2017-01-31 17:25 GMT-05:00 Sikandar Mashayak <[email protected]>: > Hi, > > In the case of buildtb.log, the errors seem to be caused by Boost 1.41.0 > library, however, if you build with later versions of Boost, e.g., 1.58.0, > build is successful. @ Christoph, is this expected from Boost 1.41.0? boost-1.14.1 is very old (2009), but should be fine. However the gcc is 4.9.2 (rather new) and it might be the combination of both.
Alireza, 1.) if you have multiple versions of gcc and boost on the cluster, try different combinations. 2.) Plus, I updated build.sh to log stderr as well, so could you download the latest version (build.sh v2.1.3) and reproduce the error in an empty directory and send us that log, too. Christoph > > Thanks, > Sikandar > > On Tue, Jan 31, 2017 at 3:48 PM, Alireza Moradzadeh <[email protected]> > wrote: >> >> I attached the files. >> >> >> Best Regards, >> Alireza Moradzadeh >> >> >> On Tue, Jan 31, 2017 at 3:23 PM, Christoph Junghans <[email protected]> >> wrote: >>> >>> 2017-01-31 15:55 GMT-05:00 Alireza Moradzadeh <[email protected]>: >>> > I am trying to install in a cluster, which I previously worked and on >>> > another Supercomputer. I attach both error file from CMakeFiles. >>> Unfortunately, the files in CMakeFiles have very little useful >>> information. >>> I need the full output of build.sh use: >>> $ ./build.sh --verbose --log build.log tools >>> and send the build.log. >>> Plus, the CMakeCache.txt from tools would be nice, too. >>> >>> Christoph >>> > >>> > >>> > Best Regards, >>> > Alireza Moradzadeh >>> > >>> > >>> > On Tue, Jan 31, 2017 at 1:04 PM, Christoph Junghans >>> > <[email protected]> >>> > wrote: >>> >> >>> >> 2017-01-31 13:49 GMT-05:00 Alireza Moradzadeh <[email protected]>: >>> >> > I am using boost/1.51.0. Basically, I exactly repeat instruction in >>> >> > the >>> >> > handout. >>> >> What version of VOTCA? >>> >> And is this a fresh checkout? >>> >> Can you attach the full output of build.sh? >>> >> >>> >> Christoph >>> >> >>> >> Christoph >>> >> > Thanks, >>> >> > Alireza >>> >> > >>> >> > On Tuesday, January 31, 2017 at 7:58:24 AM UTC-6, Christoph Junghans >>> >> > wrote: >>> >> >> >>> >> >> 2017-01-30 20:33 GMT-05:00 Alireza Moradzadeh <[email protected]>: >>> >> >> > Dear VOTCA Users, >>> >> >> > >>> >> >> > I get an error in installation of votca, any solution is highly >>> >> >> > appreicated. >>> >> >> Which version of boost are you using? Which version of VOTCA are >>> >> >> you >>> >> >> trying to build? >>> >> >> And did you build from scratch? (Otherwise try a fresh checkout or >>> >> >> the >>> >> >> build.sh options "--clean-out" or "--clean-ignored") >>> >> >> >>> >> >> Christoph >>> >> >> > >>> >> >> > Thanks, >>> >> >> > Alireza >>> >> >> > >>> >> >> > Scanning dependencies of target votca_property >>> >> >> > [ 97%] Building CXX object >>> >> >> > src/tools/CMakeFiles/votca_property.dir/votca_property.cc.o >>> >> >> > Linking CXX executable votca_property >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o: In function >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::validation_error::validation_error(boost::program_options::validation_error::kind_t, >>> >> >> > std::string const&, std::string const&, int)': >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > votca_property.cc:(.text._ZN5boost15program_options16validation_errorC2ENS1_6kind_tERKSsS4_i[_ZN5boost15program_options16validation_errorC5ENS1_6kind_tERKSsS4_i]+0x21): >>> >> >> > undefined reference to >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::validation_error::get_template(boost::program_options::validation_error::kind_t)' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > votca_property.cc:(.text._ZN5boost15program_options16validation_errorC2ENS1_6kind_tERKSsS4_i[_ZN5boost15program_options16validation_errorC5ENS1_6kind_tERKSsS4_i]+0x39): >>> >> >> > undefined reference to >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::error_with_option_name::error_with_option_name(std::string >>> >> >> > const&, std::string const&, std::string const&, int)' >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o: In function >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::error_with_option_name::~error_with_option_name()': >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > votca_property.cc:(.text._ZN5boost15program_options22error_with_option_nameD2Ev[_ZN5boost15program_options22error_with_option_nameD5Ev]+0x12): >>> >> >> > undefined reference to `vtable for >>> >> >> > boost::program_options::error_with_option_name' >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o: In function >>> >> >> > `boost::program_options::validation_error::~validation_error()': >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > votca_property.cc:(.text._ZN5boost15program_options16validation_errorD2Ev[_ZN5boost15program_options16validation_errorD5Ev]+0x12): >>> >> >> > undefined reference to `vtable for >>> >> >> > boost::program_options::error_with_option_name' >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o: