pip with sudo, you may want sudo's -H flag. 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: 4.5.10
Please update conda by running
$ conda update -n base conda
openssl 1.0.2p: | 0% openssl 1.0.2p: ## | 20% openssl 1.0.2p: #######5 | 75% openssl 1.0.2p: ########1 | 82% openssl 1.0.2p: ########8 | 89% openssl 1.0.2p: #########7 | 97% openssl 1.0.2p: ########## | 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: #########2 | 92% numpy-base 1.15.0: #########7 | 98% 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: 4.5.10
Please update conda by running
$ conda update -n base conda
cython 0.28.5: | 0% cython 0.28.5: | 0% cython 0.28.5: #######5 | 75% cython 0.28.5: #########2 | 93% cython 0.28.5: #########9 | 100% 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
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.10
Please update conda by running
$ conda update -n base conda
scipy 1.1.0: | 0% scipy 1.1.0: #9 | 20% scipy 1.1.0: ###7 | 37% scipy 1.1.0: #####5 | 56% scipy 1.1.0: #######4 | 74% scipy 1.1.0: ########8 | 88% scipy 1.1.0: #########8 | 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: 4.5.10
Please update conda by running
$ conda update -n base conda
vtk 6.3.0: | 0% vtk 6.3.0: | 0% vtk 6.3.0: #7 | 18% vtk 6.3.0: ###2 | 33% vtk 6.3.0: ####9 | 50% vtk 6.3.0: ####### | 71% vtk 6.3.0: ########4 | 84% vtk 6.3.0: #########4 | 94% 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
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.10
Please update conda by running
$ conda update -n base conda
pandas 0.23.4: | 0% pandas 0.23.4: 3 | 4% pandas 0.23.4: #####8 | 59% pandas 0.23.4: #######6 | 76% pandas 0.23.4: ########8 | 89% pandas 0.23.4: #########9 | 99% 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: 4.5.10
Please update conda by running
$ conda update -n base conda
nose 1.3.7: | 0% nose 1.3.7: 5 | 6% nose 1.3.7: #########7 | 98% 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: 4.5.10
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%
pygments 2.2.0: | 0% pygments 2.2.0: #######5 | 75% pygments 2.2.0: ########9 | 90% pygments 2.2.0: #########9 | 100% pygments 2.2.0: ########## | 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
==> WARNING: A newer version of conda exists. <==
current version: 4.4.10
latest version: 4.5.10
Please update conda by running
$ conda update -n base conda
simpleitk 1.1.0: | 0% simpleitk 1.1.0: | 0% simpleitk 1.1.0: #2 | 12% simpleitk 1.1.0: ##3 | 23% simpleitk 1.1.0: ###4 | 34% simpleitk 1.1.0: ####5 | 45% simpleitk 1.1.0: #####5 | 55% simpleitk 1.1.0: ######5 | 66% simpleitk 1.1.0: #######5 | 76% 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: 4.5.10
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: 4.5.10
Please update conda by running
$ conda update -n base conda
scikit-learn 0.19.1: | 0% scikit-learn 0.19.1: | 0% scikit-learn 0.19.1: #####9 | 59% scikit-learn 0.19.1: #######7 | 77% scikit-learn 0.19.1: ######### | 90% 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/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::__cxx11::string)’:
/cip/CIP/Common/cipGeometryTopologyData.cxx:104:15: warning: address of local variable ‘bb’ returned [-Wreturn-local-addr]
BOUNDINGBOX bb;
^
/cip/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::__cxx11::string, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string)’:
/cip/CIP/Common/cipGeometryTopologyData.cxx:157:15: warning: address of local variable ‘bb’ returned [-Wreturn-local-addr]
BOUNDINGBOX bb;
^
/cip/CIP/Common/cipGeometryTopologyData.cxx: In member function ‘cip::GeometryTopologyData::POINT* cip::GeometryTopologyData::InsertPoint(unsigned char, unsigned char, unsigned char, cip::GeometryTopologyData::CoordinateType, std::__cxx11::string)’:
/cip/CIP/Common/cipGeometryTopologyData.cxx:231:9: warning: address of local variable ‘p’ returned [-Wreturn-local-addr]
POINT p;
^
/cip/CIP/Common/cipGeometryTopologyData.cxx: In member function ‘cip::GeometryTopologyData::POINT* cip::GeometryTopologyData::InsertPoint(int, unsigned char, unsigned char, unsigned char, cip::GeometryTopologyData::CoordinateType, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string)’:
/cip/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 creating build/temp.linux-x86_64-2.7 creating build/temp.linux-x86_64-2.7/cip creating build/temp.linux-x86_64-2.7/cip/CIP creating build/temp.linux-x86_64-2.7/cip/CIP/cip_python creating build/temp.linux-x86_64-2.7/cip/CIP/cip_python/utils creating build/temp.linux-x86_64-2.7/cip/CIP/cip_python/utils/gco_python creating build/temp.linux-x86_64-2.7/cip/CIP/Utilities creating build/temp.linux-x86_64-2.7/cip/CIP/Utilities/GraphCutsOptimization /usr/bin/cc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/cip/CIP/Utilities/GraphCutsOptimization -I/cip/CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include -I/cip/CIP-build/CIPPython-install/include/python2.7 -c /cip/CIP/cip_python/utils/gco_python/gco_python.cpp -o build/temp.linux-x86_64-2.7/cip/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++
