[petsc-dev] backport setup.py to release-3.1

Fri Sep 17 15:27:19 CDT 2010

I for one am interested in following these.  Should we set up a separate
mailing list?

A

On Fri, Sep 17, 2010 at 3:50 PM, Barry Smith <bsmith at mcs.anl.gov> wrote:

>
>  So far the usual arch disaster; and don't tell me I should set an
> environment variable before hand; that is completely insane. What it needs
> to do is find out the size of the pointer by compiling with mpicc and then
> automatically setting the right flags to just build for that arch. Is that
> possible?
>
>   It is now working on petsc, I'll send any problems that come up.
>
>   Just send this back to me so everyone doesn't have to see these emails.
>
>
>   Barry
>
>
> [bsmith-laptop:~] barrysmith% pip install --install-option=--user petsc
> slepc
> Downloading/unpacking petsc
>  Running setup.py egg_info for package petsc
> Downloading/unpacking slepc
>  Running setup.py egg_info for package slepc
>    deleting pip-egg-info/slepc.egg-info/requires.txt
> Downloading/unpacking mpi4py>=1.2.2 (from petsc)
>  Running setup.py egg_info for package mpi4py
> Installing collected packages: mpi4py, petsc, slepc
>  Running setup.py install for mpi4py
>    MPI C compiler:    /usr/bin/mpicc
>    MPI C++ compiler:  /usr/bin/mpicxx
>    MPI linker:        /usr/bin/mpicc
>    checking for MPI compile and link ...
>    /usr/bin/mpicc -pipe -fno-strict-aliasing -fno-common -dynamic -DNDEBUG
> -g -fwrapv -Os -Wall -Wstrict-prototypes
> -I/System/Library/Frameworks/Python.framework/Versions/2.6/include/python2.6
> -c _configtest.c -o _configtest.o
>    /usr/bin/mpicc _configtest.o -o _configtest
>    success!
>    removing: _configtest.c _configtest.o _configtest
>    building 'mpi4py.MPI' extension
>    /usr/bin/mpicc -pipe -fno-strict-aliasing -fno-common -dynamic -DNDEBUG
> -g -fwrapv -Os -Wall -Wstrict-prototypes
> -I/System/Library/Frameworks/Python.framework/Versions/2.6/include/python2.6
> -c src/MPI.c -o build/temp.macosx-10.6-universal-2.6/src/MPI.o
>    /usr/bin/mpicc -Wl,-F. -bundle -undefined dynamic_lookup
> build/temp.macosx-10.6-universal-2.6/src/MPI.o -o
> build/lib.macosx-10.6-universal-2.6/mpi4py/MPI.so
>    checking for MPE availability ...
>    checking for header 'mpe.h' ...
>    /usr/bin/mpicc -pipe -fno-strict-aliasing -fno-common -dynamic -DNDEBUG
> -g -fwrapv -Os -Wall -Wstrict-prototypes
> -I/System/Library/Frameworks/Python.framework/Versions/2.6/include/python2.6
> -c _configtest.c -o _configtest.o
>    _configtest.c:3:17: error: mpe.h: No such file or directory
>    failure.
>    removing: _configtest.c _configtest.o
>    failure.
>    building 'mpi4py.MPE' extension
>    /usr/bin/mpicc -pipe -fno-strict-aliasing -fno-common -dynamic -DNDEBUG
> -g -fwrapv -Os -Wall -Wstrict-prototypes
> -I/System/Library/Frameworks/Python.framework/Versions/2.6/include/python2.6
> -c src/MPE.c -o build/temp.macosx-10.6-universal-2.6/src/MPE.o
>    /usr/bin/mpicc -Wl,-F. -bundle -undefined dynamic_lookup
> build/temp.macosx-10.6-universal-2.6/src/MPE.o -o
> build/lib.macosx-10.6-universal-2.6/mpi4py/MPE.so
>    checking for dlopen availability ...
>    checking for header 'dlfcn.h' ...
>    /usr/bin/mpicc -pipe -fno-strict-aliasing -fno-common -dynamic -DNDEBUG
> -g -fwrapv -Os -Wall -Wstrict-prototypes
> -I/System/Library/Frameworks/Python.framework/Versions/2.6/include/python2.6
> -c _configtest.c -o _configtest.o
>    success!
>    removing: _configtest.c _configtest.o
>    succes!
>    checking for library 'dl' ...
>    /usr/bin/mpicc -pipe -fno-strict-aliasing -fno-common -dynamic -DNDEBUG
> -g -fwrapv -Os -Wall -Wstrict-prototypes
> -I/System/Library/Frameworks/Python.framework/Versions/2.6/include/python2.6
> -c _configtest.c -o _configtest.o
