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Dolfin Compiler.log

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Jun 30th, 2014
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  1. -- The C compiler identification is GNU
  2. -- The CXX compiler identification is GNU
  3. -- Check for working C compiler: /usr/bin/gcc
  4. -- Check for working C compiler: /usr/bin/gcc -- works
  5. -- Detecting C compiler ABI info
  6. -- Detecting C compiler ABI info - done
  7. -- Check for working CXX compiler: /usr/bin/c++
  8. -- Check for working CXX compiler: /usr/bin/c++ -- works
  9. -- Detecting CXX compiler ABI info
  10. -- Detecting CXX compiler ABI info - done
  11. -- Found SWIG: /usr/bin/swig2.0 (found version "2.0.4")
  12. -- Configuring done
  13. -- Generating done
  14. CMake Warning:
  15.   Manually-specified variables were not used by the project:
  16.  
  17.     DEBUG
  18.  
  19.  
  20. -- Build files have been written to: /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0
  21. /usr/bin/cmake -H/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0 -B/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0 --check-build-system CMakeFiles/Makefile.cmake 0
  22. /usr/bin/cmake -E cmake_progress_start /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/CMakeFiles /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/CMakeFiles/progress.marks
  23. make -f CMakeFiles/Makefile2 all
  24. make[1]: Entering directory `/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0'
  25. make -f CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/build.make CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/depend
  26. make[2]: Entering directory `/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0'
  27. /usr/bin/cmake -E cmake_progress_report /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/CMakeFiles 2
  28. [ 50%] Swig source
  29. /usr/bin/cmake -E make_directory /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0
  30. /usr/bin/swig2.0 -python -module dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0 -shadow -modern -modernargs -fastdispatch -fvirtual -nosafecstrings -noproxydel -fastproxy -fastinit -fastunpack -fastquery -nobuildnone -DDOLFIN_VERSION="1.4.0" -DBOOST_UBLAS_NDEBUG -DDOLFIN_SIZE_T=8 -DHAS_HDF5 -DHAS_SLEPC -DHAS_PETSC -DENABLE_PETSC_SNES -DHAS_UMFPACK -DHAS_CHOLMOD -DHAS_SCOTCH -DHAS_CGAL -DHAS_ZLIB -DHAS_MPI -DHAS_OPENMP -DHAS_QT4 -DHAS_VTK -DHAS_QVTK -DNUMPY_VERSION_MAJOR=1 -DNUMPY_VERSION_MINOR=6 -DNUMPY_VERSION_MICRO=1 -DNPY_NO_DEPRECATED_API=NPY_1_7_API_VERSION -c++ -fcompact -O -I. -small -outdir /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0 -c++ -I/usr/include -I/usr/include/libxml2 -I/usr/lib/slepcdir/3.4.2 -I/usr/lib/slepcdir/3.4.2/linux-gnu-c-opt/include -I/usr/lib/slepcdir/3.4.2/include -I/usr/include/suitesparse -I/usr/include/scotch -I/usr/lib/openmpi/include -I/usr/lib/openmpi/include/openmpi -I/usr/include/eigen3 -I/usr/lib/petscdir/3.4.2/include -I/usr/lib/petscdir/3.4.2/linux-gnu-c-opt/include -I/usr/include/qt4 -I/usr/include/vtk-5.8 -I/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/. -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include/python2.7 -I/usr/lib/pymodules/python2.7/petsc4py/include -I/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0 -o /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0PYTHON_wrap.cxx /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.i
  31. cd /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0 && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0 /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0 /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0 /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0 /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/DependInfo.cmake --color=
  32. Dependee "/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/DependInfo.cmake" is newer than depender "/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/depend.internal".
  33. Dependee "/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/depend.internal".
  34. Scanning dependencies of target _dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0
  35. make[2]: Leaving directory `/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0'
  36. make -f CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/build.make CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/build
  37. make[2]: Entering directory `/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0'
  38. /usr/bin/cmake -E cmake_progress_report /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/CMakeFiles 1
  39. [100%] Building CXX object CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0PYTHON_wrap.cxx.o
  40. /usr/bin/c++   -D_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0_EXPORTS -DDOLFIN_VERSION=\"1.4.0\" -DBOOST_UBLAS_NDEBUG -DDOLFIN_SIZE_T=8 -DHAS_HDF5 -DHAS_SLEPC -DHAS_PETSC -DENABLE_PETSC_SNES -DHAS_UMFPACK -DHAS_CHOLMOD -DHAS_SCOTCH -DHAS_CGAL -DHAS_ZLIB -DHAS_MPI -DHAS_OPENMP -DHAS_QT4 -DHAS_VTK -DHAS_QVTK -DNUMPY_VERSION_MAJOR=1 -DNUMPY_VERSION_MINOR=6 -DNUMPY_VERSION_MICRO=1 -DNPY_NO_DEPRECATED_API=NPY_1_7_API_VERSION -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security  -std=c++0x  -Wno-deprecated  -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2  -frounding-math  -fopenmp -O2 -fPIC -isystem /usr/include/libxml2 -isystem /usr/lib/slepcdir/3.4.2 -isystem /usr/lib/slepcdir/3.4.2/linux-gnu-c-opt/include -isystem /usr/lib/slepcdir/3.4.2/include -isystem /usr/include/suitesparse -isystem /usr/include/scotch -isystem /usr/lib/openmpi/include -isystem /usr/lib/openmpi/include/openmpi -isystem /usr/include/eigen3 -isystem /usr/lib/petscdir/3.4.2/include -isystem /usr/lib/petscdir/3.4.2/linux-gnu-c-opt/include -isystem /usr/include/qt4 -isystem /usr/include/vtk-5.8 -I/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/. -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/usr/include/python2.7 -I/usr/lib/pymodules/python2.7/petsc4py/include -I/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0    -o CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0PYTHON_wrap.cxx.o -c /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0PYTHON_wrap.cxx
  41. /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0PYTHON_wrap.cxx: In function ‘void dolfin::allow_nonzero_allocation(dolfin::GenericMatrix*)’:
  42. /tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0PYTHON_wrap.cxx:3139:77: error: cannot convert ‘_p_Mat’ to ‘Mat {aka _p_Mat*}’ for argument ‘1’ to ‘PetscErrorCode MatSetOption(Mat, MatOption, PetscBool)’
  43. make[2]: *** [CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0PYTHON_wrap.cxx.o] Error 1
  44. make[2]: Leaving directory `/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0'
  45. make[1]: *** [CMakeFiles/_dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0.dir/all] Error 2
  46. make[1]: Leaving directory `/tmp/tmpUVuLcW2014-6-30-21-41_instant_676a9c3b8c22098d6a02d31d24b1cb41a9d5c441/dolfin_compile_code_5c477b54fbffad56c7b98b0312cc85d0'
  47. make: *** [all] Error 2
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