In function >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::invalid_option_value::~invalid_option_value()': >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > votca_property.cc:(.text._ZN5boost15program_options20invalid_option_valueD2Ev[_ZN5boost15program_options20invalid_option_valueD5Ev]+0x12): >>> >> >> > undefined reference to `vtable for >>> >> >> > boost::program_options::error_with_option_name' >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o: In function >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::error_with_option_name::~error_with_option_name()': >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > votca_property.cc:(.text._ZN5boost15program_options22error_with_option_nameD0Ev[_ZN5boost15program_options22error_with_option_nameD5Ev]+0x12): >>> >> >> > undefined reference to `vtable for >>> >> >> > boost::program_options::error_with_option_name' >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o: In function >>> >> >> > `boost::program_options::validation_error::~validation_error()': >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > votca_property.cc:(.text._ZN5boost15program_options16validation_errorD0Ev[_ZN5boost15program_options16validation_errorD5Ev]+0x12): >>> >> >> > undefined reference to `vtable for >>> >> >> > boost::program_options::error_with_option_name' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:votca_property.cc:(.text._ZN5boost15program_options20invalid_option_valueD0Ev[_ZN5boost15program_options20invalid_option_valueD5Ev]+0x12): >>> >> >> > more undefined references to `vtable for >>> >> >> > boost::program_options::error_with_option_name' follow >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail19error_info_injectorINS_15program_options20invalid_option_valueEEE[_ZTVN5boost16exception_detail19error_info_injectorINS_15program_options20invalid_option_valueEEE]+0x20): >>> >> >> > undefined reference to >>> >> >> > `boost::program_options::error_with_option_name::what() const' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail19error_info_injectorINS_15program_options20invalid_option_valueEEE[_ZTVN5boost16exception_detail19error_info_injectorINS_15program_options20invalid_option_valueEEE]+0x30): >>> >> >> > undefined reference to >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::error_with_option_name::substitute_placeholders(std::string >>> >> >> > const&) const' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options20invalid_option_valueEEEEE[_ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options20invalid_option_valueEEEEE]+0x28): >>> >> >> > undefined reference to >>> >> >> > `boost::program_options::error_with_option_name::what() const' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options20invalid_option_valueEEEEE[_ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options20invalid_option_valueEEEEE]+0x38): >>> >> >> > undefined reference to >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::error_with_option_name::substitute_placeholders(std::string >>> >> >> > const&) const' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail19error_info_injectorINS_15program_options16validation_errorEEE[_ZTVN5boost16exception_detail19error_info_injectorINS_15program_options16validation_errorEEE]+0x20): >>> >> >> > undefined reference to >>> >> >> > `boost::program_options::error_with_option_name::what() const' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail19error_info_injectorINS_15program_options16validation_errorEEE[_ZTVN5boost16exception_detail19error_info_injectorINS_15program_options16validation_errorEEE]+0x30): >>> >> >> > undefined reference to >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::error_with_option_name::substitute_placeholders(std::string >>> >> >> > const&) const' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options16validation_errorEEEEE[_ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options16validation_errorEEEEE]+0x28): >>> >> >> > undefined reference to >>> >> >> > `boost::program_options::error_with_option_name::what() const' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options16validation_errorEEEEE[_ZTVN5boost16exception_detail10clone_implINS0_19error_info_injectorINS_15program_options16validation_errorEEEEE]+0x38): >>> >> >> > undefined reference to >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::error_with_option_name::substitute_placeholders(std::string >>> >> >> > const&) const' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTIN5boost15program_options16validation_errorE[_ZTIN5boost15program_options16validation_errorE]+0x10): >>> >> >> > undefined reference to `typeinfo for >>> >> >> > boost::program_options::error_with_option_name' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost15program_options16validation_errorE[_ZTVN5boost15program_options16validation_errorE]+0x20): >>> >> >> > undefined reference to >>> >> >> > `boost::program_options::error_with_option_name::what() const' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost15program_options16validation_errorE[_ZTVN5boost15program_options16validation_errorE]+0x30): >>> >> >> > undefined