Hi John Doe Set these environment variables in your .profile/.bashrc or .[t]cshrc file. If you set them in the shell prompt, before you run the job, I am not sure they will propagate to the MPI processes, even if you are running in a standalone machine [which apparently you are]. Ralph may clarify this point about the environment variables' inheritance.
Alternatively, you could also pass the environment variables to the processes in the mpiexec command line, e.g. [in bash]: export LD_LIBRARY_PATH=whatever export PATH=whaever_else mpiexec -x LD_LIBRARY_PATH -x PATH -np=4 ./my_program. I hope this helps, Edward Arnold On Dec 7, 2011, at 12:00 PM, John Doe wrote: > Hi Gustavo, > > I do have /opt/ompi/gnu/1.4.4/lib in my LD_LIBRARY_PATH and the bin > directory in my path as well but that didn't seem to help. > > Sam > > On Tue, Dec 6, 2011 at 5:18 PM, Gustavo Correa <g...@ldeo.columbia.edu> wrote: > Hi John Doe > > What you need to add to LD_LIBRARY_PATH is /opt/ompi/gnu/1.4.4/lib > [note 'lib' at the end]. > Your email seems to say that you added /opt/ompi/gnu/1.4.4/lib/openmpi > instead, if I understood it right. > And to your PATH you need to add the corresponding 'bin' directory: > /opt/ompi/gnu/1.4.4/bin. > The rule here is your installation prefix /opt/ompi/gnu/1.4.4/ > with 'lib' or 'bin' at the end. > > I hope this helps, > Frank Capra > > On Dec 6, 2011, at 5:54 PM, John Doe wrote: > > > I recently built and installed openmpi on my 64 bit linux machine running > > centOS 6. > > However whenever I try mpirun I get the error message: > > > > [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file runtime/orte_init.c > > at line 125 > > orte_ess_base_select failed > > > > Actually here's the full error transcript: > > ==================================================================================================== > > >> mpiexec -n 4 object/a.out > > [ellipse:01480] mca: base: component_find: unable to open > > /opt/ompi/gnu/1.4.4/lib/openmpi/mca_paffinity_linux: file not found > > (ignored) > > [ellipse:01480] mca: base: component_find: unable to open > > /opt/ompi/gnu/1.4.4/lib/openmpi/mca_carto_auto_detect: file not found > > (ignored) > > [ellipse:01480] mca: base: component_find: unable to open > > /opt/ompi/gnu/1.4.4/lib/openmpi/mca_carto_file: file not found (ignored) > > [ellipse:01480] mca: base: component_find: unable to open > > /opt/ompi/gnu/1.4.4/lib/openmpi/mca_ess_env: file not found (ignored) > > [ellipse:01480] mca: base: component_find: unable to open > > /opt/ompi/gnu/1.4.4/lib/openmpi/mca_ess_hnp: file not found (ignored) > > [ellipse:01480] mca: base: component_find: unable to open > > /opt/ompi/gnu/1.4.4/lib/openmpi/mca_ess_singleton: file not found (ignored) > > [ellipse:01480] mca: base: component_find: unable to open > > /opt/ompi/gnu/1.4.4/lib/openmpi/mca_ess_slurm: file not found (ignored) > > [ellipse:01480] mca: base: component_find: unable to open > > /opt/ompi/gnu/1.4.4/lib/openmpi/mca_ess_tool: file not found (ignored) > > [ellipse:01480] [[INVALID],INVALID] ORTE_ERROR_LOG: Not found in file > > runtime/orte_init.c at line 125 > > -------------------------------------------------------------------------- > > It looks like orte_init failed for some reason; your parallel process is > > likely to abort. There are many reasons that a parallel process can > > fail during orte_init; some of which are due to configuration or > > environment problems. This failure appears to be an internal failure; > > here's some additional information (which may only be relevant to an > > Open MPI developer): > > > > orte_ess_base_select failed > > --> Returned value Not found (-13) instead of ORTE_SUCCESS > > -------------------------------------------------------------------------- > > > > ============================================================================================================= > > > > > > Here are the configure options I used to build openmpi: > > ./configure --prefix=/opt/ompi/gnu/1.4.4 CC=gcc -m64 CXX=g++ -m64 > > FC=gfortran -m64 F77=gfortran -m64 CFLAGS=-O2 -g CXXFLAGS=-O2 -g > > FCFLAGS=-O2 -g FFLAGS=-O2 -g --enable-debug --enable-shared=gcc > > --with-valgrind=/opt/valgrind --with-devel-headers --enable-mem-profile > > --enable-orterun-prefix-by-default --enable-memchecker > > > > Does anyone have any idea what these errors are. I tried recompiling with > > the --enable-orterun-prefix-by-default flag. Also while those files e.g > > mca_ess_tool are not found, the static versions e.g mca_ess_tool.a and > > mca_ess_tool.la exist in the /opt/ompi/gnu/1.4.4/lib/openmpi directory. > > I've also tried adding that directory to my LD_LIBRARY_PATH but still get > > the same error. Help would be much appreciated. > > > > Thanks, > > Sam > > _______________________________________________ > > users mailing list > > us...@open-mpi.org > > http://www.open-mpi.org/mailman/listinfo.cgi/users > > > _______________________________________________ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users > > _______________________________________________ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users
