[Trilinos-Users] Error Compiling Trilinos on Ubuntu 11.04

[Matt Bockman]

Thanks Nuno,

I set that and now update-alternatives gives:

mdbockman at mdbockman:~/Documents/Research/codes/trilinosTest3/trilinos-10.6.4-Source/build2$
update-alternatives --get-selections | grep mpi
mdrun_mpi                      auto     /usr/bin/mdrun_mpi.openmpi
mpi                            auto     /usr/lib/openmpi/include
mpirun                         auto     /usr/bin/mpirun.openmpi
mpy                            auto     /usr/bin/mpy.openmpi


However, I recompile using the following sequence of commands:

rm -rf CMakeCache.txt && ./trilinos_configure-trilinos-ubuntu.sh && make
clean && make -j4

from the build directory but I still get:

/usr/bin/ld: /usr/local/lib/libmpich.a(allreduce.o): relocation R_X86_64_32
against `MPIR_ThreadSingle' can not be used when making a shared object;
recompile with -fPIC
/usr/local/lib/libmpich.a: could not read symbols: Bad value

Can't I just download a know good version of mpi (any recommendations?) and
link to that? Additionally, how would I tell cmake which library to use?

Thanks,
Matt

On Fri, Jul 22, 2011 at 9:52 AM, Nuno Sucena Almeida <slug at aeminium.org>wrote:

> On 07/21/2011 11:17 PM, Matt Bockman wrote:
> > There are 5 choices for the alternative mpi (providing /usr/include/mpi).
> >
> >   Selection    Path                          Priority   Status
> > ------------------------------------------------------------
> >   0            /usr/include/mpich2            40        auto mode
> >   1            /usr/include/mpich2            40        manual mode
> >   2            /usr/lib/mpich-mpd/include     10        manual mode
> >   3            /usr/lib/mpich-shmem/include   10        manual mode
> >   4            /usr/lib/mpich/include         10        manual mode
> >   5            /usr/lib/openmpi/include       40        manual mode
> >
> > This is after I installed openmpi. However, I don't know how to tell
> > cmake/trilinos how to actually use openmpi. I am going to uninstall
> mpich2
> > and see where I can go from there.
> >
> > Thanks,
> > Matt
>
> Hi Matt,
>        the easiest way is to set openmpi as default for the whole system.
> With
>        update-alternatives --get-selections |grep mpi
>
> I have this:
>
> mdrun_mpi                      auto     /usr/bin/mdrun_mpi.openmpi
> mpi                            auto     /usr/lib/openmpi/include
> mpirun                         auto     /usr/bin/mpirun.openmpi
>
> You can copy&paste this output to a file selections.list and then run:
>
> cat selections.list | sudo update-alternatives --set-selections
>
>                        regards,
>                                 Nuno
> --
> http://aeminium.org/slug/
>
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>
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