Looks like there is an issue with petsc4py and --with-log=0 . Try rebuilding without this option.
Are you sure you really need petsc with these options? --with-numpy=1 --with-boost=1 --with-c-support --with-clanguage=C++ --with-memalign=64 etc don't really make sense to me for a general use install.. And most externalpackages are not tested with --with-64-bit-indices Satish On Mon, 16 May 2016, Juha Jaykka wrote: > Dear list, > > I cannot get petsc4py 3.7 to work. I have petsc compiled with a bunch of > options to suit my needs (sorry for the un-escaped line breaks): > > --COPTFLAGS="-Ofast " --CXXOPTFLAGS="-Ofast " --CXX_LINKER_FLAGS="-Wl,--no-as- > needed -lgfortran" --FOPTFLAGS="-Ofast " --LDFLAGS="-lgfortran -g" --LIBS=- > lgfortran --download-chombo=yes --download-sprng=no -- > prefix=/home/juhaj/progs+3.7/petsc --with-64-bit-indices --with-afterimage- > include=/usr/include/libAfterImage --with-afterimage-lib=/usr/lib/x86_64- > linux-gnu/libAfterImage.so --with-afterimage=1 --with-blas-lapack- > include=/usr/include/openblas --with-blas-lib=/usr/lib/openblas- > base/libblas.so --with-boost=1 --with-c-support --with-clanguage=C++ --with- > debugging=0 --with-external-packages-dir=/home/juhaj/progs+3.7/automatic- > downloads --with-fftw-include=/usr/include --with-fftw-lib="[/usr/lib/x86_64- > linux-gnu/libfftw3.so,/usr/lib/x86_64-linux-gnu/libfftw3_mpi.so]" --with- > fftw=1 --with-fortran-interfaces=1 --with-gnu-compilers=1 --with-hdf5- > include=/usr/include/hdf5/openmpi --with-hdf5-lib=/usr/lib/x86_64-linux- > gnu/libhdf5_openmpi.so --with-hdf5=1 --with-hwloc=1 --with-hypre- > include=/usr/include --with-hypre-lib=/usr/lib/libHYPRE_IJ_mv-2.8.0b.so -- > with-hypre=1 --with-lapack-lib=/usr/lib/openblas-base/liblapack.so --with- > log=0 --with-memalign=64 --with-metis=0 --with-mpi-shared=1 --with-mpi=1 -- > with-mumps=0 --with-netcdf-include=/usr/include/ --with-netcdf- > lib=/usr/lib/libnetcdf.so --with-netcdf=1 --with-numpy=1 --with-openmp=1 -- > with-parmetis=0 --with-pic=1 --with-scalapack-include=/usr/include --with- > scalapack-lib=/usr/lib/libscalapack-openmpi.so --with-scalapack=1 --with- > scalar-type=real --with-shared-libraries --with-spooles- > include=/usr/include/spooles --with-spooles-lib=/usr/lib/libspooles.so --with- > spooles=1 --with-suitesparse=0 --with-tetgen=0 --with-triangle=0 --with- > valgrind=1 > > and after installing petsc, pip install petsc4py fails with > > http://paste.debian.net/686482/ > > I don't really know where to start looking for the problem. Any idea how to > fix this? > > Cheers, > Juha > >