>    /usr/bin/mpicc _configtest.o -ldl -o _configtest
>    success!
>    removing: _configtest.c _configtest.o _configtest
>    building 'mpi4py.dl' extension
>    /usr/bin/mpicc -pipe -fno-strict-aliasing -fno-common -dynamic -DNDEBUG
> -g -fwrapv -Os -Wall -Wstrict-prototypes -DHAVE_DLFCN_H=1
> -I/System/Library/Frameworks/Python.framework/Versions/2.6/include/python2.6
> -c src/dynload.c -o build/temp.macosx-10.6-universal-2.6/src/dynload.o
>    /usr/bin/mpicc -Wl,-F. -bundle -undefined dynamic_lookup
> build/temp.macosx-10.6-universal-2.6/src/dynload.o -ldl -o
> build/lib.macosx-10.6-universal-2.6/mpi4py/dl.so
>    MPI C compiler:    /usr/bin/mpicc
>    MPI C++ compiler:  /usr/bin/mpicxx
>    MPI linker:        /usr/bin/mpicc
>    building 'python2.6-mpi' executable
>    /usr/bin/mpicc -pipe -fno-strict-aliasing -fno-common -dynamic -DNDEBUG
> -g -fwrapv -Os -Wall -Wstrict-prototypes
> -I/System/Library/Frameworks/Python.framework/Versions/2.6/include/python2.6
> -c src/python.c -o build/temp.macosx-10.6-universal-2.6/src/python.o
>    /usr/bin/mpicc -u _PyMac_Error
> /System/Library/Frameworks/Python.framework/Versions/2.6/Python
> build/temp.macosx-10.6-universal-2.6/src/python.o
> -L/System/Library/Frameworks/Python.framework/Versions/2.6/lib
> -L/System/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6/config
> -o build/exe.macosx-10.6-universal-2.6/python2.6-mpi -Wl,-F. -arch i386
> -arch ppc -arch x86_64 -ldl
>    ld: warning: in build/temp.macosx-10.6-universal-2.6/src/python.o, file
> was built for unsupported file format which is not the architecture being
> linked (i386)
>    Undefined symbols for architecture i386:
>      "_main", referenced from:
>          start in crt1.10.6.o
>    ld: symbol(s) not found for architecture i386
>    collect2: ld returned 1 exit status
>    ld: warning: in build/temp.macosx-10.6-universal-2.6/src/python.o, file
> was built for unsupported file format which is not the architecture being
> linked (ppc)
>    Undefined symbols for architecture ppc:
>      "_main", referenced from:
>          start in crt1.10.5.o
>    ld: symbol(s) not found for architecture ppc
>    collect2: ld returned 1 exit status
>    lipo: can't open input file:
> /var/folders/M4/M4PTePd3FM4rLBeN0lPCkE+++TI/-Tmp-//ccDN9LNj.out (No such
> file or directory)
>    warning: build_exe: building extension "python2.6-mpi" failed
>    warning: build_exe: command '/usr/bin/mpicc' failed with exit status 1
>    /usr/bin/python -O
> /var/folders/M4/M4PTePd3FM4rLBeN0lPCkE+++TI/-Tmp-/tmp6r1BGz.py
>    removing /var/folders/M4/M4PTePd3FM4rLBeN0lPCkE+++TI/-Tmp-/tmp6r1BGz.py
>  Running setup.py install for petsc
>    PETSc: configure
>
>
> On Sep 17, 2010, at 1:49 PM, Lisandro Dalcin wrote:
>
> > On 17 September 2010 14:54, Barry Smith <bsmith at mcs.anl.gov> wrote:
> >>
> >>  Sorry, didn't work. Please find attached the .pip/pip.log file
> >>
> >
> > My fault, I gave you wrong flags. Let's try something more robust (as
> > you have Python 2.6, it should work:)
> >
> > pip install --install-option=--user petsc slepc
> >
> >
> > Then the stuff whould be installed in
> > ~/.local/lib/python2.6/site-packages, you should have 'petsc' and
> > 'slepc' subdirectories, plus some *egg-info subdirectories.
> >
> > Next, go to a petsc4py-dev clone, hg pull -u, and :
> >
> > unset PETSC_DIR PETSC_ARCH
> > python setup.py build
> > python setup.py install --user # install to to ~/.local/...
> > make test
> >
> >
> > --
> > Lisandro Dalcin
> > ---------------
> > CIMEC (INTEC/CONICET-UNL)
> > Predio CONICET-Santa Fe
> > Colectora RN 168 Km 472, Paraje El Pozo
> > Tel: +54-342-4511594 (ext 1011)
> > Tel/Fax: +54-342-4511169
>
>
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