On Sun, Jun 17, 2018 at 11:39:21AM +0200, Andreas Kusalananda Kähäri wrote:
>
> Issue resolved by setting OMPI_CC=gcc
Sorry, I spoke too soon. It's not resolved. I still had the profiling
functions rather than the real functions in my test program. Duh.
>
>
> On Sun, Jun 17, 2018 at 11:18:31AM +0200, Andreas Kusalananda Kähäri wrote:
> > Hi,
> >
> > I'm trying to build a piece of software that uses MPI. On a current
> > amd64 OpenBSD system I use the devel/openmpi port for this, but simple
> > test programs fail to link properly, complaining about the MPI
> > functions:
> >
> > #include <mpi.h>
> >
> > int
> > main(int argc, char **argv)
> > {
> > MPI_Init(&argc, &argv);
> > MPI_Finalize();
> > return 0;
> > }
> >
> >
> > Compiling this:
> >
> > $ mpicc mpitest.c
> > /usr/local/lib/libopen-pal.so.0.0: warning: strcat() is almost always
> > misused, please use strlcat()
> > /usr/local/lib/libmpi.so.0.1: warning: strcpy() is almost always misused,
> > please use strlcpy()
> > /usr/local/lib/libopen-rte.so.0.0: warning: rand() may return deterministic
> > values, is that what you want?
> > /usr/local/lib/libopen-rte.so.0.0: warning: sprintf() is often misused,
> > please use snprintf()
> > /usr/local/lib/libopen-pal.so.0.0: warning: vsprintf() is often misused,
> > please use vsnprintf()
> > /tmp_mfs/mpitest-e45b73.o: In function `main':
> > mpitest.c:(.text+0x3d): undefined reference to `MPI_Init'
> > mpitest.c:(.text+0x45): undefined reference to `MPI_Finalize'
> > cc: error: linker command failed with exit code 1 (use -v to see invocation)
> >
> > How do I go about working around this?
> >
> > I notice that the ordinary MPI functions in libmpi.so.0.1 are marked as
> > "local" (they have 't' in the nm output), whereas the profiling version
> > of the functions are not. The profiling functions have a 'P' prefix
> > (e.g. "PMPI_Init()") and the link properly. Th issue is that I'm trying
> > to compile a preexisting piece of software and I don't want it to call
> > the profiling routines.
> >
> > The devel/openmpi port was built from source, but the same error occurs
> > with the package version.
> >
> > --
> > Andreas Kusalananda Kähäri,
> > National Bioinformatics Infrastructure Sweden (NBIS),
> > Uppsala University, Sweden.
> >
> >
> >
> >
> >
> >
> >
> >
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> >
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> >
>
> --
> Andreas Kusalananda Kähäri,
> National Bioinformatics Infrastructure Sweden (NBIS),
> Uppsala University, Sweden.
>
--
Andreas Kusalananda Kähäri,
National Bioinformatics Infrastructure Sweden (NBIS),
Uppsala University, Sweden.
