Thanks for all the suggestions. I'm able to get it to work now using the simpler config line suggested. I did not fully explain my setup but it turns out due to a mount error my machine was not seeing the new files in the rebuilt openmpi directory which was remotely mounted, so I kept getting the same errors :).
On Wed, Dec 7, 2011 at 1:30 PM, Ralph Castain <r...@open-mpi.org> wrote: > > On Dec 7, 2011, at 10:45 AM, John Doe wrote: > > Ok. That did help a bit. I now see that the > /opt/ompi/gnu/1.4.4/lib/openmpi/ directory has .so files as well as the .la > files. Unfortunately I still get the same error when I run i.e it complains > about missing files in that directory even though those files are present > with an .so or .la extension (but not without): > mca_parfinity_linux, mca_carto_auto_detect, mca_carto_file, mca_ess_env, > mca_ess_hnp, mca_ess_singleton, mca_ess_slurm, mca_ess_tool > > Can anyone help with what these files are and how I can get my compile to > generate them (without extensions)? > > > I'm not sure why you would ever want to generate those files without their > appropriate extensions - that's what the system is looking for. It sounds > like everything is being built correctly, so the problem is just that you > aren't finding them. > > I would check a couple of things. First, make sure that the "mpirun" you > are executing is the one you think you are executing - i.e., do "which > mpirun" to see that there isn't another one in the way. > > Second, check that you really do have the correct path in LD_LIBRARY_PATH > and it isn't misspelled. I know you say you have it, but you'd be amazed > how many times someone asks only to eventually find a typo. > > > > > Thanks, > > Sam > > > > On Wed, Dec 7, 2011 at 11:19 AM, John Doe <javadevelope...@gmail.com>wrote: > >> Hi Ralph, >> >> I may have been a little promiscous in my use of build flags. My initial >> configure line was much simpler then I kept throwing in flags when it >> wouldn't run. I'll try to build it again with the your config line and see >> if that resolves the issue. >> >> Sam >> >> >> On Wed, Dec 7, 2011 at 11:11 AM, Ralph Castain <r...@open-mpi.org> wrote: >> >>> I don't understand your configure line - why did you give an argument to >>> enable-shared?? That option doesn't take an argument, and may be causing >>> the confusion. Also, enable-debug by default turns off optimization as >>> otherwise the optimizer removes all debug symbols. >>> >>> If you want a debug version, try just this: >>> >>> ./configure --prefix=/opt/ompi/gnu/1.4.4 --enable-debug >>> --with-valgrind=/opt/valgrind --enable-orterun-prefix-by-default >>> --enable-memchecker --enable-mem-profile >>> >>> You don't need --with-devel-headers unless you intend to write code that >>> directly drives the OMPI internals. >>> >>> >>> On Dec 7, 2011, at 10:00 AM, 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 >>> >>> >>> >>> _______________________________________________ >>> 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 >
