Hi,
Similar problem, unfortunately. Output from the python interpreter and
from the logfile appended below. Thanks for looking into this.
Adrian
---
>>> import dolfin
>>> f = dolfin.Expression('0')
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_b757fe2d4b67080e62c39305d8769e84590cb779/compile.log'
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
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_b757fe2d4b67080e62c39305d8769e84590cb779/compile.log'
---
-- 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
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/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
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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
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/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
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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', needed
by `_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.so'.
Stop.
make[1]: ***
[CMakeFiles/_dolfin_compile_code_e71a4e0b9db4c7b3c4379cadd4a0fbc66cf1c990.dir/all]
Error 2
make: *** [all] Error 2
---
On Wed, Jan 21, 2015 at 3:32 AM, Johannes Ring <[email protected]> wrote:
> 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
>
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