On Wed, Jan 21, 2015 at 12:34 AM, Jan Blechta <[email protected]> wrote: > [Please, keep [email protected] in CC.] > > On Tue, 20 Jan 2015 18:10:36 -0500 > Adrian Butscher <[email protected]> wrote: > >> Hi, >> >> My apologies: >> >> FEniCS = Stable release 1.5.0, the one that is immediately accessible >> on the downloads page, i.e. without going to “older releases.” >> >> Before giving the contents of the log file, let me mention that a >> fellow FEniCS user has told me that the older release 1.4 does not >> have the problem I’ve described. So I installed the older version >> and tried out the demos — they work fine! > > Yes, it really looks like a bug in a binary package. See below. > Thanks for reporting it! > >> >> The contents of the 1.5.0 log file are here: >> >> -------------------- >> >> -- The C compiler identification is Clang 6.0.0 >> -- The CXX compiler identification is Clang 6.0.0 >> -- Check for working C compiler: /usr/bin/gcc >> -- Check for working C compiler: /usr/bin/gcc -- works >> -- Detecting C compiler ABI info >> -- Detecting C compiler ABI info - done >> -- Check for working CXX compiler: /usr/bin/g++ >> -- Check for working CXX compiler: /usr/bin/g++ -- works >> -- Detecting CXX compiler ABI info >> -- Detecting CXX compiler ABI info - done >> -- Found SWIG: /Applications/FEniCS.app/Contents/Resources/bin/swig >> (found version "2.0.8") -- Configuring done >> -- Generating done >> CMake Warning: >> Manually-specified variables were not used by the project: >> >> DEBUG >> >> >> -- Build files have been written >> to: >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> /Applications/FEniCS.app/Contents/Resources/bin/cmake >> -H/private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> -B/private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> --check-build-system CMakeFiles/Makefile.cmake >> 0 /Applications/FEniCS.app/Contents/Resources/bin/cmake -E >> cmake_progress_start >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/CMakeFiles >> >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/CMakeFiles/progress.marks >> /Applications/Xcode.app/Contents/Developer/usr/bin/make >> -f CMakeFiles/Makefile2 >> all /Applications/Xcode.app/Contents/Developer/usr/bin/make -f >> CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/build.make >> CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/depend >> /Applications/FEniCS.app/Contents/Resources/bin/cmake >> -E >> cmake_progress_report >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/CMakeFiles >> 1 [ 50%] Swig >> source /Applications/FEniCS.app/Contents/Resources/bin/cmake -E >> make_directory >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> /Applications/FEniCS.app/Contents/Resources/bin/swig >> -python -module >> dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 -shadow >> -modern -modernargs -fastdispatch -fvirtual -nosafecstrings >> -noproxydel -fastproxy -fastinit -fastunpack -fastquery -nobuildnone >> -DDOLFIN_VERSION="1.5.0" -DBOOST_UBLAS_NDEBUG -DDOLFIN_SIZE_T=8 >> -DDOLFIN_LA_INDEX_SIZE=4 -DHAS_HDF5 -DHAS_TRILINOS -DHAS_SLEPC >> -DHAS_PETSC -DHAS_UMFPACK -DHAS_CHOLMOD -DHAS_SCOTCH -DHAS_ZLIB >> -DHAS_MPI -DHAS_VTK -DNUMPY_VERSION_MAJOR=1 -DNUMPY_VERSION_MINOR=6 >> -DNUMPY_VERSION_MICRO=2 -c++ -fcompact -O -I. -small >> -outdir >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> -c++ -I/Applications/FEniCS.app/Contents/Resources/include >> -I/usr/include/libxml2 >> -I/Applications/FEniCS.app/Contents/Resources/include >> -I/Applications/FEniCS.app/Contents/Resources >> -I/Applications/FEniCS.app/Contents/Resources/include >> -I/Applications/FEniCS.app/Contents/Resources/include/suitesparse >> -I/Applications/FEniCS.app/Contents/Resources/include/suitesparse >> -I/Applications/FEniCS.app/Contents/Resources/include -I/usr/include >> -I/Applications/FEniCS.app/Contents/Resources/include >> -I/Applications/FEniCS.app/Contents/Resources/include/eigen3 >> -I/Applications/FEniCS.app/Contents/Resources/include >> -I/Applications/FEniCS.app/Contents/Resources/include >> -I/Applications/FEniCS.app/Contents/Resources/lib/cmake/Trilinos/../../../include/trilinos >> -I/Applications/FEniCS.app/Contents/Resources/include >> -I/Applications/FEniCS.app/Contents/Resources/include/trilinos >> -I/Applications/FEniCS.app/Contents/Resources/include/suitesparse >> -I/Applications/FEniCS.app/Contents/Resources/include >> -I/Applications/FEniCS.app/Contents/Resources/include/vtk-5.10 >> -I/private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/. >> -I/System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python/numpy/core/include >> -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 >> -I/private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> -o >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990PYTHON_wrap.cxx >> >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i >> >> /Applications/FEniCS.app/Contents/Resources/include/dolfin/la/LinearAlgebraObject.h:36: >> Warning 520: Derived class 'LinearAlgebraObject' of >> 'dolfin::Variable' is not similarly marked as a smart >> pointer. >> /Applications/FEniCS.app/Contents/Resources/include/dolfin/function/Function.h:63: >> Warning 402: Base class 'Hierarchical< Function >' is >> incomplete. >> /Applications/FEniCS.app/Contents/Resources/include/dolfin/swig/function/pre.i:219: >> Warning 402: Only forward declaration 'Hierarchical< Function >' was >> found. >> /Applications/FEniCS.app/Contents/Resources/include/dolfin/function/Function.h:64: >> Warning 520: Derived class 'Function' of 'dolfin::GenericFunction' is >> not similarly marked as a smart >> pointer. >> /Applications/FEniCS.app/Contents/Resources/include/dolfin/function/Function.h:64: >> Warning 520: Derived class 'Function' of 'ufc::function' is not >> similarly marked as a smart >> pointer. >> /Applications/FEniCS.app/Contents/Resources/include/dolfin/function/Function.h:64: >> Warning 520: Derived class 'Function' of 'dolfin::Variable' is not >> similarly marked as a smart >> pointer. >> /Applications/FEniCS.app/Contents/Resources/include/dolfin/function/FunctionSpace.h:53: >> Warning 402: Base class 'Hierarchical< FunctionSpace >' is >> incomplete. >> /Applications/FEniCS.app/Contents/Resources/include/dolfin/swig/function/pre.i:218: >> Warning 402: Only forward declaration 'Hierarchical< FunctionSpace >' >> was >> found. >> /Applications/FEniCS.app/Contents/Resources/include/dolfin/function/FunctionSpace.h:54: >> Warning 520: Derived class 'FunctionSpace' of 'dolfin::Variable' is >> not similarly marked as a smart >> pointer. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:170: >> Warning 315: Nothing known about >> 'std::cos'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:171: >> Warning 315: Nothing known about >> 'std::sin'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:172: >> Warning 315: Nothing known about >> 'std::tan'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:173: >> Warning 315: Nothing known about >> 'std::acos'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:174: >> Warning 315: Nothing known about >> 'std::asin'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:175: >> Warning 315: Nothing known about >> 'std::atan'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:176: >> Warning 315: Nothing known about >> 'std::atan2'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:177: >> Warning 315: Nothing known about >> 'std::cosh'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:178: >> Warning 315: Nothing known about >> 'std::sinh'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:179: >> Warning 315: Nothing known about >> 'std::tanh'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:180: >> Warning 315: Nothing known about >> 'std::exp'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:181: >> Warning 315: Nothing known about >> 'std::frexp'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:182: >> Warning 315: Nothing known about >> 'std::ldexp'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:183: >> Warning 315: Nothing known about >> 'std::log'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:184: >> Warning 315: Nothing known about >> 'std::log10'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:185: >> Warning 315: Nothing known about >> 'std::modf'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:186: >> Warning 315: Nothing known about >> 'std::pow'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:187: >> Warning 315: Nothing known about >> 