* Package: sci-biology/ants-2.4.1:0  * Repository: science  * Maintainer: gentoo@chymera.eu sci@gentoo.org  * USE: abi_x86_64 amd64 elibc_glibc kernel_linux userland_GNU  * FEATURES: network-sandbox preserve-libs sandbox userpriv usersandbox >>> Unpacking source... >>> Unpacking ants-2.4.1.tar.gz to /var/tmp/portage/sci-biology/ants-2.4.1/work >>> Source unpacked in /var/tmp/portage/sci-biology/ants-2.4.1/work >>> Preparing source in /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 ... * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1" * Build directory (BUILD_DIR): "/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build" * Hardcoded definition(s) removed in CMakeLists.txt: * SET(CMAKE_INSTALL_PREFIX /opt/ANTs CACHE PATH "Default ANTs install path") >>> Source prepared. >>> Configuring source in /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 ... * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1" * Build directory (BUILD_DIR): "/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build" cmake -C /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/gentoo_common_config.cmake -G Unix Makefiles -DCMAKE_INSTALL_PREFIX=/usr -DUSE_SYSTEM_ITK=ON -DITK_DIR=/usr/include/ITK-5.2/ -DBUILD_TESTING=OFF -DUSE_VTK=OFF -DUSE_SYSTEM_VTK=OFF -DANTS_SNAPSHOT_VERSION:STRING=2.4.1 -DCMAKE_BUILD_TYPE=RelWithDebInfo -DCMAKE_TOOLCHAIN_FILE=/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/gentoo_toolchain.cmake /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 loading initial cache file /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/gentoo_common_config.cmake -- The C compiler identification is GNU 12.2.0 -- The CXX compiler identification is GNU 12.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/x86_64-pc-linux-gnu-gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/x86_64-pc-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Not using CCache -- Performing Test C_HAS_WARNING-Wno-uninitialized -- Performing Test C_HAS_WARNING-Wno-uninitialized - Success -- Performing Test C_HAS_WARNING-Wno-unused-parameter -- Performing Test C_HAS_WARNING-Wno-unused-parameter - Success -- Performing Test C_HAS_WARNING-Wall -- Performing Test C_HAS_WARNING-Wall - Success -- Performing Test C_HAS_WARNING-Wno-long-double -- Performing Test C_HAS_WARNING-Wno-long-double - Failed -- Performing Test C_HAS_WARNING-Wcast-align -- Performing Test C_HAS_WARNING-Wcast-align - Success -- Performing Test C_HAS_WARNING-Wdisabled-optimization -- Performing Test C_HAS_WARNING-Wdisabled-optimization - Success -- Performing Test C_HAS_WARNING-Wextra -- Performing Test C_HAS_WARNING-Wextra - Success -- Performing Test C_HAS_WARNING-Wformat_2 -- Performing Test C_HAS_WARNING-Wformat_2 - Success -- Performing Test C_HAS_WARNING-Winvalid-pch -- Performing Test C_HAS_WARNING-Winvalid-pch - Success -- Performing Test C_HAS_WARNING-Wno-format-nonliteral -- Performing Test C_HAS_WARNING-Wno-format-nonliteral - Success -- Performing Test C_HAS_WARNING-Wpointer-arith -- Performing Test C_HAS_WARNING-Wpointer-arith - Success -- Performing Test C_HAS_WARNING-Wshadow -- Performing Test C_HAS_WARNING-Wshadow - Success -- Performing Test C_HAS_WARNING-Wunused -- Performing Test C_HAS_WARNING-Wunused - Success -- Performing Test C_HAS_WARNING-Wwrite-strings -- Performing Test C_HAS_WARNING-Wwrite-strings - Success -- Performing Test C_HAS_WARNING-funit-at-a-time -- Performing Test C_HAS_WARNING-funit-at-a-time - Success -- Performing Test C_HAS_WARNING-Wno-strict-overflow -- Performing Test C_HAS_WARNING-Wno-strict-overflow - Success -- Performing Test CXX_HAS_WARNING-Wall -- Performing Test CXX_HAS_WARNING-Wall - Success -- Performing Test CXX_HAS_WARNING-Wno-long-double -- Performing Test CXX_HAS_WARNING-Wno-long-double - Failed -- Performing Test CXX_HAS_WARNING-Wcast-align -- Performing Test CXX_HAS_WARNING-Wcast-align - Success -- Performing Test CXX_HAS_WARNING-Wdisabled-optimization -- Performing Test CXX_HAS_WARNING-Wdisabled-optimization - Success -- Performing Test CXX_HAS_WARNING-Wextra -- Performing Test CXX_HAS_WARNING-Wextra - Success -- Performing Test CXX_HAS_WARNING-Wformat_2 -- Performing Test CXX_HAS_WARNING-Wformat_2 - Success -- Performing Test CXX_HAS_WARNING-Winvalid-pch -- Performing Test CXX_HAS_WARNING-Winvalid-pch - Success -- Performing Test CXX_HAS_WARNING-Wno-format-nonliteral -- Performing Test CXX_HAS_WARNING-Wno-format-nonliteral - Success -- Performing Test CXX_HAS_WARNING-Wpointer-arith -- Performing Test CXX_HAS_WARNING-Wpointer-arith - Success -- Performing Test CXX_HAS_WARNING-Wshadow -- Performing Test CXX_HAS_WARNING-Wshadow - Success -- Performing Test CXX_HAS_WARNING-Wunused -- Performing Test CXX_HAS_WARNING-Wunused - Success -- Performing Test CXX_HAS_WARNING-Wwrite-strings -- Performing Test CXX_HAS_WARNING-Wwrite-strings - Success -- Performing Test CXX_HAS_WARNING-funit-at-a-time -- Performing Test CXX_HAS_WARNING-funit-at-a-time - Success -- Performing Test CXX_HAS_WARNING-Wno-strict-overflow -- Performing Test CXX_HAS_WARNING-Wno-strict-overflow - Success -- Performing Test CXX_HAS_WARNING-Wno-deprecated -- Performing Test CXX_HAS_WARNING-Wno-deprecated - Success -- Performing Test CXX_HAS_WARNING-Wno-invalid-offsetof -- Performing Test CXX_HAS_WARNING-Wno-invalid-offsetof - Success -- Performing Test CXX_HAS_WARNING-Wno-undefined-var-template -- Performing Test CXX_HAS_WARNING-Wno-undefined-var-template - Failed -- Performing Test CXX_HAS_WARNING-Woverloaded-virtual -- Performing Test CXX_HAS_WARNING-Woverloaded-virtual - Success -- Performing Test CXX_HAS_WARNING-Wstrict-null-sentinel -- Performing Test CXX_HAS_WARNING-Wstrict-null-sentinel - Success -- Performing Test C_HAS_WARNING-mtune_native -- Performing Test C_HAS_WARNING-mtune_native - Success -- Performing Test C_HAS_WARNING-march_corei7 -- Performing Test C_HAS_WARNING-march_corei7 - Success -- Performing Test CXX_HAS_WARNING-mtune_native -- Performing Test CXX_HAS_WARNING-mtune_native - Success -- Performing Test CXX_HAS_WARNING-march_corei7 -- Performing Test CXX_HAS_WARNING-march_corei7 - Success -- Performing Test have_gold -- Performing Test have_gold - Success -- Performing Test CXX_HAS_DISABLE_OPTIMIZATION_FLAG -- Performing Test CXX_HAS_DISABLE_OPTIMIZATION_FLAG - Failed -- Found Git: /usr/bin/git (found version "2.37.3") -- SuperBuild - ANTS => Requires ITKv5, -- SuperBuild - ITKv5[OK] USING the system ITK, set ITK_DIR=/usr/lib/cmake/ITK-5.2 -- SuperBuild - ANTS[OK] -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: ANTS_SNAPSHOT_VERSION  -- Build files have been written to: /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build >>> Source configured. >>> Compiling source in /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 ... * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1" * Build directory (BUILD_DIR): "/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build" make -j7 VERBOSE=1 /usr/bin/cmake -S/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 -B/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/CMakeFiles /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[1]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build' make -f CMakeFiles/ITKv5.dir/build.make CMakeFiles/ITKv5.dir/depend make[2]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build' cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/CMakeFiles/ITKv5.dir/DependInfo.cmake --color= make[2]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build' make -f CMakeFiles/ITKv5.dir/build.make CMakeFiles/ITKv5.dir/build make[2]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build' [ 5%] Creating directories for 'ITKv5' /usr/bin/cmake -Dcfgdir= -P /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ITKv5-prefix/tmp/ITKv5-mkdirs.cmake /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ITKv5-prefix/src/ITKv5-stamp/ITKv5-mkdir [ 11%] No download step for 'ITKv5' cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ITKv5-prefix/src && /usr/bin/cmake -E echo_append cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ITKv5-prefix/src && /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ITKv5-prefix/src/ITKv5-stamp/ITKv5-download [ 17%] No update step for 'ITKv5' /usr/bin/cmake -E echo_append /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ITKv5-prefix/src/ITKv5-stamp/ITKv5-update [ 23%] No patch step for 'ITKv5' /usr/bin/cmake -E echo_append /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ITKv5-prefix/src/ITKv5-stamp/ITKv5-patch [ 29%] No configure step for 'ITKv5' cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/EMPTY_ITKv5-build && /usr/bin/cmake -E echo_append cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/EMPTY_ITKv5-build && /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ITKv5-prefix/src/ITKv5-stamp/ITKv5-configure [ 35%] No build step for 'ITKv5' cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/EMPTY_ITKv5-build && /usr/bin/cmake -E echo_append cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/EMPTY_ITKv5-build && /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ITKv5-prefix/src/ITKv5-stamp/ITKv5-build [ 41%] No install step for 'ITKv5' cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/EMPTY_ITKv5-build && /usr/bin/cmake -E echo_append cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/EMPTY_ITKv5-build && /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ITKv5-prefix/src/ITKv5-stamp/ITKv5-install [ 47%] Completed 'ITKv5' /usr/bin/cmake -E make_directory /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/CMakeFiles /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/CMakeFiles/ITKv5-complete /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ITKv5-prefix/src/ITKv5-stamp/ITKv5-done make[2]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build' [ 47%] Built target ITKv5 make -f CMakeFiles/ANTS.dir/build.make CMakeFiles/ANTS.dir/depend make[2]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build' cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/CMakeFiles/ANTS.dir/DependInfo.cmake --color= make[2]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build' make -f CMakeFiles/ANTS.dir/build.make CMakeFiles/ANTS.dir/build make[2]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build' [ 52%] Creating directories for 'ANTS' /usr/bin/cmake -Dcfgdir= -P /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-prefix/tmp/ANTS-mkdirs.cmake /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-prefix/src/ANTS-stamp/ANTS-mkdir [ 58%] No download step for 'ANTS' cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-prefix/src && /usr/bin/cmake -E echo_append cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-prefix/src && /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-prefix/src/ANTS-stamp/ANTS-download [ 64%] No update step for 'ANTS' /usr/bin/cmake -E echo_append /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-prefix/src/ANTS-stamp/ANTS-update [ 70%] No patch step for 'ANTS' /usr/bin/cmake -E echo_append /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-prefix/src/ANTS-stamp/ANTS-patch [ 76%] Performing configure step for 'ANTS' cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build && /usr/bin/cmake --no-warn-unused-cli -DUSE_VTK:BOOL=OFF -DCMAKE_BUILD_TYPE:PATH=RelWithDebInfo -DMAKECOMMAND:STRING= -DCMAKE_SKIP_RPATH:BOOL=NO -DCMAKE_BUILD_TYPE:STRING=RelWithDebInfo -DBUILD_SHARED_LIBS:BOOL=ON -DCMAKE_CXX_COMPILER:PATH=/usr/bin/x86_64-pc-linux-gnu-g++ "-DCMAKE_CXX_FLAGS_RELEASE:STRING=-O3 -DNDEBUG" -DCMAKE_CXX_FLAGS_DEBUG:STRING=-g "-DCMAKE_CXX_FLAGS:STRING=-march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel" -DCMAKE_C_COMPILER:PATH=/usr/bin/x86_64-pc-linux-gnu-gcc "-DCMAKE_C_FLAGS_RELEASE:STRING=-O3 -DNDEBUG" -DCMAKE_C_FLAGS_DEBUG:STRING=-g "-DCMAKE_C_FLAGS:STRING=-march=native -O2 -pipe -mtune=native -march=corei7 -Wno-uninitialized -Wno-unused-parameter -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow" "-DCMAKE_SHARED_LINKER_FLAGS:STRING=-fuse-ld=gold -Wl,-O1 -Wl,--as-needed" "-DCMAKE_EXE_LINKER_FLAGS:STRING=-fuse-ld=gold -Wl,-O1 -Wl,--as-needed" "-DCMAKE_MODULE_LINKER_FLAGS:STRING=-fuse-ld=gold -Wl,-O1 -Wl,--as-needed" "-DCMAKE_GENERATOR:STRING=Unix Makefiles" -DCMAKE_EXTRA_GENERATOR:STRING= -DCMAKE_INSTALL_LIBDIR:STRING=lib64 -DCMAKE_INSTALL_PREFIX:PATH=/usr -DCMAKE_LIBRARY_OUTPUT_DIRECTORY:PATH= -DCMAKE_ARCHIVE_OUTPUT_DIRECTORY:PATH= -DCMAKE_RUNTIME_OUTPUT_DIRECTORY:PATH= -DCMAKE_BUNDLE_OUTPUT_DIRECTORY:PATH= -DCTEST_NEW_FORMAT:BOOL= -DMEMORYCHECK_COMMAND_OPTIONS:STRING= -DMEMORYCHECK_COMMAND:PATH= "-DCMAKE_SHARED_LINKER_FLAGS:STRING=-fuse-ld=gold -Wl,-O1 -Wl,--as-needed" "-DCMAKE_EXE_LINKER_FLAGS:STRING=-fuse-ld=gold -Wl,-O1 -Wl,--as-needed" "-DCMAKE_MODULE_LINKER_FLAGS:STRING=-fuse-ld=gold -Wl,-O1 -Wl,--as-needed" -DSITE:STRING= -DBUILDNAME:STRING= -DCMAKE_SH:BOOL= -DC_LAUNCHER:STRING= -DCXX_LAUNCHER:STRING= -DCUDA_LAUNCHER:STRING= -DCMAKE_XCODE_ATTRIBUTE_CC:STRING= -DCMAKE_XCODE_ATTRIBUTE_CXX:STRING= -DCMAKE_XCODE_ATTRIBUTE_LD:STRING= -DCMAKE_XCODE_ATTRIBUTE_LDPLUSPLUS:STRING= -DCMAKE_C_COMPILER_LAUNCHER:STRING= -DCMAKE_CXX_COMPILER_LAUNCHER:STRING= -DCMAKE_CUDA_COMPILER_LAUNCHER:STRING= -DUSE_SYSTEM_ITK:BOOL=ON -DUSE_SYSTEM_VTK:BOOL=OFF -DITK_DIR:PATH=/usr/lib/cmake/ITK-5.2 -DBUILD_EXAMPLES:BOOL= -DBUILD_TESTING:BOOL=OFF -DITK_VERSION_MAJOR:STRING=5 -DITK_DIR:PATH=/usr/lib/cmake/ITK-5.2 -DBUILD_ALL_ANTS_APPS:BOOL=ON -DRUN_SHORT_TESTS:BOOL=ON -DRUN_LONG_TESTS:BOOL=ON -DOLD_BASELINE_TESTS:BOOL=OFF -DANTS_INSTALL_LIBS_ONLY:BOOL=OFF -DANTS_CLI_LIBRARY_OUTPUT_DIRECTORY:PATH= -DANTS_CLI_ARCHIVE_OUTPUT_DIRECTORY:PATH= -DANTS_CLI_RUNTIME_OUTPUT_DIRECTORY:PATH= -DANTS_CLI_INSTALL_LIBRARY_DESTINATION:PATH= -DANTS_CLI_INSTALL_ARCHIVE_DESTINATION:PATH= -DANTS_CLI_INSTALL_RUNTIME_DESTINATION:PATH= -DINSTALL_RUNTIME_DESTINATION:STRING= -DINSTALL_LIBRARY_DESTINATION:STRING= -DINSTALL_ARCHIVE_DESTINATION:STRING= -DANTS_SUPERBUILD:BOOL=OFF -DCMAKE_GENERATOR_PLATFORM:STRING= "-GUnix Makefiles" /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 Not searching for unused variables given on the command line. Re-run cmake no build system arguments -- The CXX compiler identification is GNU 12.2.0 -- The C compiler identification is GNU 12.2.0 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/x86_64-pc-linux-gnu-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/x86_64-pc-linux-gnu-gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Not using CCache -- Performing Test C_HAS_WARNING-Wno-uninitialized -- Performing Test C_HAS_WARNING-Wno-uninitialized - Success -- Performing Test C_HAS_WARNING-Wno-unused-parameter -- Performing Test C_HAS_WARNING-Wno-unused-parameter - Success -- Performing Test C_HAS_WARNING-Wall -- Performing Test C_HAS_WARNING-Wall - Success -- Performing Test C_HAS_WARNING-Wno-long-double -- Performing Test C_HAS_WARNING-Wno-long-double - Failed -- Performing Test C_HAS_WARNING-Wcast-align -- Performing Test C_HAS_WARNING-Wcast-align - Success -- Performing Test C_HAS_WARNING-Wdisabled-optimization -- Performing Test C_HAS_WARNING-Wdisabled-optimization - Success -- Performing Test C_HAS_WARNING-Wextra -- Performing Test C_HAS_WARNING-Wextra - Success -- Performing Test C_HAS_WARNING-Wformat_2 -- Performing Test C_HAS_WARNING-Wformat_2 - Success -- Performing Test C_HAS_WARNING-Winvalid-pch -- Performing Test C_HAS_WARNING-Winvalid-pch - Success -- Performing Test C_HAS_WARNING-Wno-format-nonliteral -- Performing Test C_HAS_WARNING-Wno-format-nonliteral - Success -- Performing Test C_HAS_WARNING-Wpointer-arith -- Performing Test C_HAS_WARNING-Wpointer-arith - Success -- Performing Test C_HAS_WARNING-Wshadow -- Performing Test C_HAS_WARNING-Wshadow - Success -- Performing Test C_HAS_WARNING-Wunused -- Performing Test C_HAS_WARNING-Wunused - Success -- Performing Test C_HAS_WARNING-Wwrite-strings -- Performing Test C_HAS_WARNING-Wwrite-strings - Success -- Performing Test C_HAS_WARNING-funit-at-a-time -- Performing Test C_HAS_WARNING-funit-at-a-time - Success -- Performing Test C_HAS_WARNING-Wno-strict-overflow -- Performing Test C_HAS_WARNING-Wno-strict-overflow - Success -- Performing Test CXX_HAS_WARNING-Wall -- Performing Test CXX_HAS_WARNING-Wall - Success -- Performing Test CXX_HAS_WARNING-Wno-long-double -- Performing Test CXX_HAS_WARNING-Wno-long-double - Failed -- Performing Test CXX_HAS_WARNING-Wcast-align -- Performing Test CXX_HAS_WARNING-Wcast-align - Success -- Performing Test CXX_HAS_WARNING-Wdisabled-optimization -- Performing Test CXX_HAS_WARNING-Wdisabled-optimization - Success -- Performing Test CXX_HAS_WARNING-Wextra -- Performing Test CXX_HAS_WARNING-Wextra - Success -- Performing Test CXX_HAS_WARNING-Wformat_2 -- Performing Test CXX_HAS_WARNING-Wformat_2 - Success -- Performing Test CXX_HAS_WARNING-Winvalid-pch -- Performing Test CXX_HAS_WARNING-Winvalid-pch - Success -- Performing Test CXX_HAS_WARNING-Wno-format-nonliteral -- Performing Test CXX_HAS_WARNING-Wno-format-nonliteral - Success -- Performing Test CXX_HAS_WARNING-Wpointer-arith -- Performing Test CXX_HAS_WARNING-Wpointer-arith - Success -- Performing Test CXX_HAS_WARNING-Wshadow -- Performing Test CXX_HAS_WARNING-Wshadow - Success -- Performing Test CXX_HAS_WARNING-Wunused -- Performing Test CXX_HAS_WARNING-Wunused - Success -- Performing Test CXX_HAS_WARNING-Wwrite-strings -- Performing Test CXX_HAS_WARNING-Wwrite-strings - Success -- Performing Test CXX_HAS_WARNING-funit-at-a-time -- Performing Test CXX_HAS_WARNING-funit-at-a-time - Success -- Performing Test CXX_HAS_WARNING-Wno-strict-overflow -- Performing Test CXX_HAS_WARNING-Wno-strict-overflow - Success -- Performing Test CXX_HAS_WARNING-Wno-deprecated -- Performing Test CXX_HAS_WARNING-Wno-deprecated - Success -- Performing Test CXX_HAS_WARNING-Wno-invalid-offsetof -- Performing Test CXX_HAS_WARNING-Wno-invalid-offsetof - Success -- Performing Test CXX_HAS_WARNING-Wno-undefined-var-template -- Performing Test CXX_HAS_WARNING-Wno-undefined-var-template - Failed -- Performing Test CXX_HAS_WARNING-Woverloaded-virtual -- Performing Test CXX_HAS_WARNING-Woverloaded-virtual - Success -- Performing Test CXX_HAS_WARNING-Wstrict-null-sentinel -- Performing Test CXX_HAS_WARNING-Wstrict-null-sentinel - Success -- Performing Test C_HAS_WARNING-mtune_native -- Performing Test C_HAS_WARNING-mtune_native - Success -- Performing Test C_HAS_WARNING-march_corei7 -- Performing Test C_HAS_WARNING-march_corei7 - Success -- Performing Test CXX_HAS_WARNING-mtune_native -- Performing Test CXX_HAS_WARNING-mtune_native - Success -- Performing Test CXX_HAS_WARNING-march_corei7 -- Performing Test CXX_HAS_WARNING-march_corei7 - Success -- Performing Test have_gold -- Performing Test have_gold - Success -- Performing Test CXX_HAS_DISABLE_OPTIMIZATION_FLAG -- Performing Test CXX_HAS_DISABLE_OPTIMIZATION_FLAG - Failed -- Building ANTS version "v2.4.1" -- antsAffineInitializer -- antsJointFusion -- DenoiseImage -- SurfaceBasedSmoothing -- ThresholdImage -- ResampleImage -- sccan -- N4BiasFieldCorrection -- N3BiasFieldCorrection -- KellyKapowski -- antsRegistration -- antsMotionCorrStats -- antsMotionCorr -- antsApplyTransforms -- LabelGeometryMeasures -- LabelClustersUniquely -- Atropos -- antsApplyTransformsToPoints -- antsAI -- ANTSIntegrateVelocityField -- antsJointTensorFusion -- ImageMath -- iMath -- AddNoiseToImage -- ANTS -- ANTSJacobian -- CreateJacobianDeterminantImage -- PrintHeader -- ResetDirection -- ANTSUseLandmarkImagesToGetAffineTransform -- ANTSUseLandmarkImagesToGetBSplineDisplacementField -- ANTSUseDeformationFieldToGetAffineTransform -- antsLandmarkBasedTransformInitializer -- LaplacianThickness -- SetOrigin -- SetSpacing -- SetDirectionByMatrix -- SurfaceCurvature -- ConvertScalarImageToRGB -- CreateWarpedGridImage -- MeasureImageSimilarity -- ConvertToJpg -- ConvertImage -- ConvertImagePixelType -- ConvertInputImagePixelTypeToFloat -- FitBSplineToPoints -- AverageTensorImages -- ImageSetStatistics -- MultiplyImages -- SimulateDisplacementField -- SmoothDisplacementField -- SmoothImage -- ClusterImageStatistics -- LabelOverlapMeasures -- LesionFilling -- MeasureMinMaxMean -- WarpImageMultiTransform -- ComposeMultiTransform -- MemoryTest -- PermuteFlipImageOrientationAxes -- ImageCompare -- ResampleImageBySpacing -- CopyImageHeaderInformation -- WarpTimeSeriesImageMultiTransform -- ExtractSliceFromImage -- ExtractRegionFromImage -- ExtractRegionFromImageByMask -- PasteImageIntoImage -- TileImages -- CreateTiledMosaic -- CreateImage -- NonLocalSuperResolution -- WarpTensorImageMultiTransform -- ReorientTensorImage -- RebaseTensorImage -- KellySlater -- CreateDTICohort -- antsAlignOrigin -- antsMotionCorrDiffusionDirection -- antsSliceRegularizedRegistration -- ANTSIntegrateVectorField -- antsTransformInfo -- antsUtilitiesTesting -- AverageAffineTransform -- AverageAffineTransformNoRigid -- AverageImages -- simpleSynRegistration -- CompositeTransformUtil -- CreateDisplacementField -- ConvertTransformFile -- compareTwoTransforms -- SuperResolution -- TimeSCCAN -- TextureCooccurrenceFeatures -- TextureRunLengthFeatures -- ImageIntensityStatistics -- GetConnectedComponentsFeatureImages -- DeNrrd -- StackSlices -- Configuring done -- Generating done -- Build files have been written to: /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build && /usr/bin/cmake -E touch /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-prefix/src/ANTS-stamp/ANTS-configure [ 82%] Performing forcebuild step for 'ANTS' /usr/bin/cmake -E remove /ANTS-prefix/src/ANTS-stamp/ANTS-build [ 88%] Performing build step for 'ANTS' cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build && make make[3]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' /usr/bin/cmake -S/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 -B/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/CMakeFiles /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[4]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' make -f Examples/CMakeFiles/antsUtilities.dir/build.make Examples/CMakeFiles/antsUtilities.dir/depend make[5]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples/CMakeFiles/antsUtilities.dir/DependInfo.cmake --color= make[5]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' make -f Examples/CMakeFiles/antsUtilities.dir/build.make Examples/CMakeFiles/antsUtilities.dir/build make[5]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' [ 0%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/antsUtilities.cxx.o [ 1%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/antsRegistrationTemplateHeader.cxx.o [ 1%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/antsRegistration2DDouble.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/antsUtilities.cxx.o -MF CMakeFiles/antsUtilities.dir/antsUtilities.cxx.o.d -o CMakeFiles/antsUtilities.dir/antsUtilities.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsUtilities.cxx [ 1%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/antsRegistration3DDouble.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/antsRegistrationTemplateHeader.cxx.o -MF CMakeFiles/antsUtilities.dir/antsRegistrationTemplateHeader.cxx.o.d -o CMakeFiles/antsUtilities.dir/antsRegistrationTemplateHeader.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistrationTemplateHeader.cxx cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/antsRegistration2DDouble.cxx.o -MF CMakeFiles/antsUtilities.dir/antsRegistration2DDouble.cxx.o.d -o CMakeFiles/antsUtilities.dir/antsRegistration2DDouble.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration2DDouble.cxx cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/antsRegistration3DDouble.cxx.o -MF CMakeFiles/antsUtilities.dir/antsRegistration3DDouble.cxx.o.d -o CMakeFiles/antsUtilities.dir/antsRegistration3DDouble.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration3DDouble.cxx [ 2%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/antsRegistration3DFloat.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/antsRegistration3DFloat.cxx.o -MF CMakeFiles/antsUtilities.dir/antsRegistration3DFloat.cxx.o.d -o CMakeFiles/antsUtilities.dir/antsRegistration3DFloat.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration3DFloat.cxx [ 2%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/antsRegistration2DFloat.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/antsRegistration2DFloat.cxx.o -MF CMakeFiles/antsUtilities.dir/antsRegistration2DFloat.cxx.o.d -o CMakeFiles/antsUtilities.dir/antsRegistration2DFloat.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration2DFloat.cxx [ 2%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/antsRegistration4DDouble.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/antsRegistration4DDouble.cxx.o -MF CMakeFiles/antsUtilities.dir/antsRegistration4DDouble.cxx.o.d -o CMakeFiles/antsUtilities.dir/antsRegistration4DDouble.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration4DDouble.cxx [ 2%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/antsRegistration4DFloat.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/antsRegistration4DFloat.cxx.o -MF CMakeFiles/antsUtilities.dir/antsRegistration4DFloat.cxx.o.d -o CMakeFiles/antsUtilities.dir/antsRegistration4DFloat.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration4DFloat.cxx [ 2%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/__/Utilities/ReadWriteData.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/__/Utilities/ReadWriteData.cxx.o -MF CMakeFiles/antsUtilities.dir/__/Utilities/ReadWriteData.cxx.o.d -o CMakeFiles/antsUtilities.dir/__/Utilities/ReadWriteData.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities/ReadWriteData.cxx [ 3%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/__/Utilities/antsCommandLineOption.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/__/Utilities/antsCommandLineOption.cxx.o -MF CMakeFiles/antsUtilities.dir/__/Utilities/antsCommandLineOption.cxx.o.d -o CMakeFiles/antsUtilities.dir/__/Utilities/antsCommandLineOption.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities/antsCommandLineOption.cxx [ 3%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/__/Utilities/antsCommandLineParser.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/__/Utilities/antsCommandLineParser.cxx.o -MF CMakeFiles/antsUtilities.dir/__/Utilities/antsCommandLineParser.cxx.o.d -o CMakeFiles/antsUtilities.dir/__/Utilities/antsCommandLineParser.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities/antsCommandLineParser.cxx [ 3%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/ANTsVersion.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/ANTsVersion.cxx.o -MF CMakeFiles/antsUtilities.dir/ANTsVersion.cxx.o.d -o CMakeFiles/antsUtilities.dir/ANTsVersion.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ANTsVersion.cxx [ 3%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/ImageMathHelper2D.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/ImageMathHelper2D.cxx.o -MF CMakeFiles/antsUtilities.dir/ImageMathHelper2D.cxx.o.d -o CMakeFiles/antsUtilities.dir/ImageMathHelper2D.