[petsc-users] petsc4py Build Problem

[Mikhail Khodak]

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
>
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