[petsc-users] petsc4py problem

[Barry Smith]

  You should be able to build PETSc with C and use it from Chombo even though Chombo is built in C++. You shouldn't need --with-c-support --with-clanguage=C++

  Barry

> On May 16, 2016, at 11:11 PM, Juha Jaykka <juhaj at iki.fi> wrote:
> 
>> Looks like there is an issue with petsc4py and --with-log=0 . Try rebuilding
> 
> Yea, noticed that, too.
> 
>> --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..
> 
> I'm not sure I know what you mean by "general use" but this is for my use, so 
> I'd guess not what you'd mean by "general".
> 
> Anyway, numpy and boost I can probably live without, C++ is necessary because 
> of Chombo (it might be possible to tweak things to work without it); c-support 
> I don't know: I thought there wouldn't be C bindings otherwise, just C++?
> 
> 64-bit alignment is something I'm testing, but will probably be a good idea on 
> Knights Landing.
> 
> Cheers,
> Juha
> 
>> 
>> 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
>