'std::sqrt'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:188: >> Warning 315: Nothing known about >> 'std::ceil'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:189: >> Warning 315: Nothing known about >> 'std::fabs'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:190: >> Warning 315: Nothing known about >> 'std::floor'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:191: >> Warning 315: Nothing known about >> 'std::fmod'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:192: >> Warning 315: Nothing known about >> 'std::max'. >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.i:193: >> Warning 315: Nothing known about 'std::min'. >> cd >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> && /Applications/FEniCS.app/Contents/Resources/bin/cmake -E >> cmake_depends "Unix >> Makefiles" >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/DependInfo.cmake >> --color= Dependee >> "/private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/DependInfo.cmake" >> is newer than depender >> "/private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/depend.internal". >> Dependee >> "/private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/CMakeFiles/CMakeDirectoryInformation.cmake" >> is newer than depender >> "/private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/depend.internal". >> Scanning dependencies of target >> _dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> /Applications/Xcode.app/Contents/Developer/usr/bin/make >> -f >> CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/build.make >> CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/build >> /Applications/FEniCS.app/Contents/Resources/bin/cmake >> -E >> cmake_progress_report >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/CMakeFiles >> 2 [100%] Building CXX object >> CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990PYTHON_wrap.cxx.o >> /usr/bin/g++ >> -DBOOST_UBLAS_NDEBUG -DDOLFIN_LA_INDEX_SIZE=4 -DDOLFIN_SIZE_T=8 >> -DDOLFIN_VERSION=\"1.5.0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI >> -DHAS_PETSC -DHAS_SCOTCH -DHAS_SLEPC -DHAS_TRILINOS -DHAS_UMFPACK >> -DHAS_VTK -DHAS_ZLIB -DNUMPY_VERSION_MAJOR=1 -DNUMPY_VERSION_MICRO=2 >> -DNUMPY_VERSION_MINOR=6 >> -D_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990_EXPORTS >> -std=c++11 -Wno-deprecated -O2 -fPIC >> -isystem /Applications/FEniCS.app/Contents/Resources/include >> -isystem /usr/include/libxml2 >> -isystem /Applications/FEniCS.app/Contents/Resources >> -isystem /Applications/FEniCS.app/Contents/Resources/include/suitesparse >> -isystem /Applications/FEniCS.app/Contents/Resources/include/eigen3 >> -isystem >> /Applications/FEniCS.app/Contents/Resources/lib/cmake/Trilinos/../../../include/trilinos >> -isystem /Applications/FEniCS.app/Contents/Resources/include/trilinos >> -isystem /Applications/FEniCS.app/Contents/Resources/include/vtk-5.10 >> -I/private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/. >> -I/System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python/numpy/core/include >> -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 >> -I/private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990 >> -o >> CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990PYTHON_wrap.cxx.o >> -c >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990PYTHON_wrap.cxx >> >> /private/var/folders/67/55yyvb51557frm02pm1ry_8c0000gn/T/tmpJGlVhp2015-1-20-16-26_instant_66528264d07361d64663d27c215c1ab47b1af0a5/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990PYTHON_wrap.cxx:4183:3: >> warning: expression result unused; should this cast be to 'void'? >> [-Wunused-value] (void *)clientdata; ^ ~ 1 warning generated. >> make[2]: *** No rule to make target >> `/Users/johannr/fenics-1.5.0/local/lib/libboost_filesystem.dylib', > > Johannes, it looks like there is a wrong hardcoded path to > libboost_filesystem.dylib.
