Hi Giuseppe,
gnu g++ compiler version 4.8.0 and 4.8.1 have a lot of bugs related to C11 supported. We suggest to use 4.8.2 or above. If you haven't available such compiler, then you can use our static pre-compiled version (which is compiled with 4.8.2): http://sourceforge.net/projects/erne/files/2.0/erne-2.0-linux.tar.gz/download
Best,
Cristian
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Hi all.
I got the following error at make step:
Making all in src
make[1]: Entering directory
/usr/local/src/software_scientifico/erne-2.0-source/src' /usr/local/gcc/4.8.0//gcc/bin/g++ -DPACKAGE_NAME=\"ERNE\" -DPACKAGE_TARNAME=\"erne\" -DPACKAGE_VERSION=\"2.0\" -DPACKAGE_STRING=\"ERNE\ 2.0\" -DPACKAGE_BUGREPORT=\"delfabbro@appliedgenomics.org\" -DPACKAGE_URL=\"http://erne.sourceforge.org\" -DPACKAGE=\"erne\" -DVERSION=\"2.0\" -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/\" -DHAVE_STDBOOL_H=1 -DHAVE_PTHREAD_H=1 -DHAVE_STDIO_H=1 -DHAVE_MATH_H=1 -DHAVE_LIMITS_H=1 -DHAVE_IOSTREAM=1 -DHAVE_FSTREAM=1 -DHAVE_STRING=1 -DHAVE_VECTOR=1 -DHAVE_EXCEPTION=1 -DHAVE_SSTREAM=1 -DHAVE_ZLIB_H=1 -DHAVE_BOOST=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_FILESYSTEM_PATH_HPP=1 -DHAVE_BOOST_IOSTREAMS_DEVICE_FILE_DESCRIPTOR_HPP=1 -DHAVE_BOOST_PROGRAM_OPTIONS_HPP=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_THREAD_HPP=1 -DHAVE_BOOST_REGEX_HPP=1 -DHAVE_BOOST_ARCHIVE_TEXT_OARCHIVE_HPP=1 -I. - fPIC -march=native -mtune=native -O2 -pipe -Wno-unused-local-typedefs -fpermissive -I/usr/local/gcc/4.8.0//boost/1.50.0/include -I/usr/local/gcc/4.8.0//openmpi/1.6.4/include -O3 -std=c++11 -I BWTIL/extern/bitvector/include/ -I BWTIL/data_structures/ -DNDEBUG -I/usr/local/gcc/4.8.0//boost/1.50.0/include -pthread -m64 -DCPU_64 -MT options/liberne_a-Options.o -MD -MP -MF options/.deps/liberne_a-Options.Tpo -c -o options/liberne_a-Options.otest -f 'options/Options.cpp' || echo './'options/Options.cpp mv -f options/.deps/liberne_a-Options.Tpo options/.deps/liberne_a-Options.Po /usr/local/gcc/4.8.0//gcc/bin/g++ -DPACKAGE_NAME=\"ERNE\" -DPACKAGE_TARNAME=\"erne\" -DPACKAGE_VERSION=\"2.0\" -DPACKAGE_STRING=\"ERNE\ 2.0\" -DPACKAGE_BUGREPORT=\"delfabbro@appliedgenomics.org\" -DPACKAGE_URL=\"http://erne.sourceforge.org\" -DPACKAGE=\"erne\" -DVERSION=\"2.0\" -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/\" -DHAVE_STDBOOL_H=1 -DHAVE_PTHREAD_H=1 -DHAVE_STDIO_H=1 -DHAVE_MATH_H=1 -DHAVE_LIMITS_H=1 -DHAVE_IOSTREAM=1 -DHAVE_FSTREAM=1 -DHAVE_STRING=1 -DHAVE_VECTOR=1 -DHAVE_EXCEPTION=1 -DHAVE_SSTREAM=1 -DHAVE_ZLIB_H=1 -DHAVE_BOOST=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_FILESYSTEM_PATH_HPP=1 -DHAVE_BOOST_IOSTREAMS_DEVICE_FILE_DESCRIPTOR_HPP=1 -DHAVE_BOOST_PROGRAM_OPTIONS_HPP=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_THREAD_HPP=1 -DHAVE_BOOST_REGEX_HPP=1 -DHAVE_BOOST_ARCHIVE_TEXT_OARCHIVE_HPP=1 -I. - fPIC -march=native -mtune=native -O2 -pipe -Wno-unused-local-typedefs -fpermissive -I/usr/local/gcc/4.8.0//boost/1.50.0/include -I/usr/local/gcc/4.8.0//openmpi/1.6.4/include -O3 -std=c++11 -I BWTIL/extern/bitvector/include/ -I BWTIL/data_structures/ -DNDEBUG -I/usr/local/gcc/4.8.0//boost/1.50.0/include -pthread -m64 -DCPU_64 -MT options/liberne_a-Options_MAP.o -MD -MP -MF options/.deps/liberne_a-Options_MAP.Tpo -c -o options/liberne_a-Options_MAP.otest -f 'options/Options_MAP.cpp' || echo './'options/Options_MAP.cpp mv -f options/.deps/liberne_a-Options_MAP.Tpo options/.deps/liberne_a-Options_MAP.Po /usr/local/gcc/4.8.0//gcc/bin/g++ -DPACKAGE_NAME=\"ERNE\" -DPACKAGE_TARNAME=\"erne\" -DPACKAGE_VERSION=\"2.0\" -DPACKAGE_STRING=\"ERNE\ 2.0\" -DPACKAGE_BUGREPORT=\"delfabbro@appliedgenomics.org\" -DPACKAGE_URL=\"http://erne.sourceforge.org\" -DPACKAGE=\"erne\" -DVERSION=\"2.0\" -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/\" -DHAVE_STDBOOL_H=1 -DHAVE_PTHREAD_H=1 -DHAVE_STDIO_H=1 -DHAVE_MATH_H=1 -DHAVE_LIMITS_H=1 -DHAVE_IOSTREAM=1 -DHAVE_FSTREAM=1 -DHAVE_STRING=1 -DHAVE_VECTOR=1 -DHAVE_EXCEPTION=1 -DHAVE_SSTREAM=1 -DHAVE_ZLIB_H=1 -DHAVE_BOOST=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_FILESYSTEM_PATH_HPP=1 -DHAVE_BOOST_IOSTREAMS_DEVICE_FILE_DESCRIPTOR_HPP=1 -DHAVE_BOOST_PROGRAM_OPTIONS_HPP=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_THREAD_HPP=1 -DHAVE_BOOST_REGEX_HPP=1 -DHAVE_BOOST_ARCHIVE_TEXT_OARCHIVE_HPP=1 -I. - fPIC -march=native -mtune=native -O2 -pipe -Wno-unused-local-typedefs -fpermissive -I/usr/local/gcc/4.8.0//boost/1.50.0/include -I/usr/local/gcc/4.8.0//openmpi/1.6.4/include -O3 -std=c++11 -I BWTIL/extern/bitvector/include/ -I BWTIL/data_structures/ -DNDEBUG -I/usr/local/gcc/4.8.0//boost/1.50.0/include -pthread -m64 -DCPU_64 -MT data_structures/liberne_a-Alignment.o -MD -MP -MF data_structures/.deps/liberne_a-Alignment.Tpo -c -o data_structures/liberne_a-Alignment.otest -f 'data_structures/Alignment.cpp' || echo './'data_structures/Alignment.cpp mv -f data_structures/.deps/liberne_a-Alignment.Tpo data_structures/.deps/liberne_a-Alignment.Po /usr/local/gcc/4.8.0//gcc/bin/g++ -DPACKAGE_NAME=\"ERNE\" -DPACKAGE_TARNAME=\"erne\" -DPACKAGE_VERSION=\"2.0\" -DPACKAGE_STRING=\"ERNE\ 2.0\" -DPACKAGE_BUGREPORT=\"delfabbro@appliedgenomics.org\" -DPACKAGE_URL=\"http://erne.sourceforge.org\" -DPACKAGE=\"erne\" -DVERSION=\"2.0\" -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/\" -DHAVE_STDBOOL_H=1 -DHAVE_PTHREAD_H=1 -DHAVE_STDIO_H=1 -DHAVE_MATH_H=1 -DHAVE_LIMITS_H=1 -DHAVE_IOSTREAM=1 -DHAVE_FSTREAM=1 -DHAVE_STRING=1 -DHAVE_VECTOR=1 -DHAVE_EXCEPTION=1 -DHAVE_SSTREAM=1 -DHAVE_ZLIB_H=1 -DHAVE_BOOST=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_FILESYSTEM_PATH_HPP=1 -DHAVE_BOOST_IOSTREAMS_DEVICE_FILE_DESCRIPTOR_HPP=1 -DHAVE_BOOST_PROGRAM_OPTIONS_HPP=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_THREAD_HPP=1 -DHAVE_BOOST_REGEX_HPP=1 -DHAVE_BOOST_ARCHIVE_TEXT_OARCHIVE_HPP=1 -I. - fPIC -march=native -mtune=native -O2 -pipe -Wno-unused-local-typedefs -fpermissive -I/usr/local/gcc/4.8.0//boost/1.50.0/include -I/usr/local/gcc/4.8.0//openmpi/1.6.4/include -O3 -std=c++11 -I BWTIL/extern/bitvector/include/ -I BWTIL/data_structures/ -DNDEBUG -I/usr/local/gcc/4.8.0//boost/1.50.0/include -pthread -m64 -DCPU_64 -MT data_structures/liberne_a-Read.o -MD -MP -MF data_structures/.deps/liberne_a-Read.Tpo -c -o data_structures/liberne_a-Read.otest -f 'data_structures/Read.cpp' || echo './'data_structures/Read.cpp mv -f data_structures/.deps/liberne_a-Read.Tpo data_structures/.deps/liberne_a-Read.Po /usr/local/gcc/4.8.0//gcc/bin/g++ -DPACKAGE_NAME=\"ERNE\" -DPACKAGE_TARNAME=\"erne\" -DPACKAGE_VERSION=\"2.0\" -DPACKAGE_STRING=\"ERNE\ 2.0\" -DPACKAGE_BUGREPORT=\"delfabbro@appliedgenomics.org\" -DPACKAGE_URL=\"http://erne.sourceforge.org\" -DPACKAGE=\"erne\" -DVERSION=\"2.0\" -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/\" -DHAVE_STDBOOL_H=1 -DHAVE_PTHREAD_H=1 -DHAVE_STDIO_H=1 -DHAVE_MATH_H=1 -DHAVE_LIMITS_H=1 -DHAVE_IOSTREAM=1 -DHAVE_FSTREAM=1 -DHAVE_STRING=1 -DHAVE_VECTOR=1 -DHAVE_EXCEPTION=1 -DHAVE_SSTREAM=1 -DHAVE_ZLIB_H=1 -DHAVE_BOOST=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_FILESYSTEM_PATH_HPP=1 -DHAVE_BOOST_IOSTREAMS_DEVICE_FILE_DESCRIPTOR_HPP=1 -DHAVE_BOOST_PROGRAM_OPTIONS_HPP=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_THREAD_HPP=1 -DHAVE_BOOST_REGEX_HPP=1 -DHAVE_BOOST_ARCHIVE_TEXT_OARCHIVE_HPP=1 -I. - fPIC -march=native -mtune=native -O2 -pipe -Wno-unused-local-typedefs -fpermissive -I/usr/local/gcc/4.8.0//boost/1.50.0/include -I/usr/local/gcc/4.8.0//openmpi/1.6.4/include -O3 -std=c++11 -I BWTIL/extern/bitvector/include/ -I BWTIL/data_structures/ -DNDEBUG -I/usr/local/gcc/4.8.0//boost/1.50.0/include -pthread -m64 -DCPU_64 -MT data_structures/liberne_a-GenericItem.o -MD -MP -MF data_structures/.deps/liberne_a-GenericItem.Tpo -c -o data_structures/liberne_a-GenericItem.otest -f 'data_structures/GenericItem.cpp' || echo './'data_structures/GenericItem.cpp mv -f data_structures/.deps/liberne_a-GenericItem.Tpo