In file included from /cip/CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1823:0,
from /cip/CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:18,
from /cip/CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
from /cip/CIP/cip_python/utils/gco_python/gco_python.cpp:449:
/cip/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/CIP/Utilities/GraphCutsOptimization -I/cip/CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include -I/cip/CIP-build/CIPPython-install/include/python2.7 -c /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp -o build/temp.linux-x86_64-2.7/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++
In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0: /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h: In constructor ‘GCoptimization::GCoptimization(GCoptimization::SiteID, GCoptimization::LabelID)’:
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:311:10: warning: ‘GCoptimization::m_smoothcostFn’ will be initialized after [-Wreorder]
void* m_smoothcostFn;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:310:10: warning: ‘void* GCoptimization::m_datacostFn’ [-Wreorder]
void* m_datacostFn;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning: when initialized here [-Wreorder]
GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) ^ In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/cip/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/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/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning: when initialized here [-Wreorder]
GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) ^ In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/cip/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/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/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning: when initialized here [-Wreorder]
GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) ^ In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:324:52: warning: ‘GCoptimization::m_updateLabelingDataCosts’ will be initialized after [-Wreorder]
void (GCoptimization::*m_updateLabelingDataCosts)();
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:317:59: warning: ‘GCoptimization::EnergyType (GCoptimization::* GCoptimization::m_giveSmoothEnergyInternal)()’ [-Wreorder]
EnergyType (GCoptimization::*m_giveSmoothEnergyInternal)();
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning: when initialized here [-Wreorder]
GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) ^ In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:328:57: warning: ‘GCoptimization::m_solveSpecialCases’ will be initialized after [-Wreorder]
bool (GCoptimization::*m_solveSpecialCases)(EnergyType&);
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:326:36: warning: ‘void (* GCoptimization::m_datacostFnDelete)(void*)’ [-Wreorder]
void (*m_datacostFnDelete)(void* f);
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning: when initialized here [-Wreorder]
GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) ^ In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:327:38: warning: ‘GCoptimization::m_smoothcostFnDelete’ will be initialized after [-Wreorder]
void (*m_smoothcostFnDelete)(void* f);
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:298:11: warning: ‘int GCoptimization::m_random_label_order’ [-Wreorder]
int m_random_label_order;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning: when initialized here [-Wreorder]
GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) ^ In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:308:18: warning: ‘GCoptimization::m_verbosity’ will be initialized after [-Wreorder]
int m_verbosity;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:307:18: warning: ‘bool GCoptimization::m_labelingInfoDirty’ [-Wreorder]
bool m_labelingInfoDirty;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning: when initialized here [-Wreorder]
GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) ^ In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:307:18: warning: ‘GCoptimization::m_labelingInfoDirty’ will be initialized after [-Wreorder]
bool m_labelingInfoDirty;
^
/cip/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/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning: when initialized here [-Wreorder]
GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) ^ In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/cip/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/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:292:11: warning: ‘GCoptimization::LabelID* GCoptimization::m_labeling’ [-Wreorder]
LabelID *m_labeling;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning: when initialized here [-Wreorder]
GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) ^ In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:303:18: warning: ‘GCoptimization::m_activeLabelCounts’ will be initialized after [-Wreorder]