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ImageMathHelper2D.cxx In file included from /usr/include/ITK-5.2/itkImageRegion.h:33, from /usr/include/ITK-5.2/itkImageBase.h:33, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities/antsAllocImage.h:3, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsUtilities.h:12, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistrationTemplateHeader.h:13, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration3DDouble.cxx:1: In member function ‘const itk::Size::value_type& itk::Size::operator[](size_type) const [with unsigned int VDimension = 2]’, inlined from ‘itk::Neighborhood::SizeValueType itk::Neighborhood::GetSize(DimensionValueType) const [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhood.h:160:18, inlined from ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhoodOperator.hxx:113:43: /usr/include/ITK-5.2/itkSize.h:329:75: warning: array subscript 2 is above array bounds of ‘const itk::Size<2>::SizeValueType [2]’ {aka ‘const long unsigned int [2]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 329 | const_reference operator[](size_type pos) const { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<2>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In file included from /usr/include/ITK-5.2/itkImageRegion.h:33, from /usr/include/ITK-5.2/itkImageBase.h:33, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities/antsAllocImage.h:3, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsUtilities.h:12, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistrationTemplateHeader.h:13, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration4DFloat.cxx:1: In member function ‘const itk::Size::value_type& itk::Size::operator[](size_type) const [with unsigned int VDimension = 2]’, inlined from ‘itk::Neighborhood::SizeValueType itk::Neighborhood::GetSize(DimensionValueType) const [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhood.h:160:18, inlined from ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhoodOperator.hxx:113:43: /usr/include/ITK-5.2/itkSize.h:329:75: warning: array subscript 2 is above array bounds of ‘const itk::Size<2>::SizeValueType [2]’ {aka ‘const long unsigned int [2]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 329 | const_reference operator[](size_type pos) const { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<2>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In member function ‘const itk::Size::value_type& itk::Size::operator[](size_type) const [with unsigned int VDimension = 2]’, inlined from ‘itk::Neighborhood::SizeValueType itk::Neighborhood::GetSize(DimensionValueType) const [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhood.h:160:18, inlined from ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhoodOperator.hxx:113:43: /usr/include/ITK-5.2/itkSize.h:329:75: warning: array subscript 2 is above array bounds of ‘const itk::Size<2>::SizeValueType [2]’ {aka ‘const long unsigned int [2]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 329 | const_reference operator[](size_type pos) const { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<2>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In file included from /usr/include/ITK-5.2/itkImageRegion.h:33, from /usr/include/ITK-5.2/itkImageBase.h:33, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities/antsAllocImage.h:3, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsUtilities.h:12, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistrationTemplateHeader.h:13, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration2DFloat.cxx:1: In member function ‘const itk::Size::value_type& itk::Size::operator[](size_type) const [with unsigned int VDimension = 2]’, inlined from ‘itk::Neighborhood::SizeValueType itk::Neighborhood::GetSize(DimensionValueType) const [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhood.h:160:18, inlined from ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhoodOperator.hxx:113:43: /usr/include/ITK-5.2/itkSize.h:329:75: warning: array subscript 2 is above array bounds of ‘const itk::Size<2>::SizeValueType [2]’ {aka ‘const long unsigned int [2]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 329 | const_reference operator[](size_type pos) const { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<2>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In member function ‘const itk::Size::value_type& itk::Size::operator[](size_type) const [with unsigned int VDimension = 2]’, inlined from ‘itk::Neighborhood::SizeValueType itk::Neighborhood::GetSize(DimensionValueType) const [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhood.h:160:18, inlined from ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhoodOperator.hxx:113:43: /usr/include/ITK-5.2/itkSize.h:329:75: warning: array subscript 2 is above array bounds of ‘const itk::Size<2>::SizeValueType [2]’ {aka ‘const long unsigned int [2]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 329 | const_reference operator[](size_type pos) const { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<2>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In file included from /usr/include/ITK-5.2/itkImageRegion.h:33, from /usr/include/ITK-5.2/itkImageBase.h:33, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities/antsAllocImage.h:3, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsUtilities.h:12, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistrationTemplateHeader.h:13, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration3DFloat.cxx:1: In member function ‘const itk::Size::value_type& itk::Size::operator[](size_type) const [with unsigned int VDimension = 2]’, inlined from ‘itk::Neighborhood::SizeValueType itk::Neighborhood::GetSize(DimensionValueType) const [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhood.h:160:18, inlined from ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhoodOperator.hxx:113:43: /usr/include/ITK-5.2/itkSize.h:329:75: warning: array subscript 2 is above array bounds of ‘const itk::Size<2>::SizeValueType [2]’ {aka ‘const long unsigned int [2]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 329 | const_reference operator[](size_type pos) const { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<2>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In member function ‘const itk::Size::value_type& itk::Size::operator[](size_type) const [with unsigned int VDimension = 2]’, inlined from ‘itk::Neighborhood::SizeValueType itk::Neighborhood::GetSize(DimensionValueType) const [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhood.h:160:18, inlined from ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhoodOperator.hxx:113:43: /usr/include/ITK-5.2/itkSize.h:329:75: warning: array subscript 2 is above array bounds of ‘const itk::Size<2>::SizeValueType [2]’ {aka ‘const long unsigned int [2]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 329 | const_reference operator[](size_type pos) const { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<2>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In file included from /usr/include/ITK-5.2/itkImageRegion.h:33, from /usr/include/ITK-5.2/itkImageBase.h:33, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities/antsAllocImage.h:3, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsUtilities.h:12, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistrationTemplateHeader.h:13, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration4DDouble.cxx:1: In member function ‘const itk::Size::value_type& itk::Size::operator[](size_type) const [with unsigned int VDimension = 2]’, inlined from ‘itk::Neighborhood::SizeValueType itk::Neighborhood::GetSize(DimensionValueType) const [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhood.h:160:18, inlined from ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhoodOperator.hxx:113:43: /usr/include/ITK-5.2/itkSize.h:329:75: warning: array subscript 2 is above array bounds of ‘const itk::Size<2>::SizeValueType [2]’ {aka ‘const long unsigned int [2]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 329 | const_reference operator[](size_type pos) const { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<2>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In file included from /usr/include/ITK-5.2/itkImageRegion.h:33, from /usr/include/ITK-5.2/itkImageBase.h:33, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities/antsAllocImage.h:3, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsUtilities.h:12, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistrationTemplateHeader.h:13, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsRegistration2DDouble.cxx:1: In member function ‘const itk::Size::value_type& itk::Size::operator[](size_type) const [with unsigned int VDimension = 2]’, inlined from ‘itk::Neighborhood::SizeValueType itk::Neighborhood::GetSize(DimensionValueType) const [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhood.h:160:18, inlined from ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhoodOperator.hxx:113:43: /usr/include/ITK-5.2/itkSize.h:329:75: warning: array subscript 2 is above array bounds of ‘const itk::Size<2>::SizeValueType [2]’ {aka ‘const long unsigned int [2]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 329 | const_reference operator[](size_type pos) const { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<2>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In file included from /usr/include/ITK-5.2/itkImageRegion.h:33, from /usr/include/ITK-5.2/itkImageBase.h:33, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities/antsAllocImage.h:3, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsUtilities.h:12, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ImageMath_Templates.hxx:15, from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ImageMathHelper2D.cxx:1: In member function ‘const itk::Size::value_type& itk::Size::operator[](size_type) const [with unsigned int VDimension = 2]’, inlined from ‘itk::Neighborhood::SizeValueType itk::Neighborhood::GetSize(DimensionValueType) const [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhood.h:160:18, inlined from ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhoodOperator.hxx:113:43: /usr/include/ITK-5.2/itkSize.h:329:75: warning: array subscript 2 is above array bounds of ‘const itk::Size<2>::SizeValueType [2]’ {aka ‘const long unsigned int [2]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 329 | const_reference operator[](size_type pos) const { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = float; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<2>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In member function ‘const itk::Size::value_type& itk::Size::operator[](size_type) const [with unsigned int VDimension = 2]’, inlined from ‘itk::Neighborhood::SizeValueType itk::Neighborhood::GetSize(DimensionValueType) const [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhood.h:160:18, inlined from ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’ at /usr/include/ITK-5.2/itkNeighborhoodOperator.hxx:113:43: /usr/include/ITK-5.2/itkSize.h:329:75: warning: array subscript 2 is above array bounds of ‘const itk::Size<2>::SizeValueType [2]’ {aka ‘const long unsigned int [2]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 329 | const_reference operator[](size_type pos) const { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::NeighborhoodOperator::FillCenteredDirectional(const CoefficientVector&) [with TPixel = double; unsigned int VDimension = 2; TAllocator = itk::NeighborhoodAllocator]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<2>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In member function ‘itk::Size::value_type& itk::Size::operator[](size_type) [with unsigned int VDimension = 1]’, inlined from ‘void itk::ExtractImageFilter::SetExtractionRegion(InputImageRegionType) [with TInputImage = itk::Image; TOutputImage = itk::Image]’ at /usr/include/ITK-5.2/itkExtractImageFilter.hxx:86:17: /usr/include/ITK-5.2/itkSize.h:327:63: warning: array subscript 1 is above array bounds of ‘itk::Size<1>::SizeValueType [1]’ {aka ‘long unsigned int [1]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 327 | reference operator[](size_type pos) { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkSize.h: In member function ‘void itk::ExtractImageFilter::SetExtractionRegion(InputImageRegionType) [with TInputImage = itk::Image; TOutputImage = itk::Image]’: /usr/include/ITK-5.2/itkSize.h:227:40: note: while referencing ‘itk::Size<1>::m_InternalArray’ 227 | alignas(SizeValueType) SizeValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ In file included from /usr/include/ITK-5.2/itkContinuousIndex.h:22, from /usr/include/ITK-5.2/itkImageRegion.h:34: In member function ‘itk::Index::value_type& itk::Index::operator[](size_type) [with unsigned int VDimension = 1]’, inlined from ‘void itk::ExtractImageFilter::SetExtractionRegion(InputImageRegionType) [with TInputImage = itk::Image; TOutputImage = itk::Image]’ at /usr/include/ITK-5.2/itkExtractImageFilter.hxx:87:18: /usr/include/ITK-5.2/itkIndex.h:414:63: warning: array subscript 1 is above array bounds of ‘itk::Index<1>::IndexValueType [1]’ {aka ‘long int [1]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 414 | reference operator[](size_type pos) { return m_InternalArray[pos]; } | ~~~~~~~~~~~~~~~^ /usr/include/ITK-5.2/itkIndex.h: In member function ‘void itk::ExtractImageFilter::SetExtractionRegion(InputImageRegionType) [with TInputImage = itk::Image; TOutputImage = itk::Image]’: /usr/include/ITK-5.2/itkIndex.h:285:42: note: while referencing ‘itk::Index<1>::m_InternalArray’ 285 | alignas(IndexValueType) IndexValueType m_InternalArray[VDimension]; | ^~~~~~~~~~~~~~~ [ 4%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/ImageMathHelper3D.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/ImageMathHelper3D.cxx.o -MF CMakeFiles/antsUtilities.dir/ImageMathHelper3D.cxx.o.d -o CMakeFiles/antsUtilities.dir/ImageMathHelper3D.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ImageMathHelper3D.cxx [ 4%] Building CXX object Examples/CMakeFiles/antsUtilities.dir/ImageMathHelper4D.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -DantsUtilities_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/antsUtilities.dir/ImageMathHelper4D.cxx.o -MF CMakeFiles/antsUtilities.dir/ImageMathHelper4D.cxx.o.d -o CMakeFiles/antsUtilities.dir/ImageMathHelper4D.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ImageMathHelper4D.cxx In file included from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ImageMathHelper4D.cxx:1: /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ImageMath_Templates.hxx: In function ‘int ants::TimeSeriesToMatrix(int, char**) [with unsigned int ImageDimension = 4]’: /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ImageMath_Templates.hxx:3753:19: warning: array subscript 2 is outside array bounds of ‘itk::Image::IndexType [1]’ {aka ‘itk::Index<2> [1]’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Warray-bounds-Warray-bounds]8;;] 3753 | matind[2] = voxct; /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ImageMath_Templates.hxx:3750:45: note: at offset 16 into object ‘matind’ of size 16 3750 | typename MatrixImageType::IndexType matind; | ^~~~~~ [ 4%] Linking CXX shared library libantsUtilities.so cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/antsUtilities.dir/link.txt --verbose=1 /usr/bin/x86_64-pc-linux-gnu-g++ -fPIC -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fuse-ld=gold -fuse-ld=gold -Wl,-O1 -Wl,--as-needed -shared -Wl,-soname,libantsUtilities.so -o libantsUtilities.so CMakeFiles/antsUtilities.dir/antsUtilities.cxx.o 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/usr/lib64/libITKznz-5.2.so.1 /usr/lib64/libITKIONRRD-5.2.so.1 /usr/lib64/libITKNrrdIO-5.2.so.1 -lz /usr/lib64/libITKIOPNG-5.2.so.1 /usr/lib64/libITKIOVTK-5.2.so.1 /usr/lib64/libITKIOImageBase-5.2.so.1 /usr/lib64/libITKVideoCore-5.2.so.1 /usr/lib64/libITKCommon-5.2.so.1 /usr/lib64/libitksys-5.2.so.1 /usr/lib64/libITKVNLInstantiation-5.2.so.1 /usr/lib64/libitkvnl_algo-5.2.so.1 /usr/lib64/libitkvnl-5.2.so.1 /usr/lib64/libitkv3p_netlib-5.2.so.1 /usr/lib64/libitkvcl-5.2.so.1 -lm -lm -ldl make[5]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' [ 4%] Built target antsUtilities make -f Examples/CMakeFiles/l_antsAffineInitializer.dir/build.make Examples/CMakeFiles/l_antsAffineInitializer.dir/depend make -f Examples/CMakeFiles/l_antsJointFusion.dir/build.make Examples/CMakeFiles/l_antsJointFusion.dir/depend make -f Examples/CMakeFiles/l_DenoiseImage.dir/build.make Examples/CMakeFiles/l_DenoiseImage.dir/depend make -f 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"Unix Makefiles" /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples/CMakeFiles/l_sccan.dir/DependInfo.cmake --color= make[5]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples 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cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples/CMakeFiles/l_SurfaceBasedSmoothing.dir/DependInfo.cmake --color= cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1 /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples 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'/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' make[5]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' make[5]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' make[5]: Entering directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' [ 4%] Building CXX object Examples/CMakeFiles/l_antsJointFusion.dir/antsJointFusion.cxx.o [ 4%] Building CXX object Examples/CMakeFiles/l_DenoiseImage.dir/DenoiseImage.cxx.o [ 6%] Building CXX object Examples/CMakeFiles/l_SurfaceBasedSmoothing.dir/SurfaceBasedSmoothing.cxx.o [ 6%] Building CXX object Examples/CMakeFiles/l_ThresholdImage.dir/ThresholdImage.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -Dl_antsJointFusion_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/l_antsJointFusion.dir/antsJointFusion.cxx.o -MF CMakeFiles/l_antsJointFusion.dir/antsJointFusion.cxx.o.d -o CMakeFiles/l_antsJointFusion.dir/antsJointFusion.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsJointFusion.cxx cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -Dl_SurfaceBasedSmoothing_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/l_SurfaceBasedSmoothing.dir/SurfaceBasedSmoothing.cxx.o -MF CMakeFiles/l_SurfaceBasedSmoothing.dir/SurfaceBasedSmoothing.cxx.o.d -o CMakeFiles/l_SurfaceBasedSmoothing.dir/SurfaceBasedSmoothing.