cave show -f scilab::science * sci-mathematics/scilab::science ::science 5.3.3-r1(~) 5.4.0(~)* {:0} sci-mathematics/scilab-5.4.0:0::science (world) Description Scientific software package for numerical computations Homepage http://www.scilab.org/ Herds sci-mathematics Long Description Scilab is a matrix-based scientific software package. Scilab contains hundreds of built-in mathematical functions, rich data structures (including polynomials, rationals,linear systems, lists, etc...) and comes with a number of specific toolboxes for control, signal processing, ... Use flags bash-completion -debug doc fftw gui matio nls openmp -static-libs tk umfpack xcos (-test) linguas: -ca_ES de -es_ES -fr_FR -it -ja -pl -pt_BR -ru -uk -zh_CN -zh_TW build_options: symbols=strip dwarf_compress -optional_tests -trace work=tidyup Overridden Masks Keywords ~amd64 ~x86 Building with the stock ebuild from science overlay: - fails to configure at -lblas and -llapack (same problem as in bug #466112) - scilab-bin does not link (see build log attachment) # zgrep "error:" 1366161542-install-sci-mathematics_scilab-5.4.0:0::science.out.gz [...] /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::basic_ostream<wchar_t, std::char_traits<wchar_t> >& std::basic_ostream<wchar_t, std::char_traits<wchar_t> >::_M_insert<unsigned long>(unsigned long)' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::istream::seekg(std::fpos<__mbstate_t>)' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::istream::tellg()' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::basic_stringstream<wchar_t, std::char_traits<wchar_t>, std::allocator<wchar_t> >::~basic_stringstream()' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::basic_iostream<wchar_t, std::char_traits<wchar_t> >::~basic_iostream()' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::basic_ios<wchar_t, std::char_traits<wchar_t> >::~basic_ios()' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::basic_ios<wchar_t, std::char_traits<wchar_t> >::clear(std::_Ios_Iostate)' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::basic_ostream<wchar_t, std::char_traits<wchar_t> >& std::__ostream_insert<wchar_t, std::char_traits<wchar_t> >(std::basic_ostream<wchar_t, std::char_traits<wchar_t> >&, wchar_t const*, long)' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/history_manager/.libs/libscihistory_manager.so: error: undefined reference to 'std::string::_M_mutate(unsigned long, unsigned long, unsigned long)' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'typeinfo for std::bad_alloc' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'VTT for std::basic_stringstream<char, std::char_traits<char>, std::allocator<char> >' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'vtable for std::basic_stringstream<char, std::char_traits<char>, std::allocator<char> >' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::ostream::put(char)' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::ostream::flush()' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::ctype<char>::_M_widen_init() const' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::__throw_bad_cast()' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::basic_stringstream<char, std::char_traits<char>, std::allocator<char> >::~basic_stringstream()' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to 'std::basic_iostream<char, std::char_traits<char> >::~basic_iostream()' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/.libs/libscilab-cli.so: error: undefined reference to '__cxa_demangle' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/completion/.libs/libscicompletion.so: error: undefined reference to 'vtable for __cxxabiv1::__vmi_class_type_info' /var/tmp/paludis/sci-mathematics-scilab-5.4.0/work/scilab-5.4.0/modules/completion/.libs/libscicompletion.so: error: undefined reference to '__cxa_pure_virtual' Reproducible: Always
Created attachment 345810 [details] build log 1366161542-install-sci-mathematics_scilab-5.4.0:0::science.out.gz
Created attachment 345812 [details, diff] scilab-5.4.0.ebuild.patch Add + # use CXX as a linker for scilab-bin + sed -e '/^CCLD/ s/CC)/CXX)/' \ + -i Makefile.in || die "failed to sed Makefile.in" prettify some other sed lines..
Can you show which error you get with lapack and blas during configure? The ebuild exports the variables BLAS_LIBS ans LAPACK_LIBS which contain the output pkg-config --libs blas and pkg-config --libs lapack respectively. If these variables are in the environment the configure script use them overy anything else, so there shouldn't be an issue (and this is unrelated to bug #466112). The package links fine with CCLD on my machine. It also works with your patch, so I could apply it I guess, but I don't see why it should be needed. Can you report it upstream? Maybe they can shed light on this.
(In reply to comment #3) > The package links fine with CCLD on my machine. It also works with your > patch, so I could apply it I guess, but I don't see why it should be needed. > Can you report it upstream? Maybe they can shed light on this. I'd point upstream here. Which compiler version do you use? I tested with 4.7.2-r1 - the errors in the build log clearly show that libstdc++ is not linked, which is due to gcc being used as a linker that does not default to use -lstdc++ Exporting BLAS_LIBS to the environment of the ebuild might be a portage/paludis issue, I'll have a look and report back..
(In reply to comment #3) > Can you show which error you get with lapack and blas during configure? The > ebuild exports the variables BLAS_LIBS ans LAPACK_LIBS which contain the > output pkg-config --libs blas and pkg-config --libs lapack respectively. This issue seems to be gone, configure script shows that variables are taken just as you've stated, see snippet below. I do not get linking errors anymore. But the CCLD issue remains. -->8-- checking if BLAS, ATLAS or MKL is available... checking how to get verbose linking output from x86_64-pc-linux-gnu-gfortran... -v checking for Fortran 77 libraries of x86_64-pc-linux-gnu-gfortran... -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.7.2 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.7.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.7.2/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.7.2/../../.. -lpthread -ldl -lcurses -lgfortran -lm -lquadmath checking for dummy main to link with Fortran 77 libraries... none checking for Fortran 77 name-mangling scheme... lower case, underscore, no extra underscore checking for sgemm_ in -L//opt/acml5.3.0/gfortran64_mp/lib -lacml_mp ... yes Using BLAS_LIBS environment variable found checking if LAPACK is available... checking for cheev_ in -L//opt/acml5.3.0/gfortran64_mp/lib -lacml_mp ... yes LAPACK_LIBS env variable found checking if ARPACK-NG is available... checking for znaupd_ in -larpack... yes ARPACK-NG library found --8<--
