On Tue, Dec 1, 2020 at 3:00 AM nancyfor <[email protected]> wrote: > > Hi Christoph, > > I thought I was using gcc. I did not change anything on purpose. So, to be > a little bit more consistent, I checked again the gcc and the boost version > that worked together, and include the flag -DCMAKE_CXX_COMPILER_ID=GNU (is > this alright?) Currently I have the following modules uploaded: > > mkl/2020.1 > gromacs/2019.4 > doxygen/1.8 > cmake/3.15 > clang/10.0 > gcc/8 > boost/1.66 > libxc/4.3.4 > fftw-serial/3.3.8 > hdf5-serial/1.8.21 > > Un run the following with the new library paths (I have attached the > CMakeOutput.log and the output from "cmake -Bbuilddir ../votca" > output_cmake_Bbuildir.txt) > > cmake -Bbuilddir -DCMAKE_CXX_COMPILER_ID=GNU -DBUILD_CSGAPPS=ON > -DBUILD_XTP=ON > -DGROMACS_INCLUDE_DIR=/mpcdf/soft/SLE_12/packages/skylake/gromacs/gcc_8-8.4.0-impi_2019.7-2019.7.217/2019.4/include/ > > -DGROMACS_LIBRARY=/mpcdf/soft/SLE_12/packages/skylake/gromacs/gcc_8-8.4.0-impi_2019.7-2019.7.217/2019.4/lib64/libgromacs.a > > -DLIBXC_INCLUDE_DIR=/mpcdf/soft/SLE_12/packages/skylake/libxc/gcc_8-8.4.0/4.3.4/include/ > > -DLIBXC_LIBRARY=/mpcdf/soft/SLE_12/packages/skylake/libxc/gcc_8-8.4.0/4.3.4/lib/libxc.a > -DCMAKE_INSTALL_PREFIX=${prefix} ../votca > > and again when doing > cmake --build builddir --verbose > I get an error, different from the origina one I mentioned. The full output > is in cmake_verbose.txt Thanks, the cmake log says:
The C compiler identification is GNU 4.8.5 GCC 4.8.5 is unfortunately too old as it misses some C++-11 features, you mentioned a "gcc/8" in your first email, maybe you can try to use that one instead. I guess something like "-DCMAKE_CXX_COMPILER=g++-8" Christoph > > Thanks > Nancy > On Monday, 30 November 2020 at 17:08:19 UTC+1 Christoph Junghans wrote: >> >> Nancy, >> >> Are you trying to compile with gcc or icc? >> >> Could you attach the full output of "cmake -Bbuilddir ../votca" and >> "cmake --build builddir --verbose" (mind the extra "--verbose" here)? >> >> Thanks, >> >> Christoph >> >> On Mon, Nov 30, 2020 at 8:18 AM nancyfor <[email protected]> wrote: >> > >> > Hello everybody, >> > >> > I am trying to install votca version 1.6.2 in a supercomputer. After >> > succesffully configure using the following modules: >> > >> > intel/19.1.1 >> > impi/2019.7 >> > mkl/2020.1 >> > gromacs/2019.4 >> > libxc/4.3.4 >> > doxygen/1.8 >> > cmake/3.15 (version 3.13 incompatible with doxygen 1.8) >> > clang/10.0 >> > hdf5-serial/1.8.21 >> > fftw-serial/3.3.8 >> > boost/1.73 >> > with gcc version 9.3.0 >> > >> > and >> > >> > cmake -Bbuilddir -DBUILD_CSGAPPS=ON -DBUILD_XTP=ON >> > -DGROMACS_INCLUDE_DIR=/mpcdf/soft/SLE_12/packages/skylake/gromacs/gcc_8-8.4.0-impi_2019.7-2019.7.217/2019.4/include/ >> > >> > -DGROMACS_LIBRARY=/mpcdf/soft/SLE_12/packages/skylake/gromacs/gcc_8-8.4.0-impi_2019.7-2019.7.217/2019.4/lib64/libgromacs.a >> > >> > -DLIBXC_INCLUDE_DIR=/mpcdf/soft/SLE_12/packages/skylake/libxc/gcc_10-10.2.0/4.3.4/ >> > >> > -DLIBXC_LIBRARY=/mpcdf/soft/SLE_12/packages/skylake/libxc/gcc_10-10.2.0/4.3.4/lib/libxc.a >> > -DCMAKE_INSTALL_PREFIX=${prefix} ../votca >> > >> > However when I try to run >> > >> > cmake --build builddir >> > >> > I