reference to >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::error_with_option_name::substitute_placeholders(std::string >>> >> >> > const&) const' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost15program_options20invalid_option_valueE[_ZTVN5boost15program_options20invalid_option_valueE]+0x20): >>> >> >> > undefined reference to >>> >> >> > `boost::program_options::error_with_option_name::what() const' >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > CMakeFiles/votca_property.dir/votca_property.cc.o:(.rodata._ZTVN5boost15program_options20invalid_option_valueE[_ZTVN5boost15program_options20invalid_option_valueE]+0x30): >>> >> >> > undefined reference to >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::error_with_option_name::substitute_placeholders(std::string >>> >> >> > const&) const' >>> >> >> > ../libtools/libvotca_tools.so.5: undefined reference to >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::options_description::options_description(std::string >>> >> >> > const&, unsigned int, unsigned int)' >>> >> >> > ../libtools/libvotca_tools.so.5: undefined reference to >>> >> >> > `boost::system::system_category()' >>> >> >> > ../libtools/libvotca_tools.so.5: undefined reference to >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::detail::cmdline::get_canonical_option_prefix()' >>> >> >> > ../libtools/libvotca_tools.so.5: undefined reference to >>> >> >> > `boost::system::generic_category()' >>> >> >> > ../libtools/libvotca_tools.so.5: undefined reference to >>> >> >> > `boost::filesystem::path::operator/=(boost::filesystem::path >>> >> >> > const&)' >>> >> >> > ../libtools/libvotca_tools.so.5: undefined reference to >>> >> >> > >>> >> >> > >>> >> >> > >>> >> >> > `boost::program_options::options_description::options_description(unsigned >>> >> >> > int, unsigned int)' >>> >> >> > collect2: error: ld returned 1 exit status >>> >> >> > make[2]: *** [src/tools/votca_property] Error 1 >>> >> >> > make[1]: *** [src/tools/CMakeFiles/votca_property.dir/all] Error >>> >> >> > 2 >>> >> >> > >>> >> >> > -- >>> >> >> > 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 post to this group, send email to [email protected]. >>> >> >> > Visit this group at https://groups.google.com/group/votca. >>> >> >> > For more options, visit https://groups.google.com/d/optout. >>> >> >> >>> >> >> >>> >> >> >>> >> >> -- >>> >> >> Christoph Junghans >>> >> >> Web: http://www.compphys.de >>> >> > >>> >> > -- >>> >> > 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 post to this group, send email to [email protected]. >>> >> > Visit this group at https://groups.google.com/group/votca. >>> >> > For more options, visit https://groups.google.com/d/optout. >>> >> >>> >> >>> >> >>> >> -- >>> >> Christoph Junghans >>> >> Web: http://www.compphys.de >>> >> >>> >> -- >>> >> You received this message because you are subscribed to a topic in the >>> >> Google Groups "votca" group. >>> >> To unsubscribe from this topic, visit >>> >> https://groups.google.com/d/topic/votca/aLyUgGyNQxs/unsubscribe. >>> >> To unsubscribe from this group and all its topics, send an email to >>> >> [email protected]. >>> >> To post to this group, send email to [email protected]. >>> >> Visit this group at https://groups.google.com/group/votca. >>> >> For more options, visit https://groups.google.com/d/optout. >>> > >>> > >>> > -- >>> > 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 post to this group, send email to [email protected]. >>> > Visit this group at https://groups.google.com/group/votca. >>> > For more options, visit https://groups.google.com/d/optout. >>> >>> >>> >>> -- >>> Christoph Junghans >>> Web: http://www.compphys.de >>> >>> -- >>> You received this message because you are subscribed to a topic in the >>> Google Groups "votca" group. >>> To unsubscribe from this topic, visit >>> https://groups.google.com/d/topic/votca/aLyUgGyNQxs/unsubscribe. >>> To unsubscribe from this group and all its topics, send an email to >>> [email protected]. >>> To post to this group, send email to [email protected]. >>> Visit this group at https://groups.google.com/group/votca. >>> For more options, visit https://groups.google.com/d/optout. >> >> >> -- >> 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 post to this group, send email to [email protected]. >> Visit this group at https://groups.google.com/group/votca. >> For more options, visit https://groups.google.com/d/optout. > > > -- > 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 post to this group, send email to [email protected]. > Visit this group at https://groups.google.com/group/votca. > For more options, visit https://groups.google.com/d/optout. -- Christoph Junghans Web: http://www.compphys.de -- 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 post to this group, send email to [email protected]. Visit this group at https://groups.google.com/group/votca. For more options, visit https://groups.google.com/d/optout.
