Dear Gus Thanks once again for suggestion. Yes I did that before installation to new path. I am getting error now about some library tstint2lm: error while loading shared libraries: libmpi_usempif08.so.0: cannot open shared object file: No such file or directory
While library is present [pmdtest@hpc bin]$ locate libmpi_usempif08.so.0 /state/partition1/apps/openmpi-1.8.4_gcc-4.9.2/lib/libmpi_usempif08.so.0 /state/partition1/apps/openmpi-1.8.4_gcc-4.9.2/lib/libmpi_usempif08.so.0.6.0 in path as well echo $LD_LIBRARY_PATH /share/apps/openmpi-1.8.4_gcc-4.9.2/lib:/share/apps/libpng-1.6.16/lib:/share/apps/netcdf-fortran-4.4.1_gcc-4.9.2_wo_hdf5/lib:/share/apps/netcdf-4.3.2_gcc_wo_hdf5/lib:/share/apps/grib_api-1.11.0/lib:/share/apps/jasper-1.900.1/lib:/share/apps/zlib-1.2.8_gcc-4.9.2/lib:/share/apps/gcc-4.9.2/lib64:/share/apps/gcc-4.9.2/lib:/usr/lib64:/usr/share/Modules/lib:/opt/python/lib [pmdtest@hpc bin]$ Ahsan On Fri, Feb 27, 2015 at 10:17 PM, Gus Correa <g...@ldeo.columbia.edu> wrote: > Hi Syed Ahsan Ali > > To avoid any leftovers and further confusion, > I suggest that you delete completely the old installation directory. > Then start fresh from the configure step with the prefix pointing to > --prefix=/share/apps/openmpi-1.8.4_gcc-4.9.2 > > I hope this helps, > Gus Correa > > On 02/27/2015 12:11 PM, Syed Ahsan Ali wrote: >> >> Hi Gus >> >> Thanks for prompt response. Well judged, I compiled with /export/apps >> prefix so that is most probably the reason. I'll check and update you. >> >> Best wishes >> Ahsan >> >> On Fri, Feb 27, 2015 at 10:07 PM, Gus Correa <g...@ldeo.columbia.edu> >> wrote: >>> >>> Hi Syed >>> >>> This really sounds as a problem specific to Rocks Clusters, >>> not an issue with Open MPI. >>> A confusion related to mount points, and soft links used by Rocks. >>> >>> I haven't used Rocks Clusters in a while, >>> and I don't remember the details anymore, so please take my >>> suggestions with a grain of salt, and check them out >>> before committing to them >>> >>> Which --prefix did you use when you configured Open MPI? >>> My suggestion is that you don't use "/export/apps" as a prefix >>> (and this goes to any application that you install). >>> but instead use a /share/apps subdirectory, something like: >>> >>> --prefix=/share/apps/openmpi-1.8.4_gcc-4.9.2 >>> >>> This is because /export/apps is just a mount point on the >>> frontend/head node, whereas /share/apps is a mount point >>> across all nodes in the cluster (and, IIRR, a soft link on the >>> head node). >>> >>> My recollection is that the Rocks documentation was obscure >>> about this, not making clear the difference between >>> /export/apps and /share/apps. >>> >>> Issuing the Rocks commands: >>> "tentakel 'ls -d /export/apps'" >>> "tentakel 'ls -d /share/apps'" >>> may show something useful. >>> >>> I hope this helps, >>> Gus Correa >>> >>> >>> On 02/27/2015 11:47 AM, Syed Ahsan Ali wrote: >>>> >>>> >>>> I am trying to run openmpi application on my cluster. But the mpirun >>>> fails, simple hostname command gives this error >>>> >>>> [pmdtest@hpc bin]$ mpirun --host compute-0-0 hostname >>>> >>>> -------------------------------------------------------------------------- >>>> Sorry! You were supposed to get help about: >>>> opal_init:startup:internal-failure >>>> But I couldn't open the help file: >>>> >>>> >>>> /export/apps/openmpi-1.8.4_gcc-4.9.2/share/openmpi/help-opal-runtime.txt: >>>> No such file or directory. Sorry! >>>> >>>> -------------------------------------------------------------------------- >>>> >>>> -------------------------------------------------------------------------- >>>> Sorry! You were supposed to get help about: >>>> orte_init:startup:internal-failure >>>> But I couldn't open the help file: >>>> >>>> /export/apps/openmpi-1.8.4_gcc-4.9.2/share/openmpi/help-orte-runtime: >>>> No such file or directory. Sorry! >>>> >>>> -------------------------------------------------------------------------- >>>> [compute-0-0.local:03410] [[INVALID],INVALID] ORTE_ERROR_LOG: Error in >>>> file orted/orted_main.c at line 369 >>>> >>>> -------------------------------------------------------------------------- >>>> ORTE was unable to reliably start one or more daemons. >>>> >>>> I am using Environment modules to load OpenMPI 1.8.4 and PATH and >>>> LD_LIBRARY_PATH points to same openmpi on nodes >>>> >>>> [pmdtest@hpc bin]$ which mpirun >>>> /share/apps/openmpi-1.8.4_gcc-4.9.2/bin/mpirun >>>> [pmdtest@hpc bin]$ ssh compute-0-0 >>>> Last login: Sat Feb 28 02:15:50 2015 from hpc.local >>>> Rocks Compute Node >>>> Rocks 6.1.1 (Sand Boa) >>>> Profile built 01:53 28-Feb-2015 >>>> Kickstarted 01:59 28-Feb-2015 >>>> [pmdtest@compute-0-0 ~]$ which mpirun >>>> /share/apps/openmpi-1.8.4_gcc-4.9.2/bin/mpirun >>>> >>>> The only this I notice important is that in the error it is referring to >>>> >>>> >>>> /export/apps/openmpi-1.8.4_gcc-4.9.2/share/openmpi/help-opal-runtime.txt: >>>> >>>> While it should have shown >>>> /share/apps/openmpi-1.8.4_gcc-4.9.2/share/openmpi/help-opal-runtime.txt: >>>> which is the path compute nodes see. >>>> >>>> Please help! >>>> Ahsan >>>> _______________________________________________ >>>> users mailing list >>>> us...@open-mpi.org >>>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users >>>> Link to this post: >>>> http://www.open-mpi.org/community/lists/users/2015/02/26411.php >>>> >>> >>> _______________________________________________ >>> users mailing list >>> us...@open-mpi.org >>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users >>> Link to this post: >>> http://www.open-mpi.org/community/lists/users/2015/02/26412.php >> >> >> >> > > _______________________________________________ > users mailing list > us...@open-mpi.org > Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users > Link to this post: > http://www.open-mpi.org/community/lists/users/2015/02/26415.php -- Syed Ahsan Ali Bokhari Electronic Engineer (EE) Research & Development Division Pakistan Meteorological Department H-8/4, Islamabad. Phone # off +92518358714 Cell # +923155145014