got the following: >> > >> > Current git revision is 9b6bbd0 >> > [ 0%] Built target gitversion-xtp >> > Current git revision is 9b6bbd0 >> > [ 0%] Built target gitversion >> > [ 0%] Building CXX object >> > tools/src/libtools/CMakeFiles/votca_tools.dir/application.cc.o >> > In file included from >> > /u/forero/src/votca/tools/include/votca/tools/property.h:23:0, >> > from /u/forero/src/votca/tools/include/votca/tools/application.h:21, >> > from /u/forero/src/votca/tools/src/libtools/application.cc:19: >> > /u/forero/src/votca/tools/include/votca/tools/tokenizer.h:107:3: error: >> > ‘unique_ptr’ in namespace ‘std’ does not name a type >> > std::unique_ptr<boost::tokenizer<boost::char_separator<char>>> tok; >> > ^ >> > /u/forero/src/votca/tools/include/votca/tools/tokenizer.h: In constructor >> > ‘votca::tools::Tokenizer::Tokenizer(const string&, const char*)’: >> > /u/forero/src/votca/tools/include/votca/tools/tokenizer.h:50:5: error: >> > ‘tok’ was not declared in this scope >> > tok = std::make_unique<boost::tokenizer<boost::char_separator<char>>>(_str, >> > ^ >> > /u/forero/src/votca/tools/include/votca/tools/tokenizer.h:50:11: error: >> > ‘make_unique’ is not a member of ‘std’ >> > tok = std::make_unique<boost::tokenizer<boost::char_separator<char>>>(_str, >> > ^ >> > /u/forero/src/votca/tools/include/votca/tools/tokenizer.h:50:73: error: >> > expected primary-expression before ‘>’ token >> > tok = std::make_unique<boost::tokenizer<boost::char_separator<char>>>(_str, >> > ^ >> > /u/forero/src/votca/tools/include/votca/tools/tokenizer.h:51:75: warning: >> > left operand of comma operator has no effect [-Wunused-value] >> > sep); >> > ^ >> > /u/forero/src/votca/tools/include/votca/tools/tokenizer.h: In member >> > function ‘votca::tools::Tokenizer::iterator >> > votca::tools::Tokenizer::begin()’: >> > /u/forero/src/votca/tools/include/votca/tools/tokenizer.h:60:29: error: >> > ‘tok’ was not declared in this scope >> > iterator begin() { return tok->begin(); } >> > ^ >> > /u/forero/src/votca/tools/include/votca/tools/tokenizer.h: In member >> > function ‘votca::tools::Tokenizer::iterator >> > votca::tools::Tokenizer::end()’: >> > /u/forero/src/votca/tools/include/votca/tools/tokenizer.h:65:27: error: >> > ‘tok’ was not declared in this scope >> > iterator end() { return tok->end(); } >> > ^ >> > In file included from >> > /u/forero/src/votca/tools/include/votca/tools/application.h:21:0, >> > from /u/forero/src/votca/tools/src/libtools/application.cc:19: >> > /u/forero/src/votca/tools/include/votca/tools/property.h: In constructor >> > ‘votca::tools::Property::Property(const string&, const string&, const >> > string&)’: >> > /u/forero/src/votca/tools/include/votca/tools/property.h:59:7: warning: >> > declaration of ‘path’ shadows a member of 'this' [-Wshadow] >> > : _name(name), _value(value), _path(path) {} >> > ^ >> > /u/forero/src/votca/tools/include/votca/tools/property.h:59:7: warning: >> > declaration of ‘value’ shadows a member of 'this' [-Wshadow] >> > /u/forero/src/votca/tools/include/votca/tools/property.h:59:7: warning: >> > declaration of ‘name’ shadows a member of 'this' [-Wshadow] >> > /u/forero/src/votca/tools/include/votca/tools/property.h: In member >> > function ‘votca::tools::Property& votca::tools::Property::set(const >> > string&, const string&)’: >> > /u/forero/src/votca/tools/include/votca/tools/property.h:248:56: warning: >> > declaration of ‘value’ shadows a member of 'this' [-Wshadow] >> > const std::string &value) { >> > ^ >> > /u/forero/src/votca/tools/include/votca/tools/property.h: In member >> > function ‘votca::tools::Property& votca::tools::Property::add(const >> > string&, const string&)’: >> > /u/forero/src/votca/tools/include/votca/tools/property.h:255:56: warning: >> > declaration of ‘value’ shadows a member of 'this' [-Wshadow] >> > const std::string &value) { >> > ^ >> > /u/forero/src/votca/tools/include/votca/tools/property.h:256:15: warning: >> > declaration of ‘path’ shadows a member of 'this' [-Wshadow] >> > std::string path = _path; >> > ^ >> > /u/forero/src/votca/tools/include/votca/tools/property.h: In member >> > function ‘void votca::tools::Property::setAttribute(const string&, const >> > T&)’: >> > /u/forero/src/votca/tools/include/votca/tools/property.h:420:50: warning: >> > declaration of ‘value’ shadows a member of 'this' [-Wshadow] >> > const T &value) { >> > ^ >> > tools/src/libtools/CMakeFiles/votca_tools.dir/build.make:75: recipe for >> > target 'tools/src/libtools/CMakeFiles/votca_tools.dir/application.cc.o' >> > failed >> > gmake[2]: *** >> > [tools/src/libtools/CMakeFiles/votca_tools.dir/application.cc.o] Error 1 >> > CMakeFiles/Makefile2:256: recipe for target >> > 'tools/src/libtools/CMakeFiles/votca_tools.dir/all' failed >> > gmake[1]: *** [tools/src/libtools/CMakeFiles/votca_tools.dir/all] Error 2 >> > Makefile:129: recipe for target 'all' failed >> > gmake: *** [all] Error 2 >> > >> > Does anyone have an idea of what might be the problem. I tried different >> > combinations of the gcc version and the boost without success. >> > >> > Best regards, >> > Nancy >> > >> > >> > >> > >> > >> > >> > >> > -- >> > Join us on Slack: https://join.slack.com/t/votca/signup >> > --- >> > You received this message because you are subscribed to the Google Groups >> > "votca" group. >> > To unsubscribe from this group and stop receiving emails from it, send an >> > email to [email protected]. >> > To view this discussion on the web visit >> > https://groups.google.com/d/msgid/votca/41e71c8f-bef2-4df9-85ae-dcdc81474176n%40googlegroups.com. >> >> >> >> -- >> Christoph Junghans >> Web: http://www.compphys.de > > -- > Join us on Slack: https://join.slack.com/t/votca/signup > --- > You received this message because you are subscribed to the Google Groups > "votca" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to [email protected]. > To view this discussion on the web visit > https://groups.google.com/d/msgid/votca/27db68be-a714-4e69-92e0-a990dc90014en%40googlegroups.com. -- Christoph Junghans Web: http://www.compphys.de -- Join us on Slack: https://join.slack.com/t/votca/signup --- You received this message because you are subscribed to the Google Groups "votca" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To view this discussion on the web visit https://groups.google.com/d/msgid/votca/CAHG27e6MJOP9iRWv6vnX6cQpFieibH63SLyqXuRB%3D15xJd3VCA%40mail.gmail.com.