data_structures/.deps/liberne_a-GenericItem.Po /usr/local/gcc/4.8.0//gcc/bin/g++ -DPACKAGE_NAME=\"ERNE\" -DPACKAGE_TARNAME=\"erne\" -DPACKAGE_VERSION=\"2.0\" -DPACKAGE_STRING=\"ERNE\ 2.0\" -DPACKAGE_BUGREPORT=\"delfabbro@appliedgenomics.org\" -DPACKAGE_URL=\"http://erne.sourceforge.org\" -DPACKAGE=\"erne\" -DVERSION=\"2.0\" -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/\" -DHAVE_STDBOOL_H=1 -DHAVE_PTHREAD_H=1 -DHAVE_STDIO_H=1 -DHAVE_MATH_H=1 -DHAVE_LIMITS_H=1 -DHAVE_IOSTREAM=1 -DHAVE_FSTREAM=1 -DHAVE_STRING=1 -DHAVE_VECTOR=1 -DHAVE_EXCEPTION=1 -DHAVE_SSTREAM=1 -DHAVE_ZLIB_H=1 -DHAVE_BOOST=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_FILESYSTEM_PATH_HPP=1 -DHAVE_BOOST_IOSTREAMS_DEVICE_FILE_DESCRIPTOR_HPP=1 -DHAVE_BOOST_PROGRAM_OPTIONS_HPP=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_THREAD_HPP=1 -DHAVE_BOOST_REGEX_HPP=1 -DHAVE_BOOST_ARCHIVE_TEXT_OARCHIVE_HPP=1 -I. - fPIC -march=native -mtune=native -O2 -pipe -Wno-unused-local-typedefs -fpermissive -I/usr/local/gcc/4.8.0//boost/1.50.0/include -I/usr/local/gcc/4.8.0//openmpi/1.6.4/include -O3 -std=c++11 -I BWTIL/extern/bitvector/include/ -I BWTIL/data_structures/ -DNDEBUG -I/usr/local/gcc/4.8.0//boost/1.50.0/include -pthread -m64 -DCPU_64 -MT data_structures/liberne_a-GlobalToLocal.o -MD -MP -MF data_structures/.deps/liberne_a-GlobalToLocal.Tpo -c -o data_structures/liberne_a-GlobalToLocal.otest -f 'data_structures/GlobalToLocal.cpp' || echo './'data_structures/GlobalToLocal.cpp mv -f data_structures/.deps/liberne_a-GlobalToLocal.Tpo data_structures/.deps/liberne_a-GlobalToLocal.Po /usr/local/gcc/4.8.0//gcc/bin/g++ -DPACKAGE_NAME=\"ERNE\" -DPACKAGE_TARNAME=\"erne\" -DPACKAGE_VERSION=\"2.0\" -DPACKAGE_STRING=\"ERNE\ 2.0\" -DPACKAGE_BUGREPORT=\"delfabbro@appliedgenomics.org\" -DPACKAGE_URL=\"http://erne.sourceforge.org\" -DPACKAGE=\"erne\" -DVERSION=\"2.0\" -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/\" -DHAVE_STDBOOL_H=1 -DHAVE_PTHREAD_H=1 -DHAVE_STDIO_H=1 -DHAVE_MATH_H=1 -DHAVE_LIMITS_H=1 -DHAVE_IOSTREAM=1 -DHAVE_FSTREAM=1 -DHAVE_STRING=1 -DHAVE_VECTOR=1 -DHAVE_EXCEPTION=1 -DHAVE_SSTREAM=1 -DHAVE_ZLIB_H=1 -DHAVE_BOOST=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_FILESYSTEM_PATH_HPP=1 -DHAVE_BOOST_IOSTREAMS_DEVICE_FILE_DESCRIPTOR_HPP=1 -DHAVE_BOOST_PROGRAM_OPTIONS_HPP=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_THREAD_HPP=1 -DHAVE_BOOST_REGEX_HPP=1 -DHAVE_BOOST_ARCHIVE_TEXT_OARCHIVE_HPP=1 -I. - fPIC -march=native -mtune=native -O2 -pipe -Wno-unused-local-typedefs -fpermissive -I/usr/local/gcc/4.8.0//boost/1.50.0/include -I/usr/local/gcc/4.8.0//openmpi/1.6.4/include -O3 -std=c++11 -I BWTIL/extern/bitvector/include/ -I BWTIL/data_structures/ -DNDEBUG -I/usr/local/gcc/4.8.0//boost/1.50.0/include -pthread -m64 -DCPU_64 -MT data_structures/liberne_a-Hash.o -MD -MP -MF data_structures/.deps/liberne_a-Hash.Tpo -c -o data_structures/liberne_a-Hash.otest -f 'data_structures/Hash.cpp' || echo './'data_structures/Hash.cpp mv -f data_structures/.deps/liberne_a-Hash.Tpo data_structures/.deps/liberne_a-Hash.Po /usr/local/gcc/4.8.0//gcc/bin/g++ -DPACKAGE_NAME=\"ERNE\" -DPACKAGE_TARNAME=\"erne\" -DPACKAGE_VERSION=\"2.0\" -DPACKAGE_STRING=\"ERNE\ 2.0\" -DPACKAGE_BUGREPORT=\"delfabbro@appliedgenomics.org\" -DPACKAGE_URL=\"http://erne.sourceforge.org\" -DPACKAGE=\"erne\" -DVERSION=\"2.0\" -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/\" -DHAVE_STDBOOL_H=1 -DHAVE_PTHREAD_H=1 -DHAVE_STDIO_H=1 -DHAVE_MATH_H=1 -DHAVE_LIMITS_H=1 -DHAVE_IOSTREAM=1 -DHAVE_FSTREAM=1 -DHAVE_STRING=1 -DHAVE_VECTOR=1 -DHAVE_EXCEPTION=1 -DHAVE_SSTREAM=1 -DHAVE_ZLIB_H=1 -DHAVE_BOOST=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_FILESYSTEM_PATH_HPP=1 -DHAVE_BOOST_IOSTREAMS_DEVICE_FILE_DESCRIPTOR_HPP=1 -DHAVE_BOOST_PROGRAM_OPTIONS_HPP=1 -DHAVE_BOOST_SYSTEM_ERROR_CODE_HPP=1 -DHAVE_BOOST_THREAD_HPP=1 -DHAVE_BOOST_REGEX_HPP=1 -DHAVE_BOOST_ARCHIVE_TEXT_OARCHIVE_HPP=1 -I. - fPIC -march=native -mtune=native -O2 -pipe -Wno-unused-local-typedefs -fpermissive -I/usr/local/gcc/4.8.0//boost/1.50.0/include -I/usr/local/gcc/4.8.0//openmpi/1.6.4/include -O3 -std=c++11 -I BWTIL/extern/bitvector/include/ -I BWTIL/data_structures/ -DNDEBUG -I/usr/local/gcc/4.8.0//boost/1.50.0/include -pthread -m64 -DCPU_64 -MT data_structures/liberne_a-ERNEdBhash.o -MD -MP -MF data_structures/.deps/liberne_a-ERNEdBhash.Tpo -c -o data_structures/liberne_a-ERNEdBhash.otest -f 'data_structures/ERNEdBhash.cpp' || echo './'data_structures/ERNEdBhash.cpp In file included from BWTIL/data_structures/../common/../extern/bitvector/include/bitvector.h:129:0, from BWTIL/data_structures/../common/common.h:46, from BWTIL/data_structures/DBhash.h:27, from data_structures/ERNEdBhash.h:12, from data_structures/ERNEdBhash.cpp:8: BWTIL/data_structures/../common/../extern/bitvector/include/internal/bitvector.hpp: In instantiation of ‘std::tuple<long unsigned int, long unsigned int, long unsigned int> bv::internal::bt_impl<<anonymous>, <anonymous> >::find_adjacent_children(bv::internal::bt_impl<<anonymous>, <anonymous> >::subtree_const_ref, size_t) [with long unsigned int W = 2048ul; bv::allocation_policy_t AllocPolicy = (bv::allocation_policy_t)0u; bv::internal::bt_impl<<anonymous>, <anonymous> >::subtree_const_ref = bv::internal::bt_impl<2048ul, (bv::allocation_policy_t)0u>::subtree_ref_base<true>; size_t = long unsigned int]’: BWTIL/data_structures/../common/../extern/bitvector/include/internal/bitvector.hpp:899:73: required from ‘void bv::internal::bt_impl<<anonymous>, <anonymous> >::insert(bv::internal::bt_impl<<anonymous>, <anonymous> >::subtree_ref, size_t, bool) [with long unsigned int W = 2048ul; bv::allocation_policy_t AllocPolicy = (bv::allocation_policy_t)0u; size_t = long unsigned int]’ BWTIL/data_structures/../common/../extern/bitvector/include/internal/bitvector.hpp:1276:9: required from ‘void bv::bitvector_t<W, AllocPolicy>::insert(size_t, bool) [with long unsigned int W = 2048ul; bv::allocation_policy_t AllocPolicy = (bv::allocation_policy_t)0u; size_t = long unsigned int]’ BWTIL/data_structures/../algorithms/../data_structures/DynamicString.h:351:3: required from ‘void bwtil::DynamicString<bitvector_type>::insert(std::vector<bool>*, uint, uint, uint64_t) [with bitvector_type = bv::bitvector_t<2048ul>; uint = unsigned int; uint64_t = long unsigned int]’ BWTIL/data_structures/../algorithms/../data_structures/DynamicString.h:230:22: required from ‘void bwtil::DynamicString<bitvector_type>::insert(symbol, uint64_t) [with bitvector_type = bv::bitvector_t<2048ul>; symbol = unsigned char; uint64_t = long unsigned int]’ BWTIL/data_structures/../algorithms/cw_bwt.h:540:61: required from here BWTIL/data_structures/../common/../extern/bitvector/include/internal/bitvector.hpp:941:32: sorry, unimplemented: non-trivial designated initializers not supported const auto count = [&](size_t i) { ^ BWTIL/data_structures/../common/../extern/bitvector/include/internal/bitvector.hpp:941:32: sorry, unimplemented: non-trivial designated initializers not supported make[1]: *** [data_structures/liberne_a-ERNEdBhash.o] Error 1 make[1]: Leaving directory/usr/local/src/software_scientifico/erne-2.0-source/src'make: *** [all-recursive] Error 1
Do you have any idea about how to solve this error?
Any help will be really appreciated.
Hi Giuseppe,
gnu g++ compiler version 4.8.0 and 4.8.1 have a lot of bugs related to C11 supported. We suggest to use 4.8.2 or above. If you haven't available such compiler, then you can use our static pre-compiled version (which is compiled with 4.8.2):
http://sourceforge.net/projects/erne/files/2.0/erne-2.0-linux.tar.gz/download
Best,
Cristian
Hi Cristian (non manca un'"h"?),
I finally got gcc 4.8.3 and compiled successfully ERNE :D
Thanks a lot for your suggestion!!
Ciao,
Giuseppe
Hi Giuseppe,
I am glad that you solved. I hope you will find ERNE useful!
Ciao,
Cristian
(si scrive senza "h"!)