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Macaulay2 / mathicgb

Compute (signature) Groebner bases using the fast datastructures from mathic.
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Fails to build with gcc 7 #8

Closed d-torrance closed 7 years ago

d-torrance commented 7 years ago

From Debian bug #853541:

The package fails to build in a test rebuild on at least amd64 with gcc-7/g++-7, but succeeds to build with gcc-6/g++-6. The severity of this report may be raised before the buster release. There is no need to fix this issue in time for the stretch release.

The full build log can be found at: http://people.debian.org/~doko/logs/gcc7-20170126/mathicgb_1.0~git20170104-1_unstable_gcc7.log The last lines of the build log are at the end of this report.

To build with GCC 7, either set CC=gcc-7 CXX=g++-7 explicitly, or install the gcc, g++, gfortran, ... packages from experimental.

apt-get -t=experimental install g++

Common build failures are new warnings resulting in build failures with -Werror turned on, or new/dropped symbols in Debian symbols files. For other C/C++ related build failures see the porting guide at http://gcc.gnu.org/gcc-7/porting_to.html

checking for ld used by g++... /usr/bin/ld -m elf_x86_64
checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating build/autotools/mathicgb.pc
config.status: executing depfiles commands
config.status: executing libtool commands
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
   dh_auto_build
    make -j1
make[1]: Entering directory '/<<PKGBUILDDIR>>'
/bin/bash ./libtool  --tag=CXX   --mode=compile g++ -DPACKAGE_NAME=\"mathicgb\" -DPACKAGE_TARNAME=\"mathicgb\" -DPACKAGE_VERSION=\"1.0\" -DPACKAGE_STRING=\"mathicgb\ 1.0\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_CXX11=1 -DPACKAGE=\"mathicgb\" -DVERSION=\"1.0\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I.  -I./ -I./src/ -I/usr/src/gtest/include -I/usr/src/gtest -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mathicgb/ReducerPack.lo src/mathicgb/ReducerPack.cpp
libtool: compile:  g++ -DPACKAGE_NAME=\"mathicgb\" -DPACKAGE_TARNAME=\"mathicgb\" -DPACKAGE_VERSION=\"1.0\" "-DPACKAGE_STRING=\"mathicgb 1.0\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_CXX11=1 -DPACKAGE=\"mathicgb\" -DVERSION=\"1.0\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I./ -I./src/ -I/usr/src/gtest/include -I/usr/src/gtest -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 "-fdebug-prefix-map=/<<PKGBUILDDIR>>=." -fstack-protector-strong -Wformat -Werror=format-security -c src/mathicgb/ReducerPack.cpp  -fPIC -DPIC -o src/mathicgb/.libs/ReducerPack.o
libtool: compile:  g++ -DPACKAGE_NAME=\"mathicgb\" -DPACKAGE_TARNAME=\"mathicgb\" -DPACKAGE_VERSION=\"1.0\" "-DPACKAGE_STRING=\"mathicgb 1.0\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_CXX11=1 -DPACKAGE=\"mathicgb\" -DVERSION=\"1.0\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I./ -I./src/ -I/usr/src/gtest/include -I/usr/src/gtest -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 "-fdebug-prefix-map=/<<PKGBUILDDIR>>=." -fstack-protector-strong -Wformat -Werror=format-security -c src/mathicgb/ReducerPack.cpp -o src/mathicgb/ReducerPack.o >/dev/null 2>&1
/bin/bash ./libtool  --tag=CXX   --mode=compile g++ -DPACKAGE_NAME=\"mathicgb\" -DPACKAGE_TARNAME=\"mathicgb\" -DPACKAGE_VERSION=\"1.0\" -DPACKAGE_STRING=\"mathicgb\ 1.0\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_CXX11=1 -DPACKAGE=\"mathicgb\" -DVERSION=\"1.0\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I.  -I./ -I./src/ -I/usr/src/gtest/include -I/usr/src/gtest -Wdate-time -D_FORTIFY_SOURCE=2  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o src/mathicgb/ClassicGBAlg.lo src/mathicgb/ClassicGBAlg.cpp
libtool: compile:  g++ -DPACKAGE_NAME=\"mathicgb\" -DPACKAGE_TARNAME=\"mathicgb\" -DPACKAGE_VERSION=\"1.0\" "-DPACKAGE_STRING=\"mathicgb 1.0\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_CXX11=1 -DPACKAGE=\"mathicgb\" -DVERSION=\"1.0\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -I. -I./ -I./src/ -I/usr/src/gtest/include -I/usr/src/gtest -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 "-fdebug-prefix-map=/<<PKGBUILDDIR>>=." -fstack-protector-strong -Wformat -Werror=format-security -c src/mathicgb/ClassicGBAlg.cpp  -fPIC -DPIC -o src/mathicgb/.libs/ClassicGBAlg.o
In file included from /usr/include/tbb/tbb.h:65:0,
                 from src/mathicgb/mtbb.hpp:7,
                 from src/mathicgb/LogDomain.hpp:6,
                 from src/mathicgb/ClassicGBAlg.cpp:10:
/usr/include/tbb/pipeline.h:328:74: error: 'has_trivial_copy_constructor' is not a member of 'std'
 template<typename T> struct tbb_trivially_copyable { enum { value = std::has_trivial_copy_constructor<T>::value }; };
                                                                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/tbb/pipeline.h:328:74: note: suggested alternative: 'is_trivially_copy_constructible'
 template<typename T> struct tbb_trivially_copyable { enum { value = std::has_trivial_copy_constructor<T>::value }; };
                                                                          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
                                                                          is_trivially_copy_constructible
/usr/include/tbb/pipeline.h:328:104: error: expected primary-expression before '>' token
 template<typename T> struct tbb_trivially_copyable { enum { value = std::has_trivial_copy_constructor<T>::value }; };
                                                                                                        ^
/usr/include/tbb/pipeline.h:328:107: error: '::value' has not been declared
 template<typename T> struct tbb_trivially_copyable { enum { value = std::has_trivial_copy_constructor<T>::value }; };
                                                                                                           ^~~~~
Makefile:1107: recipe for target 'src/mathicgb/ClassicGBAlg.lo' failed
make[1]: *** [src/mathicgb/ClassicGBAlg.lo] Error 1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_build: make -j1 returned exit code 2
debian/rules:8: recipe for target 'binary' failed
make: *** [binary] Error 2
dpkg-buildpackage: error: fakeroot debian/rules binary gave error exit status 2
d-torrance commented 7 years ago

Closing. This was actually an issue with TBB.