Hi Tom, as discussed, the following threads may help You? http://www.open-mpi.org/community/lists/users/2009/02/8158.php http://www.open-mpi.org/faq/?category=running#loading-libmpi-dynamically
With best regards, Rainer On Monday 13 July 2009 12:53:54 pm Evans, Thomas M. wrote: > I've been using openmpi-1.2.x for 2 years to dynamically create python > bindings for my application code. I've just downloaded and installed > openmpi-1.3.2, and I now get the following error when trying to run python > with one of my bindings: > > /data/python/current/bin/python: symbol lookup error: > /data/mpi/gcc-4.3.2/openmpi-1.3.2/lib/openmpi/mca_paffinity_linux.so: > undefined symbol: mca_base_param_reg_int > > All of my regular executables work fine. > > To build one of my bindings I use the following configure line: > > mpic++ -pthread -shared -Xlinker > -R/data/vendors/gcc/silo/lib/:/data/vendors/gsl-1.9/lib/:/data/mpi/gcc-4.3. >2 > /openmpi-1.3.2/lib:/data/gcc/current/lib:/home/9te/work/Sn/build/debug/deno >v > o/src/pykba:/home/9te/work/Sn/build/debug/denovo/src/pykba/..:/home/9te/wor >k /Sn/build/debug/lib -o _hybrid.so hybrid_wrap.o SC.pt.o Database.o > denovo.o Mavric_Parser.o Source.o Mat.o Objects.o Map.o Viz.o Angles.o > MC_Manager.o WW.o Problem_Output.o -L/home/9te/work/Sn/build/debug/lib > -ldenovo_kba_utils -ldenovo_kba -ldenovo_source -ldenovo_material > -ldenovo_angle > -ldenovo_database -ldenovo_meshing -ldenovo_utils -ldenovo_comm > -ldenovo_harness -ldenovo_release -L/data/vendors/gcc/trilinos/ompicxx/lib/ > -lamesos -laztecoo -lepetraext -lepetra -lteuchos -ltriutils > -L/data/vendors/gsl-1.9/lib/ -lgsl -lgslcblas > -L/data/vendors/gcc/atlas/lib/ -llapack -lf77blas -lcblas -latlas > -L/data/vendors/gcc/silo/lib/ -lsiloh5 -L/data/vendors/gcc/hdf5/lib/ -lhdf5 > -lz > -L/home/data/gcc/gcc-4.3.2/bin/../lib/gcc/i686-pc-linux-gnu/4.3.2 > -L/home/data/gcc/gcc-4.3.2/bin/../lib/gcc > -L/home/data/gcc/gcc-4.3.2/bin/../lib/gcc/i686-pc-linux-gnu/4.3.2/../../.. > -lgfortranbegin -lgfortran -lm -lgcc_s -lm > > I noticed on the mail archive a post related to this issue back in 2005 ( > From: Jeff Squyres (jsquyres_at_[hidden]) Date: 2005-09-15 15:32:21); > however, I am assuming that this issue has been resolved since then. Is > there something I need to do extra? I know the symbol in question is > defined in libopen-pal.so, so it does exist, and mpic++ does include it on > the link-line. As mentioned in the older post, LD_LIBRARY_PATH tinkering > will not fix the problem. Any help is greatly appreciated. > > Tom -- ------------------------------------------------------------------------ Rainer Keller, PhD Tel: +1 (865) 241-6293 Oak Ridge National Lab Fax: +1 (865) 241-4811 PO Box 2008 MS 6164 Email: kel...@ornl.gov Oak Ridge, TN 37831-2008 AIM/Skype: rusraink