SiteID* m_activeLabelCounts;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:296:11: warning: ‘int GCoptimization::m_stepsThisCycle’ [-Wreorder]
int m_stepsThisCycle;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:89:1: warning: when initialized here [-Wreorder]
GCoptimization::GCoptimization(SiteID nSites, LabelID nLabels) ^ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp: In member function ‘void GCoptimization::updateLabelingInfo(bool, bool, bool)’:
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:1177:15: warning: unused variable ‘energy’ [-Wunused-variable]
EnergyType energy = 0;
^
In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0:
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h: In instantiation of ‘GCoptimization::GreedyIter<DataCostT>::GreedyIter(DataCostT&, GCoptimization::SiteID) [with DataCostT = GCoptimization::DataCostFnFromArray; GCoptimization::SiteID = int]’:
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:591:45: required from ‘GCoptimization::EnergyType GCoptimization::solveGreedy() [with DataCostT = GCoptimization::DataCostFnFromArray; GCoptimization::EnergyType = long long int]’
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:510:35: required from ‘bool GCoptimization::solveSpecialCases(GCoptimization::EnergyType&) [with DataCostT = GCoptimization::DataCostFnFromArray; GCoptimization::EnergyType = long long int]’
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:121:26: required from here
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFnFromArray>::m_dc’ will be initialized after [-Wreorder]
DataCostT& m_dc;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning: ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFnFromArray>::m_site’ [-Wreorder]
SiteID m_site;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:491:3: warning: when initialized here [-Wreorder]
GreedyIter(DataCostT& dc, SiteID numSites) ^ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h: In instantiation of ‘GCoptimization::GreedyIter<DataCostT>::GreedyIter(DataCostT&, GCoptimization::SiteID) [with DataCostT = GCoptimization::DataCostFunctor; GCoptimization::SiteID = int]’: /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:591:45: required from ‘GCoptimization::EnergyType GCoptimization::solveGreedy() [with DataCostT = GCoptimization::DataCostFunctor; GCoptimization::EnergyType = long long int]’ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:510:35: required from ‘bool GCoptimization::solveSpecialCases(GCoptimization::EnergyType&) [with DataCostT = GCoptimization::DataCostFunctor; GCoptimization::EnergyType = long long int]’ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:769:30: required from here
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFunctor>::m_dc’ will be initialized after [-Wreorder]
DataCostT& m_dc;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning: ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFunctor>::m_site’ [-Wreorder]
SiteID m_site;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:491:3: warning: when initialized here [-Wreorder]
GreedyIter(DataCostT& dc, SiteID numSites)
^
In file included from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:111:0,
from /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:
/cip/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/CIP/Utilities/GraphCutsOptimization/maxflow.cpp:584:41: required from ‘flowtype Graph<captype, tcaptype, flowtype>::maxflow(bool, Block<int>*) [with captype = int; tcaptype = int; flowtype = long long int]’
/cip/CIP/Utilities/GraphCutsOptimization/energy.h:325:32: 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/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:1241:37: required from here
/cip/CIP/Utilities/GraphCutsOptimization/maxflow.cpp:443:2: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
if (i->parent = a0_min) ^ /cip/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/CIP/Utilities/GraphCutsOptimization/maxflow.cpp:585:43: required from ‘flowtype Graph<captype, tcaptype, flowtype>::maxflow(bool, Block<int>*) [with captype = int; tcaptype = int; flowtype = long long int]’ /cip/CIP/Utilities/GraphCutsOptimization/energy.h:325:32: 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/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:1241:37: required from here
/cip/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/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:4:0: /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h: In instantiation of ‘GCoptimization::GreedyIter<DataCostT>::GreedyIter(DataCostT&, GCoptimization::SiteID) [with DataCostT = GCoptimization::DataCostFnFromFunction; GCoptimization::SiteID = int]’: /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:591:45: required from ‘GCoptimization::EnergyType GCoptimization::solveGreedy() [with DataCostT = GCoptimization::DataCostFnFromFunction; GCoptimization::EnergyType = long long int]’ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:510:35: required from ‘bool GCoptimization::solveSpecialCases(GCoptimization::EnergyType&) [with DataCostT = GCoptimization::DataCostFnFromFunction; GCoptimization::EnergyType = long long int]’ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:235:30: required from ‘void GCoptimization::specializeDataCostFunctor(UserFunctor) [with UserFunctor = GCoptimization::DataCostFnFromFunction]’ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:717:54: required from here
