On Wed, Oct 31, 2012 at 4:57 PM, Anders Logg <l...@simula.no> wrote: > On Wed, Oct 31, 2012 at 09:34:06AM +0000, Garth N. Wells wrote: > >> Not using Dorsal, I don't know. I do not add the paths of my >> home-baked libraries to LD_LIBRARY_PATH, but rely on CMake to 'bake >> in' the library paths (rpath). I like this because I can be sure which >> libs are being linked in, rather than random bits and pieces that lie >> in the system paths. >> >> What error do you get from Dorsal? > > I don't get the errors from Dorsal. The error is when I build > everything except DOLFIN with Dorsal, then build DOLFIN against that > build with cmake.local. > > What happens then is Python applications (not C++ which are working > fine) fail with this error: >
Try building DOLFIN with the MPI compiler wrappers. It looks like the MPI libs that you built cannot find each other. I've found that I do have to add the path of some shared libs to get the Python module to link correctly. Maybe it works with RPATH=OFF because it picks up system installed MPI libs (which are usually installed if you have other packages installed, e.g. ParaView). Garth > logg@host:~/scratch/src/dolfin/trunk-logg/demo/pde/poisson/python$ >> python demo_poisson.py >> [host:25692] mca: base: component_find: unable to open >> /home/logg/scratch/fenics/lib/openmpi/mca_paffinity_hwloc: >> /home/logg/scratch/fenics/lib/openmpi/mca_paffinity_hwloc.so: >> undefined symbol: opal_hwloc_topology (ignored) >> [host:25692] mca: base: component_find: unable to open >> /home/logg/scratch/fenics/lib/openmpi/mca_carto_auto_detect: >> /home/logg/scratch/fenics/lib/openmpi/mca_carto_auto_detect.so: >> undefined symbol: opal_carto_base_graph_get_host_graph_fn (ignored) >> [host:25692] mca: base: component_find: unable to open >> /home/logg/scratch/fenics/lib/openmpi/mca_carto_file: >> /home/logg/scratch/fenics/lib/openmpi/mca_carto_file.so: undefined >> symbol: opal_carto_base_graph_get_host_graph_fn (ignored) >> [host:25692] mca: base: component_find: unable to open >> /home/logg/scratch/fenics/lib/openmpi/mca_shmem_mmap: >> /home/logg/scratch/fenics/lib/openmpi/mca_shmem_mmap.so: undefined >> symbol: opal_show_help (ignored) >> [host:25692] mca: base: component_find: unable to open >> /home/logg/scratch/fenics/lib/openmpi/mca_shmem_posix: >> /home/logg/scratch/fenics/lib/openmpi/mca_shmem_posix.so: undefined >> symbol: opal_shmem_base_output (ignored) >> [host:25692] mca: base: component_find: unable to open >> /home/logg/scratch/fenics/lib/openmpi/mca_shmem_sysv: >> /home/logg/scratch/fenics/lib/openmpi/mca_shmem_sysv.so: undefined >> symbol: opal_show_help (ignored) > > This goes away if I rebuild DOLFIN with the RPATH=OFF option, or if I > build everything including DOLFIN with Dorsal (since Dorsal adds the > RPATH=OFF option). > > -- > Anders _______________________________________________ Mailing list: https://launchpad.net/~dolfin Post to : dolfin@lists.launchpad.net Unsubscribe : https://launchpad.net/~dolfin More help : https://help.launchpad.net/ListHelp