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/SurfaceBasedSmoothing.cxx cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -Dl_DenoiseImage_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/l_DenoiseImage.dir/DenoiseImage.cxx.o -MF CMakeFiles/l_DenoiseImage.dir/DenoiseImage.cxx.o.d -o CMakeFiles/l_DenoiseImage.dir/DenoiseImage.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/DenoiseImage.cxx cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -Dl_ThresholdImage_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/l_ThresholdImage.dir/ThresholdImage.cxx.o -MF CMakeFiles/l_ThresholdImage.dir/ThresholdImage.cxx.o.d -o CMakeFiles/l_ThresholdImage.dir/ThresholdImage.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ThresholdImage.cxx [ 6%] Building CXX object Examples/CMakeFiles/l_ResampleImage.dir/ResampleImage.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -Dl_ResampleImage_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/l_ResampleImage.dir/ResampleImage.cxx.o -MF CMakeFiles/l_ResampleImage.dir/ResampleImage.cxx.o.d -o CMakeFiles/l_ResampleImage.dir/ResampleImage.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/ResampleImage.cxx [ 6%] Building CXX object Examples/CMakeFiles/l_sccan.dir/sccan.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -Dl_sccan_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/l_sccan.dir/sccan.cxx.o -MF CMakeFiles/l_sccan.dir/sccan.cxx.o.d -o CMakeFiles/l_sccan.dir/sccan.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/sccan.cxx [ 6%] Building CXX object Examples/CMakeFiles/l_antsAffineInitializer.dir/antsAffineInitializer.cxx.o cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/x86_64-pc-linux-gnu-g++ -DH5_BUILT_AS_DYNAMIC_LIB -DITK_IO_FACTORY_REGISTER_MANAGER -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -D_POSIX_C_SOURCE=200809L -Dl_antsAffineInitializer_EXPORTS -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Temporary -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Tensor -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageRegistration -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Utilities -I/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/ITKFactoryRegistration -I/usr/include/openjpeg-2.5 -isystem /usr/include/gdcm-3.0 -isystem /usr/include/ITK-5.2 -isystem /usr/include/eigen3 -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fPIC -std=c++14 -MD -MT Examples/CMakeFiles/l_antsAffineInitializer.dir/antsAffineInitializer.cxx.o -MF CMakeFiles/l_antsAffineInitializer.dir/antsAffineInitializer.cxx.o.d -o CMakeFiles/l_antsAffineInitializer.dir/antsAffineInitializer.cxx.o -c /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsAffineInitializer.cxx /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/DenoiseImage.cxx:8:10: fatal error: itkAdaptiveNonLocalMeansDenoisingImageFilter.h: No such file or directory 8 | #include "itkAdaptiveNonLocalMeansDenoisingImageFilter.h" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ compilation terminated. make[5]: *** [Examples/CMakeFiles/l_DenoiseImage.dir/build.make:76: Examples/CMakeFiles/l_DenoiseImage.dir/DenoiseImage.cxx.o] Error 1 make[5]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' make[4]: *** [CMakeFiles/Makefile2:626: Examples/CMakeFiles/l_DenoiseImage.dir/all] Error 2 make[4]: *** Waiting for unfinished jobs.... In file included from /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/Examples/antsJointFusion.cxx:8: /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1/ImageSegmentation/itkWeightedVotingFusionImageFilter.h:21:10: fatal error: itkNonLocalPatchBasedImageFilter.h: No such file or directory 21 | #include "itkNonLocalPatchBasedImageFilter.h" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ compilation terminated. make[5]: *** [Examples/CMakeFiles/l_antsJointFusion.dir/build.make:76: Examples/CMakeFiles/l_antsJointFusion.dir/antsJointFusion.cxx.o] Error 1 make[5]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' make[4]: *** [CMakeFiles/Makefile2:573: Examples/CMakeFiles/l_antsJointFusion.dir/all] Error 2 [ 6%] Linking CXX shared library libl_SurfaceBasedSmoothing.so cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/l_SurfaceBasedSmoothing.dir/link.txt --verbose=1 /usr/bin/x86_64-pc-linux-gnu-g++ -fPIC -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fuse-ld=gold -fuse-ld=gold -Wl,-O1 -Wl,--as-needed -shared -Wl,-soname,libl_SurfaceBasedSmoothing.so.2 -o libl_SurfaceBasedSmoothing.so.v2.4.1 CMakeFiles/l_SurfaceBasedSmoothing.dir/SurfaceBasedSmoothing.cxx.o -Wl,-rpath,/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples: libantsUtilities.so /usr/lib64/libdouble-conversion.so.3.2.0 /usr/lib64/libITKColormap-5.2.so.1 /usr/lib64/libITKConvolution-5.2.so.1 /usr/lib64/libITKDICOMParser-5.2.so.1 /usr/lib64/libITKDenoising-5.2.so.1 /usr/lib64/libITKIOBruker-5.2.so.1 /usr/lib64/libITKIOCSV-5.2.so.1 /usr/lib64/libITKIOHDF5-5.2.so.1 /usr/lib64/libjpeg.so /usr/lib64/libITKIOJPEG2000-5.2.so.1 /usr/lib64/libtiff.so /usr/lib64/libITKIOLSM-5.2.so.1 /usr/lib64/libITKIOMINC-5.2.so.1 /usr/lib64/libitkminc2-5.2.so.1 -lrt /usr/lib64/libITKIOMRC-5.2.so.1 /usr/lib64/libpng.so /usr/lib64/libITKRegistrationMethodsv4-5.2.so.1 /usr/lib64/libITKOptimizersv4-5.2.so.1 /usr/lib64/libitklbfgs-5.2.so.1 /usr/lib64/libITKReview-5.2.so.1 /usr/lib64/libITKLabelMap-5.2.so.1 /usr/lib64/libITKFastMarching-5.2.so.1 /usr/lib64/libITKPolynomials-5.2.so.1 /usr/lib64/libITKBiasCorrection-5.2.so.1 /usr/lib64/libITKFFT-5.2.so.1 /usr/lib64/libITKDeformableMesh-5.2.so.1 /usr/lib64/libITKDiffusionTensorImage-5.2.so.1 /usr/lib64/libITKPDEDeformableRegistration-5.2.so.1 /usr/lib64/libITKImageFeature-5.2.so.1 /usr/lib64/libITKOptimizers-5.2.so.1 /usr/lib64/libITKIOBioRad-5.2.so.1 /usr/lib64/libITKIOGE-5.2.so.1 -lopenjp2 /usr/lib64/libITKIOSiemens-5.2.so.1 /usr/lib64/libITKIOIPL-5.2.so.1 /usr/lib64/libITKIOSpatialObjects-5.2.so.1 /usr/lib64/libITKIOXML-5.2.so.1 /usr/lib64/libITKIOStimulate-5.2.so.1 /usr/lib64/libITKIOTransformHDF5-5.2.so.1 /usr/lib64/libhdf5_cpp.so.200.1.0 /usr/lib64/libhdf5.so.200.1.0 /usr/lib64/libITKIOTransformInsightLegacy-5.2.so.1 /usr/lib64/libITKIOTransformMatlab-5.2.so.1 /usr/lib64/libITKIOTransformBase-5.2.so.1 /usr/lib64/libITKTransformFactory-5.2.so.1 /usr/lib64/libITKKLMRegionGrowing-5.2.so.1 /usr/lib64/libITKMarkovRandomFieldsClassifiers-5.2.so.1 /usr/lib64/libITKQuadEdgeMeshFiltering-5.2.so.1 /usr/lib64/libITKRegionGrowing-5.2.so.1 /usr/lib64/libITKVTK-5.2.so.1 /usr/lib64/libITKWatersheds-5.2.so.1 /usr/lib64/libITKSmoothing-5.2.so.1 /usr/lib64/libITKMathematicalMorphology-5.2.so.1 /usr/lib64/libITKStatistics-5.2.so.1 /usr/lib64/libitkNetlibSlatec-5.2.so.1 /usr/lib64/libITKSpatialObjects-5.2.so.1 /usr/lib64/libITKPath-5.2.so.1 /usr/lib64/libITKTestKernel-5.2.so.1 /usr/lib64/libITKIOBMP-5.2.so.1 /usr/lib64/libITKIOGDCM-5.2.so.1 /usr/lib64/libgdcmMSFF.so.3.0.14 /usr/lib64/libgdcmDICT.so.3.0.14 /usr/lib64/libgdcmIOD.so.3.0.14 /usr/lib64/libgdcmDSED.so.3.0.14 /usr/lib64/libgdcmCommon.so.3.0.14 /usr/lib64/libITKIOGIPL-5.2.so.1 /usr/lib64/libITKIOJPEG-5.2.so.1 /usr/lib64/libITKIOTIFF-5.2.so.1 /usr/lib64/libITKIOMeshBYU-5.2.so.1 /usr/lib64/libITKIOMeshFreeSurfer-5.2.so.1 /usr/lib64/libITKIOMeshGifti-5.2.so.1 /usr/lib64/libITKgiftiio-5.2.so.1 /usr/lib64/libexpat.so /usr/lib64/libITKIOMeshOBJ-5.2.so.1 /usr/lib64/libITKIOMeshOFF-5.2.so.1 /usr/lib64/libITKIOMeshVTK-5.2.so.1 /usr/lib64/libITKIOMeshBase-5.2.so.1 /usr/lib64/libITKQuadEdgeMesh-5.2.so.1 /usr/lib64/libITKMesh-5.2.so.1 /usr/lib64/libITKIOMeta-5.2.so.1 /usr/lib64/libITKMetaIO-5.2.so.1 /usr/lib64/libITKIONIFTI-5.2.so.1 /usr/lib64/libITKTransform-5.2.so.1 /usr/lib64/libITKniftiio-5.2.so.1 /usr/lib64/libITKznz-5.2.so.1 /usr/lib64/libITKIONRRD-5.2.so.1 /usr/lib64/libITKNrrdIO-5.2.so.1 -lz /usr/lib64/libITKIOPNG-5.2.so.1 /usr/lib64/libITKIOVTK-5.2.so.1 /usr/lib64/libITKVideoIO-5.2.so.1 /usr/lib64/libITKIOImageBase-5.2.so.1 /usr/lib64/libITKVideoCore-5.2.so.1 /usr/lib64/libITKCommon-5.2.so.1 /usr/lib64/libitksys-5.2.so.1 /usr/lib64/libITKVNLInstantiation-5.2.so.1 /usr/lib64/libitkvnl_algo-5.2.so.1 /usr/lib64/libitkvnl-5.2.so.1 /usr/lib64/libitkv3p_netlib-5.2.so.1 /usr/lib64/libitkvcl-5.2.so.1 -lm -lm -ldl cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/cmake -E cmake_symlink_library libl_SurfaceBasedSmoothing.so.v2.4.1 libl_SurfaceBasedSmoothing.so.2 libl_SurfaceBasedSmoothing.so make[5]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' [ 6%] Built target l_SurfaceBasedSmoothing [ 6%] Linking CXX shared library libl_ThresholdImage.so cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/l_ThresholdImage.dir/link.txt --verbose=1 /usr/bin/x86_64-pc-linux-gnu-g++ -fPIC -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fuse-ld=gold -fuse-ld=gold -Wl,-O1 -Wl,--as-needed -shared -Wl,-soname,libl_ThresholdImage.so.2 -o libl_ThresholdImage.so.v2.4.1 CMakeFiles/l_ThresholdImage.dir/ThresholdImage.cxx.o -Wl,-rpath,/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples: libantsUtilities.so /usr/lib64/libdouble-conversion.so.3.2.0 /usr/lib64/libITKColormap-5.2.so.1 /usr/lib64/libITKConvolution-5.2.so.1 /usr/lib64/libITKDICOMParser-5.2.so.1 /usr/lib64/libITKDenoising-5.2.so.1 /usr/lib64/libITKIOBruker-5.2.so.1 /usr/lib64/libITKIOCSV-5.2.so.1 /usr/lib64/libITKIOHDF5-5.2.so.1 /usr/lib64/libjpeg.so /usr/lib64/libITKIOJPEG2000-5.2.so.1 /usr/lib64/libtiff.so /usr/lib64/libITKIOLSM-5.2.so.1 /usr/lib64/libITKIOMINC-5.2.so.1 /usr/lib64/libitkminc2-5.2.so.1 -lrt /usr/lib64/libITKIOMRC-5.2.so.1 /usr/lib64/libpng.so /usr/lib64/libITKRegistrationMethodsv4-5.2.so.1 /usr/lib64/libITKOptimizersv4-5.2.so.1 /usr/lib64/libitklbfgs-5.2.so.1 /usr/lib64/libITKReview-5.2.so.1 /usr/lib64/libITKLabelMap-5.2.so.1 /usr/lib64/libITKFastMarching-5.2.so.1 /usr/lib64/libITKPolynomials-5.2.so.1 /usr/lib64/libITKBiasCorrection-5.2.so.1 /usr/lib64/libITKFFT-5.2.so.1 /usr/lib64/libITKDeformableMesh-5.2.so.1 /usr/lib64/libITKDiffusionTensorImage-5.2.so.1 /usr/lib64/libITKPDEDeformableRegistration-5.2.so.1 /usr/lib64/libITKImageFeature-5.2.so.1 /usr/lib64/libITKOptimizers-5.2.so.1 /usr/lib64/libITKIOBioRad-5.2.so.1 /usr/lib64/libITKIOGE-5.2.so.1 -lopenjp2 /usr/lib64/libITKIOSiemens-5.2.so.1 /usr/lib64/libITKIOIPL-5.2.so.1 /usr/lib64/libITKIOSpatialObjects-5.2.so.1 /usr/lib64/libITKIOXML-5.2.so.1 /usr/lib64/libITKIOStimulate-5.2.so.1 /usr/lib64/libITKIOTransformHDF5-5.2.so.1 /usr/lib64/libhdf5_cpp.so.200.1.0 /usr/lib64/libhdf5.so.200.1.0 /usr/lib64/libITKIOTransformInsightLegacy-5.2.so.1 /usr/lib64/libITKIOTransformMatlab-5.2.so.1 /usr/lib64/libITKIOTransformBase-5.2.so.1 /usr/lib64/libITKTransformFactory-5.2.so.1 /usr/lib64/libITKKLMRegionGrowing-5.2.so.1 /usr/lib64/libITKMarkovRandomFieldsClassifiers-5.2.so.1 /usr/lib64/libITKQuadEdgeMeshFiltering-5.2.so.1 /usr/lib64/libITKRegionGrowing-5.2.so.1 /usr/lib64/libITKVTK-5.2.so.1 /usr/lib64/libITKWatersheds-5.2.so.1 /usr/lib64/libITKSmoothing-5.2.so.1 /usr/lib64/libITKMathematicalMorphology-5.2.so.1 /usr/lib64/libITKStatistics-5.2.so.1 /usr/lib64/libitkNetlibSlatec-5.2.so.1 /usr/lib64/libITKSpatialObjects-5.2.so.1 /usr/lib64/libITKPath-5.2.so.1 /usr/lib64/libITKTestKernel-5.2.so.1 /usr/lib64/libITKIOBMP-5.2.so.1 /usr/lib64/libITKIOGDCM-5.2.so.1 /usr/lib64/libgdcmMSFF.so.3.0.14 /usr/lib64/libgdcmDICT.so.3.0.14 /usr/lib64/libgdcmIOD.so.3.0.14 /usr/lib64/libgdcmDSED.so.3.0.14 /usr/lib64/libgdcmCommon.so.3.0.14 /usr/lib64/libITKIOGIPL-5.2.so.1 /usr/lib64/libITKIOJPEG-5.2.so.1 /usr/lib64/libITKIOTIFF-5.2.so.1 /usr/lib64/libITKIOMeshBYU-5.2.so.1 /usr/lib64/libITKIOMeshFreeSurfer-5.2.so.1 /usr/lib64/libITKIOMeshGifti-5.2.so.1 /usr/lib64/libITKgiftiio-5.2.so.1 /usr/lib64/libexpat.so /usr/lib64/libITKIOMeshOBJ-5.2.so.1 /usr/lib64/libITKIOMeshOFF-5.2.so.1 /usr/lib64/libITKIOMeshVTK-5.2.so.1 /usr/lib64/libITKIOMeshBase-5.2.so.1 /usr/lib64/libITKQuadEdgeMesh-5.2.so.1 /usr/lib64/libITKMesh-5.2.so.1 /usr/lib64/libITKIOMeta-5.2.so.1 /usr/lib64/libITKMetaIO-5.2.so.1 /usr/lib64/libITKIONIFTI-5.2.so.1 /usr/lib64/libITKTransform-5.2.so.1 /usr/lib64/libITKniftiio-5.2.so.1 /usr/lib64/libITKznz-5.2.so.1 /usr/lib64/libITKIONRRD-5.2.so.1 /usr/lib64/libITKNrrdIO-5.2.so.1 -lz /usr/lib64/libITKIOPNG-5.2.so.1 /usr/lib64/libITKIOVTK-5.2.so.1 /usr/lib64/libITKVideoIO-5.2.so.1 /usr/lib64/libITKIOImageBase-5.2.so.1 /usr/lib64/libITKVideoCore-5.2.so.1 /usr/lib64/libITKCommon-5.2.so.1 /usr/lib64/libitksys-5.2.so.1 /usr/lib64/libITKVNLInstantiation-5.2.so.1 /usr/lib64/libitkvnl_algo-5.2.so.1 /usr/lib64/libitkvnl-5.2.so.1 /usr/lib64/libitkv3p_netlib-5.2.so.1 /usr/lib64/libitkvcl-5.2.so.1 -lm -lm -ldl cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/cmake -E cmake_symlink_library libl_ThresholdImage.so.v2.4.1 libl_ThresholdImage.so.2 libl_ThresholdImage.so make[5]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' [ 6%] Built target l_ThresholdImage [ 6%] Linking CXX shared library libl_sccan.so cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/l_sccan.dir/link.txt --verbose=1 /usr/bin/x86_64-pc-linux-gnu-g++ -fPIC -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fuse-ld=gold -fuse-ld=gold -Wl,-O1 -Wl,--as-needed -shared -Wl,-soname,libl_sccan.so.2 -o libl_sccan.so.v2.4.1 CMakeFiles/l_sccan.dir/sccan.cxx.o -Wl,-rpath,/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples: libantsUtilities.so /usr/lib64/libdouble-conversion.so.3.2.0 /usr/lib64/libITKColormap-5.2.so.1 /usr/lib64/libITKConvolution-5.2.so.1 /usr/lib64/libITKDICOMParser-5.2.so.1 /usr/lib64/libITKDenoising-5.2.so.1 /usr/lib64/libITKIOBruker-5.2.so.1 /usr/lib64/libITKIOCSV-5.2.so.1 /usr/lib64/libITKIOHDF5-5.2.so.1 /usr/lib64/libjpeg.so /usr/lib64/libITKIOJPEG2000-5.2.so.1 /usr/lib64/libtiff.so /usr/lib64/libITKIOLSM-5.2.so.1 /usr/lib64/libITKIOMINC-5.2.so.1 /usr/lib64/libitkminc2-5.2.so.1 -lrt /usr/lib64/libITKIOMRC-5.2.so.1 /usr/lib64/libpng.so /usr/lib64/libITKRegistrationMethodsv4-5.2.so.1 /usr/lib64/libITKOptimizersv4-5.2.so.1 /usr/lib64/libitklbfgs-5.2.so.1 /usr/lib64/libITKReview-5.2.so.1 /usr/lib64/libITKLabelMap-5.2.so.1 /usr/lib64/libITKFastMarching-5.2.so.1 /usr/lib64/libITKPolynomials-5.2.so.1 /usr/lib64/libITKBiasCorrection-5.2.so.1 /usr/lib64/libITKFFT-5.2.so.1 /usr/lib64/libITKDeformableMesh-5.2.so.1 /usr/lib64/libITKDiffusionTensorImage-5.2.so.1 /usr/lib64/libITKPDEDeformableRegistration-5.2.so.1 /usr/lib64/libITKImageFeature-5.2.so.1 /usr/lib64/libITKOptimizers-5.2.so.1 /usr/lib64/libITKIOBioRad-5.2.so.1 /usr/lib64/libITKIOGE-5.2.so.1 -lopenjp2 /usr/lib64/libITKIOSiemens-5.2.so.1 /usr/lib64/libITKIOIPL-5.2.so.1 /usr/lib64/libITKIOSpatialObjects-5.2.so.1 /usr/lib64/libITKIOXML-5.2.so.1 /usr/lib64/libITKIOStimulate-5.2.so.1 /usr/lib64/libITKIOTransformHDF5-5.2.so.1 /usr/lib64/libhdf5_cpp.so.200.1.0 /usr/lib64/libhdf5.so.200.1.0 /usr/lib64/libITKIOTransformInsightLegacy-5.2.so.1 /usr/lib64/libITKIOTransformMatlab-5.2.so.1 /usr/lib64/libITKIOTransformBase-5.2.so.1 /usr/lib64/libITKTransformFactory-5.2.so.1 /usr/lib64/libITKKLMRegionGrowing-5.2.so.1 /usr/lib64/libITKMarkovRandomFieldsClassifiers-5.2.so.1 /usr/lib64/libITKQuadEdgeMeshFiltering-5.2.so.1 /usr/lib64/libITKRegionGrowing-5.2.so.1 /usr/lib64/libITKVTK-5.2.so.1 /usr/lib64/libITKWatersheds-5.2.so.1 /usr/lib64/libITKSmoothing-5.2.so.1 /usr/lib64/libITKMathematicalMorphology-5.2.so.1 /usr/lib64/libITKStatistics-5.2.so.1 /usr/lib64/libitkNetlibSlatec-5.2.so.1 /usr/lib64/libITKSpatialObjects-5.2.so.1 /usr/lib64/libITKPath-5.2.so.1 /usr/lib64/libITKTestKernel-5.2.so.1 /usr/lib64/libITKIOBMP-5.2.so.1 /usr/lib64/libITKIOGDCM-5.2.so.1 /usr/lib64/libgdcmMSFF.so.3.0.14 /usr/lib64/libgdcmDICT.so.3.0.14 /usr/lib64/libgdcmIOD.so.3.0.14 /usr/lib64/libgdcmDSED.so.3.0.14 /usr/lib64/libgdcmCommon.so.3.0.14 /usr/lib64/libITKIOGIPL-5.2.so.1 /usr/lib64/libITKIOJPEG-5.2.so.1 /usr/lib64/libITKIOTIFF-5.2.so.1 /usr/lib64/libITKIOMeshBYU-5.2.so.1 /usr/lib64/libITKIOMeshFreeSurfer-5.2.so.1 /usr/lib64/libITKIOMeshGifti-5.2.so.1 /usr/lib64/libITKgiftiio-5.2.so.1 /usr/lib64/libexpat.so /usr/lib64/libITKIOMeshOBJ-5.2.so.1 /usr/lib64/libITKIOMeshOFF-5.2.so.1 /usr/lib64/libITKIOMeshVTK-5.2.so.1 /usr/lib64/libITKIOMeshBase-5.2.so.1 /usr/lib64/libITKQuadEdgeMesh-5.2.so.1 /usr/lib64/libITKMesh-5.2.so.1 /usr/lib64/libITKIOMeta-5.2.so.1 /usr/lib64/libITKMetaIO-5.2.so.1 /usr/lib64/libITKIONIFTI-5.2.so.1 /usr/lib64/libITKTransform-5.2.so.1 /usr/lib64/libITKniftiio-5.2.so.1 /usr/lib64/libITKznz-5.2.so.1 /usr/lib64/libITKIONRRD-5.2.so.1 /usr/lib64/libITKNrrdIO-5.2.so.1 -lz /usr/lib64/libITKIOPNG-5.2.so.1 /usr/lib64/libITKIOVTK-5.2.so.1 /usr/lib64/libITKVideoIO-5.2.so.1 /usr/lib64/libITKIOImageBase-5.2.so.1 /usr/lib64/libITKVideoCore-5.2.so.1 /usr/lib64/libITKCommon-5.2.so.1 /usr/lib64/libitksys-5.2.so.1 /usr/lib64/libITKVNLInstantiation-5.2.so.1 /usr/lib64/libitkvnl_algo-5.2.so.1 /usr/lib64/libitkvnl-5.2.so.1 /usr/lib64/libitkv3p_netlib-5.2.so.1 /usr/lib64/libitkvcl-5.2.so.1 -lm -lm -ldl cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/cmake -E cmake_symlink_library libl_sccan.so.v2.4.1 libl_sccan.so.2 libl_sccan.so make[5]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' [ 6%] Built target l_sccan [ 6%] Linking CXX shared library libl_antsAffineInitializer.so cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/l_antsAffineInitializer.dir/link.txt --verbose=1 /usr/bin/x86_64-pc-linux-gnu-g++ -fPIC -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fuse-ld=gold -fuse-ld=gold -Wl,-O1 -Wl,--as-needed -shared -Wl,-soname,libl_antsAffineInitializer.so.2 -o libl_antsAffineInitializer.so.v2.4.1 CMakeFiles/l_antsAffineInitializer.dir/antsAffineInitializer.cxx.o -Wl,-rpath,/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples: libantsUtilities.so /usr/lib64/libdouble-conversion.so.3.2.0 /usr/lib64/libITKColormap-5.2.so.1 /usr/lib64/libITKConvolution-5.2.so.1 /usr/lib64/libITKDICOMParser-5.2.so.1 /usr/lib64/libITKDenoising-5.2.so.1 /usr/lib64/libITKIOBruker-5.2.so.1 /usr/lib64/libITKIOCSV-5.2.so.1 /usr/lib64/libITKIOHDF5-5.2.so.1 /usr/lib64/libjpeg.so /usr/lib64/libITKIOJPEG2000-5.2.so.1 /usr/lib64/libtiff.so /usr/lib64/libITKIOLSM-5.2.so.1 /usr/lib64/libITKIOMINC-5.2.so.1 /usr/lib64/libitkminc2-5.2.so.1 -lrt /usr/lib64/libITKIOMRC-5.2.so.1 /usr/lib64/libpng.so /usr/lib64/libITKRegistrationMethodsv4-5.2.so.1 /usr/lib64/libITKOptimizersv4-5.2.so.1 /usr/lib64/libitklbfgs-5.2.so.1 /usr/lib64/libITKReview-5.2.so.1 /usr/lib64/libITKLabelMap-5.2.so.1 /usr/lib64/libITKFastMarching-5.2.so.1 /usr/lib64/libITKPolynomials-5.2.so.1 /usr/lib64/libITKBiasCorrection-5.2.so.1 /usr/lib64/libITKFFT-5.2.so.1 /usr/lib64/libITKDeformableMesh-5.2.so.1 /usr/lib64/libITKDiffusionTensorImage-5.2.so.1 /usr/lib64/libITKPDEDeformableRegistration-5.2.so.1 /usr/lib64/libITKImageFeature-5.2.so.1 /usr/lib64/libITKOptimizers-5.2.so.1 /usr/lib64/libITKIOBioRad-5.2.so.1 /usr/lib64/libITKIOGE-5.2.so.1 -lopenjp2 /usr/lib64/libITKIOSiemens-5.2.so.1 /usr/lib64/libITKIOIPL-5.2.so.1 /usr/lib64/libITKIOSpatialObjects-5.2.so.1 /usr/lib64/libITKIOXML-5.2.so.1 /usr/lib64/libITKIOStimulate-5.2.so.1 /usr/lib64/libITKIOTransformHDF5-5.2.so.1 /usr/lib64/libhdf5_cpp.so.200.1.0 /usr/lib64/libhdf5.so.200.1.0 /usr/lib64/libITKIOTransformInsightLegacy-5.2.so.1 /usr/lib64/libITKIOTransformMatlab-5.2.so.1 /usr/lib64/libITKIOTransformBase-5.2.so.1 /usr/lib64/libITKTransformFactory-5.2.so.1 /usr/lib64/libITKKLMRegionGrowing-5.2.so.1 /usr/lib64/libITKMarkovRandomFieldsClassifiers-5.2.so.1 /usr/lib64/libITKQuadEdgeMeshFiltering-5.2.so.1 /usr/lib64/libITKRegionGrowing-5.2.so.1 /usr/lib64/libITKVTK-5.2.so.1 /usr/lib64/libITKWatersheds-5.2.so.1 /usr/lib64/libITKSmoothing-5.2.so.1 /usr/lib64/libITKMathematicalMorphology-5.2.so.1 /usr/lib64/libITKStatistics-5.2.so.1 /usr/lib64/libitkNetlibSlatec-5.2.so.1 /usr/lib64/libITKSpatialObjects-5.2.so.1 /usr/lib64/libITKPath-5.2.so.1 /usr/lib64/libITKTestKernel-5.2.so.1 /usr/lib64/libITKIOBMP-5.2.so.1 /usr/lib64/libITKIOGDCM-5.2.so.1 /usr/lib64/libgdcmMSFF.so.3.0.14 /usr/lib64/libgdcmDICT.so.3.0.14 /usr/lib64/libgdcmIOD.so.3.0.14 /usr/lib64/libgdcmDSED.so.3.0.14 /usr/lib64/libgdcmCommon.so.3.0.14 /usr/lib64/libITKIOGIPL-5.2.so.1 /usr/lib64/libITKIOJPEG-5.2.so.1 /usr/lib64/libITKIOTIFF-5.2.so.1 /usr/lib64/libITKIOMeshBYU-5.2.so.1 /usr/lib64/libITKIOMeshFreeSurfer-5.2.so.1 /usr/lib64/libITKIOMeshGifti-5.2.so.1 /usr/lib64/libITKgiftiio-5.2.so.1 /usr/lib64/libexpat.so /usr/lib64/libITKIOMeshOBJ-5.2.so.1 /usr/lib64/libITKIOMeshOFF-5.2.so.1 /usr/lib64/libITKIOMeshVTK-5.2.so.1 /usr/lib64/libITKIOMeshBase-5.2.so.1 /usr/lib64/libITKQuadEdgeMesh-5.2.so.1 /usr/lib64/libITKMesh-5.2.so.1 /usr/lib64/libITKIOMeta-5.2.so.1 /usr/lib64/libITKMetaIO-5.2.so.1 /usr/lib64/libITKIONIFTI-5.2.so.1 /usr/lib64/libITKTransform-5.2.so.1 /usr/lib64/libITKniftiio-5.2.so.1 /usr/lib64/libITKznz-5.2.so.1 /usr/lib64/libITKIONRRD-5.2.so.1 /usr/lib64/libITKNrrdIO-5.2.so.1 -lz /usr/lib64/libITKIOPNG-5.2.so.1 /usr/lib64/libITKIOVTK-5.2.so.1 /usr/lib64/libITKVideoIO-5.2.so.1 /usr/lib64/libITKIOImageBase-5.2.so.1 /usr/lib64/libITKVideoCore-5.2.so.1 /usr/lib64/libITKCommon-5.2.so.1 /usr/lib64/libitksys-5.2.so.1 /usr/lib64/libITKVNLInstantiation-5.2.so.1 /usr/lib64/libitkvnl_algo-5.2.so.1 /usr/lib64/libitkvnl-5.2.so.1 /usr/lib64/libitkv3p_netlib-5.2.so.1 /usr/lib64/libitkvcl-5.2.so.1 -lm -lm -ldl cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/cmake -E cmake_symlink_library libl_antsAffineInitializer.so.v2.4.1 libl_antsAffineInitializer.so.2 libl_antsAffineInitializer.so make[5]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' [ 6%] Built target l_antsAffineInitializer [ 7%] Linking CXX shared library libl_ResampleImage.so cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/l_ResampleImage.dir/link.txt --verbose=1 /usr/bin/x86_64-pc-linux-gnu-g++ -fPIC -march=native -O2 -pipe -mtune=native -march=corei7 -Wall -Wcast-align -Wdisabled-optimization -Wextra -Wformat=2 -Winvalid-pch -Wno-format-nonliteral -Wpointer-arith -Wshadow -Wunused -Wwrite-strings -funit-at-a-time -Wno-strict-overflow -Wno-deprecated -Wno-invalid-offsetof -Woverloaded-virtual -Wstrict-null-sentinel -O2 -g -DNDEBUG -fuse-ld=gold -fuse-ld=gold -Wl,-O1 -Wl,--as-needed -shared -Wl,-soname,libl_ResampleImage.so.2 -o libl_ResampleImage.so.v2.4.1 CMakeFiles/l_ResampleImage.dir/ResampleImage.cxx.o -Wl,-rpath,/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples: libantsUtilities.so /usr/lib64/libdouble-conversion.so.3.2.0 /usr/lib64/libITKColormap-5.2.so.1 /usr/lib64/libITKConvolution-5.2.so.1 /usr/lib64/libITKDICOMParser-5.2.so.1 /usr/lib64/libITKDenoising-5.2.so.1 /usr/lib64/libITKIOBruker-5.2.so.1 /usr/lib64/libITKIOCSV-5.2.so.1 /usr/lib64/libITKIOHDF5-5.2.so.1 /usr/lib64/libjpeg.so /usr/lib64/libITKIOJPEG2000-5.2.so.1 /usr/lib64/libtiff.so /usr/lib64/libITKIOLSM-5.2.so.1 /usr/lib64/libITKIOMINC-5.2.so.1 /usr/lib64/libitkminc2-5.2.so.1 -lrt /usr/lib64/libITKIOMRC-5.2.so.1 /usr/lib64/libpng.so /usr/lib64/libITKRegistrationMethodsv4-5.2.so.1 /usr/lib64/libITKOptimizersv4-5.2.so.1 /usr/lib64/libitklbfgs-5.2.so.1 /usr/lib64/libITKReview-5.2.so.1 /usr/lib64/libITKLabelMap-5.2.so.1 /usr/lib64/libITKFastMarching-5.2.so.1 /usr/lib64/libITKPolynomials-5.2.so.1 /usr/lib64/libITKBiasCorrection-5.2.so.1 /usr/lib64/libITKFFT-5.2.so.1 /usr/lib64/libITKDeformableMesh-5.2.so.1 /usr/lib64/libITKDiffusionTensorImage-5.2.so.1 /usr/lib64/libITKPDEDeformableRegistration-5.2.so.1 /usr/lib64/libITKImageFeature-5.2.so.1 /usr/lib64/libITKOptimizers-5.2.so.1 /usr/lib64/libITKIOBioRad-5.2.so.1 /usr/lib64/libITKIOGE-5.2.so.1 -lopenjp2 /usr/lib64/libITKIOSiemens-5.2.so.1 /usr/lib64/libITKIOIPL-5.2.so.1 /usr/lib64/libITKIOSpatialObjects-5.2.so.1 /usr/lib64/libITKIOXML-5.2.so.1 /usr/lib64/libITKIOStimulate-5.2.so.1 /usr/lib64/libITKIOTransformHDF5-5.2.so.1 /usr/lib64/libhdf5_cpp.so.200.1.0 /usr/lib64/libhdf5.so.200.1.0 /usr/lib64/libITKIOTransformInsightLegacy-5.2.so.1 /usr/lib64/libITKIOTransformMatlab-5.2.so.1 /usr/lib64/libITKIOTransformBase-5.2.so.1 /usr/lib64/libITKTransformFactory-5.2.so.1 /usr/lib64/libITKKLMRegionGrowing-5.2.so.1 /usr/lib64/libITKMarkovRandomFieldsClassifiers-5.2.so.1 /usr/lib64/libITKQuadEdgeMeshFiltering-5.2.so.1 /usr/lib64/libITKRegionGrowing-5.2.so.1 /usr/lib64/libITKVTK-5.2.so.1 /usr/lib64/libITKWatersheds-5.2.so.1 /usr/lib64/libITKSmoothing-5.2.so.1 /usr/lib64/libITKMathematicalMorphology-5.2.so.1 /usr/lib64/libITKStatistics-5.2.so.1 /usr/lib64/libitkNetlibSlatec-5.2.so.1 /usr/lib64/libITKSpatialObjects-5.2.so.1 /usr/lib64/libITKPath-5.2.so.1 /usr/lib64/libITKTestKernel-5.2.so.1 /usr/lib64/libITKIOBMP-5.2.so.1 /usr/lib64/libITKIOGDCM-5.2.so.1 /usr/lib64/libgdcmMSFF.so.3.0.14 /usr/lib64/libgdcmDICT.so.3.0.14 /usr/lib64/libgdcmIOD.so.3.0.14 /usr/lib64/libgdcmDSED.so.3.0.14 /usr/lib64/libgdcmCommon.so.3.0.14 /usr/lib64/libITKIOGIPL-5.2.so.1 /usr/lib64/libITKIOJPEG-5.2.so.1 /usr/lib64/libITKIOTIFF-5.2.so.1 /usr/lib64/libITKIOMeshBYU-5.2.so.1 /usr/lib64/libITKIOMeshFreeSurfer-5.2.so.1 /usr/lib64/libITKIOMeshGifti-5.2.so.1 /usr/lib64/libITKgiftiio-5.2.so.1 /usr/lib64/libexpat.so /usr/lib64/libITKIOMeshOBJ-5.2.so.1 /usr/lib64/libITKIOMeshOFF-5.2.so.1 /usr/lib64/libITKIOMeshVTK-5.2.so.1 /usr/lib64/libITKIOMeshBase-5.2.so.1 /usr/lib64/libITKQuadEdgeMesh-5.2.so.1 /usr/lib64/libITKMesh-5.2.so.1 /usr/lib64/libITKIOMeta-5.2.so.1 /usr/lib64/libITKMetaIO-5.2.so.1 /usr/lib64/libITKIONIFTI-5.2.so.1 /usr/lib64/libITKTransform-5.2.so.1 /usr/lib64/libITKniftiio-5.2.so.1 /usr/lib64/libITKznz-5.2.so.1 /usr/lib64/libITKIONRRD-5.2.so.1 /usr/lib64/libITKNrrdIO-5.2.so.1 -lz /usr/lib64/libITKIOPNG-5.2.so.1 /usr/lib64/libITKIOVTK-5.2.so.1 /usr/lib64/libITKVideoIO-5.2.so.1 /usr/lib64/libITKIOImageBase-5.2.so.1 /usr/lib64/libITKVideoCore-5.2.so.1 /usr/lib64/libITKCommon-5.2.so.1 /usr/lib64/libitksys-5.2.so.1 /usr/lib64/libITKVNLInstantiation-5.2.so.1 /usr/lib64/libitkvnl_algo-5.2.so.1 /usr/lib64/libitkvnl-5.2.so.1 /usr/lib64/libitkv3p_netlib-5.2.so.1 /usr/lib64/libitkvcl-5.2.so.1 -lm -lm -ldl cd /var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build/Examples && /usr/bin/cmake -E cmake_symlink_library libl_ResampleImage.so.v2.4.1 libl_ResampleImage.so.2 libl_ResampleImage.so make[5]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' [ 7%] Built target l_ResampleImage make[4]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' make[3]: *** [Makefile:166: all] Error 2 make[3]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build/ANTS-build' make[2]: *** [CMakeFiles/ANTS.dir/build.make:88: ANTS-prefix/src/ANTS-stamp/ANTS-build] Error 2 make[2]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build' make[1]: *** [CMakeFiles/Makefile2:111: CMakeFiles/ANTS.dir/all] Error 2 make[1]: Leaving directory '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build' make: *** [Makefile:121: all] Error 2 * ERROR: sci-biology/ants-2.4.1::science failed (compile phase): * emake failed * * If you need support, post the output of `emerge --info '=sci-biology/ants-2.4.1::science'`, * the complete build log and the output of `emerge -pqv '=sci-biology/ants-2.4.1::science'`. * The complete build log is located at '/var/tmp/portage/sci-biology/ants-2.4.1/temp/build.log'. * The ebuild environment file is located at '/var/tmp/portage/sci-biology/ants-2.4.1/temp/environment'. * Working directory: '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1_build' * S: '/var/tmp/portage/sci-biology/ants-2.4.1/work/ANTs-2.4.1'