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunction>::m_dc’ will be initialized after [-Wreorder]
DataCostT& m_dc;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning: ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunction>::m_site’ [-Wreorder]
SiteID m_site;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:491:3: warning: when initialized here [-Wreorder]
GreedyIter(DataCostT& dc, SiteID numSites) ^ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h: In instantiation of ‘GCoptimization::GreedyIter<DataCostT>::GreedyIter(DataCostT&, GCoptimization::SiteID) [with DataCostT = GCoptimization::DataCostFnFromFunctionExtra; GCoptimization::SiteID = int]’: /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:591:45: required from ‘GCoptimization::EnergyType GCoptimization::solveGreedy() [with DataCostT = GCoptimization::DataCostFnFromFunctionExtra; GCoptimization::EnergyType = long long int]’ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:510:35: required from ‘bool GCoptimization::solveSpecialCases(GCoptimization::EnergyType&) [with DataCostT = GCoptimization::DataCostFnFromFunctionExtra; GCoptimization::EnergyType = long long int]’ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:235:30: required from ‘void GCoptimization::specializeDataCostFunctor(UserFunctor) [with UserFunctor = GCoptimization::DataCostFnFromFunctionExtra]’ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp:725:70: required from here
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:520:14: warning: ‘GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunctionExtra>::m_dc’ will be initialized after [-Wreorder]
DataCostT& m_dc;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:519:10: warning: ‘GCoptimization::SiteID GCoptimization::GreedyIter<GCoptimization::DataCostFnFromFunctionExtra>::m_site’ [-Wreorder]
SiteID m_site;
^
/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.h:491:3: warning: when initialized here [-Wreorder]
GreedyIter(DataCostT& dc, SiteID numSites) ^ /cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.cpp: In member function ‘void GCoptimizationGridGraph::computeNeighborWeights(GCoptimization::EnergyTermType*, GCoptimization::EnergyTermType*)’:
/cip/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/CIP/Utilities/GraphCutsOptimization -I/cip/CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include -I/cip/CIP-build/CIPPython-install/include/python2.7 -c /cip/CIP/Utilities/GraphCutsOptimization/graph.cpp -o build/temp.linux-x86_64-2.7/cip/CIP/Utilities/GraphCutsOptimization/graph.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++
/usr/bin/cc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/cip/CIP/Utilities/GraphCutsOptimization -I/cip/CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include -I/cip/CIP-build/CIPPython-install/include/python2.7 -c /cip/CIP/Utilities/GraphCutsOptimization/LinkedBlockList.cpp -o build/temp.linux-x86_64-2.7/cip/CIP/Utilities/GraphCutsOptimization/LinkedBlockList.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++
/cip/CIP/Utilities/GraphCutsOptimization/LinkedBlockList.cpp: In member function ‘void LinkedBlockList::addFront(ListType)’:
/cip/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/CIP/Utilities/GraphCutsOptimization/LinkedBlockList.cpp: In member function ‘void* LinkedBlockList::next()’:
/cip/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/CIP/Utilities/GraphCutsOptimization -I/cip/CIP-build/CIPPython-install/lib/python2.7/site-packages/numpy/core/include -I/cip/CIP-build/CIPPython-install/include/python2.7 -c /cip/CIP/Utilities/GraphCutsOptimization/maxflow.cpp -o build/temp.linux-x86_64-2.7/cip/CIP/Utilities/GraphCutsOptimization/maxflow.o
cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for C/ObjC but not for C++
/usr/bin/c++ -pthread -shared -B /cip/CIP-build/CIPPython-install/compiler_compat -L/cip/CIP-build/CIPPython-install/lib -Wl,-rpath=/cip/CIP-build/CIPPython-install/lib -Wl,--no-as-needed -Wl,--sysroot=/ build/temp.linux-x86_64-2.7/cip/CIP/cip_python/utils/gco_python/gco_python.o build/temp.linux-x86_64-2.7/cip/CIP/Utilities/GraphCutsOptimization/GCoptimization.o build/temp.linux-x86_64-2.7/cip/CIP/Utilities/GraphCutsOptimization/graph.o build/temp.linux-x86_64-2.7/cip/CIP/Utilities/GraphCutsOptimization/LinkedBlockList.o build/temp.linux-x86_64-2.7/cip/CIP/Utilities/GraphCutsOptimization/maxflow.o -L/cip/CIP/Utilities/GraphCutsOptimization -L/cip/CIP-build/CIPPython-install/lib -lpython2.7 -o /cip/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
