[petsc-users] petsc4py Build Problem

[Satish Balay]

Also - should mention:

- cygwin has OpenMPI pacakged - so you could also try that.
- most of my builds are static [so never tried dll builds]

Satish

On Thu, 11 Jun 2015, Satish Balay wrote:

> If you get errors when running basic petsc examples - send us the
> relavant petsc logs [configure.log, make.log, test.log etc..]
> 
> Also - note that mpich is not supported on cygwin/windows [it
> generally works for us - when we try the --download-mpich build].
> 
> Unless you really need a cywin build/use of petsc4py - it might be
> easier to install a linux VM - and use PETSc/petsc4py on it.
> 
> Satish
> 
> On Thu, 11 Jun 2015, Mikhail Khodak wrote:
> 
> > I added these lines to the petsc4py test files (specifically test_comm.py)
> > but the error remains the same. However, I have done the standard 'which
> > mpiexec', 'which mpicc', 'which mpirun' and they are all in the same
> > folder. In fact it is the only MPI installed.
> > The reason I thought it might be a PETSc build problem is because one of
> > the PETSc 'make test' tests (ex5f) fails with the same error, even though
> > the 'make streams' test works fine with MPI processes.
> > Thanks,
> > Mikhail
> > 
> > On Thu, Jun 11, 2015 at 4:21 AM, Matthew Knepley <knepley at gmail.com> wrote:
> > 
> > > On Thu, Jun 11, 2015 at 5:07 AM, Mikhail Khodak <mkhodak at princeton.edu>
> > > wrote:
> > >
> > >> Thank you for your help - the install seems to work, apart from routines
> > >> requiring MPI, which fail due to the "Attempting to use an MPI routine
> > >> before initializing MPI" error. This seems to be an error in the PETSc
> > >> build itself.
> > >>
> > >
> > > The MPI routines will not work until after
> > >
> > > import petsc4py, sys
> > > petsc4py.init(sys.argv)
> > > from petsc4py import PETSc
> > >
> > > If they fail after this, it is usually a mismatch between the mpiexec
> > > being used and the MPI
> > > libraries being linked.
> > >
> > >   Thanks,
> > >
> > >     Matt
> > >
> > > Thanks again,
> > >> Mikhail Khodak
> > >>
> > >> On Mon, Jun 8, 2015 at 5:11 AM, Lisandro Dalcin <dalcinl at gmail.com>
> > >> wrote:
> > >>
> > >>> On 8 June 2015 at 02:50, Mikhail Khodak <mkhodak at princeton.edu> wrote:
> > >>> > Hello, I am trying to build petsc4py-3.5.1 using Cygwin on 64-bit
> > >>> Windows 7.
> > >>> > I have built PETSc 3.5.4 with shared and dynamic libraries using
> > >>> > mpich2-1.2.1 and successfully ran the installation tests. I am using
> > >>> Python
> > >>> > 2.7 and NumPy 1.9.2 and have installed mpi4py. However, when I attempt
> > >>> to
> > >>> > install petsc4py (both with pip and distutils) I get a mpicc compiler
> > >>> error
> > >>> > due to undefined references/symbols. I have attached the output of
> > >>> running
> > >>> >
> > >>> > pip install petsc petsc4py --allow-external petsc --allow-external
> > >>> petsc4py
> > >>> >
> > >>>
> > >>> I've never ever built or test petsc4py under Cygwin. The errors you
> > >>> see are expected.
> > >>> Perhaps you can manually workaround the issues following the following
> > >>> steps:
> > >>>
> > >>> 1) Download the petsc4py tarball and unpack it.
> > >>> 2) Open the file "src/libpetsc4py/libpetsc4py.h", add remove all
> > >>> occurences of DL_IMPORT, i.e, replace DL_IMPORT(XYZ) for just XYZ
> > >>> 3) Use pip again:
> > >>>
> > >>> pip install petsc
> > >>> pip install .
> > >>>
> > >>> The last line assumes your current working directory is the one having
> > >>> petsc4py's setup.py
> > >>>
> > >>> Finally, I do not guarantee this will work. I'm just guessing,
> > >>> petsc4py never explicitly supported Windows and/or Cygwin.
> > >>>
> > >>>
> > >>> --
> > >>> Lisandro Dalcin
> > >>> ============
> > >>> Research Scientist
> > >>> Computer, Electrical and Mathematical Sciences & Engineering (CEMSE)
> > >>> Numerical Porous Media Center (NumPor)
> > >>> King Abdullah University of Science and Technology (KAUST)
> > >>> http://numpor.kaust.edu.sa/
> > >>>
> > >>> 4700 King Abdullah University of Science and Technology
> > >>> al-Khawarizmi Bldg (Bldg 1), Office # 4332
> > >>> Thuwal 23955-6900, Kingdom of Saudi Arabia
> > >>> http://www.kaust.edu.sa
> > >>>
> > >>> Office Phone: +966 12 808-0459
> > >>>
> > >>
> > >>
> > >
> > >
> > > --
> > > What most experimenters take for granted before they begin their
> > > experiments is infinitely more interesting than any results to which their
> > > experiments lead.
> > > -- Norbert Wiener
> > >
> > 
> 
>