Yes, that is the correct. The post install script that fixes the paths was missing an update. This is fixed now and I have uploaded new packages for OS X 10.10 and 10.9: http://fenicsproject.org/pub/software/fenics/fenics-1.5.0-p1-osx10.10.dmg http://fenicsproject.org/pub/software/fenics/fenics-1.5.0-p1-osx10.9.dmg Please let me know if this fixes the problem. Johannes > Jan > >> needed by >> `_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.so'. >> Stop. make[1]: *** >> [CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/all] >> Error 2 make: *** [all] Error 2 >> >> ------------------------------------ >> >> >> On Jan 20, 2015, at 17:39, Jan Blechta <[email protected]> >> wrote: >> >> > On Tue, 20 Jan 2015 17:28:22 -0500 >> > Adrian Butscher <[email protected]> wrote: >> > >> >> Hi, >> >> >> >> I’m running the lastest FEniCS on my Mac running osx 10.9.5. I >> > >> > Which one is it? Stable release 1.5.0? >> > >> >> installed FEniCS using the .dmg provided on the FEniCS website and >> >> I’m using the FEniCS shell provided by the FEniCS.app. I.e. I >> >> don’t think I’m doing anything outside of the ordinary use-case. >> >> I’m having a bug that other users have experienced in the past, >> >> and the solutions I’ve found online so far are not clear to me >> >> (and seem a bit out of date). My apologies if I am re-asking a >> >> question that has already been answered. >> >> >> >> The problem arises with the demo_poisson.py file though I think it >> >> will occur whenever the Expression command is used. (In >> >> particular, it does NOT occur when using the demo_cahn-hilliard.py >> >> file, as someone else on this forum discovered.) Here’s the >> >> output from python: >> >> >> >> Calling DOLFIN just-in-time (JIT) compiler, this may take some >> >> time. In instant.recompile: The module did not compile with >> >> command 'make VERBOSE=1', see >> >> '/Users/butscher/.instant/error/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/compile.log' >> >> Traceback (most recent call last): File >> >> "/Applications/FEniCS.app/Contents/Resources/share/dolfin/demo/documented/poisson/python/demo_poisson.py", >> >> line 54, in <module> f = Expression("10*exp(-(pow(x[0] - 0.5, 2) + >> >> pow(x[1] - 0.5, 2)) / 0.02)") File >> >> "/Applications/FEniCS.app/Contents/Resources/lib/python2.7/site-packages/dolfin/functions/expression.py", >> >> line 602, in __new__ mpi_comm=mpi_comm) File >> >> "/Applications/FEniCS.app/Contents/Resources/lib/python2.7/site-packages/dolfin/compilemodules/expressions.py", >> >> line 217, in compile_expressions mpi_comm=mpi_comm) File >> >> "/Applications/FEniCS.app/Contents/Resources/lib/python2.7/site-packages/dolfin/compilemodules/expressions.py", >> >> line 145, in compile_expression_code mpi_comm=mpi_comm) File >> >> "/Applications/FEniCS.app/Contents/Resources/lib/python2.7/site-packages/dolfin/compilemodules/jit.py", >> >> line 64, in mpi_jit return local_jit(*args, **kwargs) File >> >> "/Applications/FEniCS.app/Contents/Resources/lib/python2.7/site-packages/dolfin/compilemodules/compilemodule.py", >> >> line 458, in compile_extension_module **instant_kwargs) File >> >> "/Applications/FEniCS.app/Contents/Resources/lib/python2.7/site-packages/instant/build.py", >> >> line 563, in build_module recompile(modulename, module_path, >> >> new_compilation_checksum, build_system) File >> >> "/Applications/FEniCS.app/Contents/Resources/lib/python2.7/site-packages/instant/build.py", >> >> line 165, in recompile instant_error(msg % (cmd, >> >> compile_log_filename_dest)) File >> >> "/Applications/FEniCS.app/Contents/Resources/lib/python2.7/site-packages/instant/output.py", >> >> line 85, in instant_error raise RuntimeError(text) RuntimeError: In >> >> instant.recompile: The module did not compile with command 'make >> >> VERBOSE=1', see >> >> '/Users/butscher/.instant/error/dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990/compile.log’ >> > >> > Please, post contents of this file otherwise we can barely help you. >> > >> > Jan >> > >> >> >> >> If someone knows, please advise me on how to fix this problem. >> >> Many thanks. >> >> >> >> Adrian >> >> _______________________________________________ >> >> fenics-support mailing list >> >> [email protected] >> >> http://fenicsproject.org/mailman/listinfo/fenics-support >> > > > _______________________________________________ > fenics-support mailing list > [email protected] > http://fenicsproject.org/mailman/listinfo/fenics-support _______________________________________________ fenics-support mailing list [email protected] http://fenicsproject.org/mailman/listinfo/fenics-support
