On Sep 28, 2011, at 5:02 PM, Blosch, Edwin L wrote: > ./configure --prefix=/release/cfd/openmpi-intel --without-tm --without-sge > --without-lsf --without-psm --without-portals --without-elan --without-slurm > --without-loadleveler --without-libnuma --enable-mpirun-prefix-by-default > --enable-contrib-no-build=vt --enable-mca-no-build=maffinity > --disable-per-user-config-files --disable-io-romio --enable-static > --disable-shared --without-openib CXX=/appserv/intel/cce/10.1.021/bin/icpc > CC=/appserv/intel/cce/10.1.021/bin/icc 'CFLAGS= -O2' 'CXXFLAGS= -O2' > F77=/appserv/intel/fce/10.1.021/bin/ifort 'FFLAGS=-D_GNU_SOURCE -traceback > -O2' FC=/appserv/intel/fce/10.1.021/bin/ifort 'FCFLAGS=-D_GNU_SOURCE > -traceback -O2' 'LDFLAGS= -static-intel
The weird thing here is that I am unable to replicate this issue. :-\ I thought that if I tried essentially the same configure line as above, I should see the same issue, because I have libnuma.so and no libnuma.a. But it worked fine (i.e., OMPI build and installed fine, and I'm able to compile/link MPI applications just fine). Huh. > The error messages upon linking the application are unchanged: >> /scratch1/bloscel/builds/release/openmpi-intel/lib/libmpi.a(topology-linux.o): >> In function `hwloc_linux_alloc_membind': >> topology-linux.c:(.text+0x1da): undefined reference to `mbind' > > Re: NUMA: It appears there is a /usr/lib64/libnuma.so but no static version. > There is /usr/include/numa.h and /usr/include/numaif.h. > > I don't understand about make V=1. What tree? Somewhere in the OpenMPI build, > or in the application compilation itself? Is "V=1" something in the OpenMPI > makefile structure? Sorry, "make V=1" is part of OMPI's build system. If you "make V=1" in the v1.5 (and later) OMPI, it'll show you the whole compile line instead of the abbreviated output. > Thanks, > > Ed > > -----Original Message----- > From: users-boun...@open-mpi.org [mailto:users-boun...@open-mpi.org] On > Behalf Of Jeff Squyres > Sent: Wednesday, September 28, 2011 11:05 AM > To: Open MPI Users > Subject: EXTERNAL: Re: [OMPI users] Unresolved reference 'mbind' and > 'get_mempolicy' > > Yowza; that sounds like a configury bug. :-( > > What line were you using to configure Open MPI? Do you have libnuma > installed? If so, do you have the .h and .so files? Do you have the .a file? > > Can you send the last few lines of output from a failed "make V=1" in that > tree? (it'll show us the exact commands used to compile/link, etc.) > > > On Sep 28, 2011, at 11:55 AM, Blosch, Edwin L wrote: > >> I am getting some undefined references in building OpenMPI 1.5.4 and I would >> like to know how to work around it. >> >> The errors look like this: >> >> /scratch1/bloscel/builds/release/openmpi-intel/lib/libmpi.a(topology-linux.o): >> In function `hwloc_linux_alloc_membind': >> topology-linux.c:(.text+0x1da): undefined reference to `mbind' >> topology-linux.c:(.text+0x213): undefined reference to `mbind' >> /scratch1/bloscel/builds/release/openmpi-intel/lib/libmpi.a(topology-linux.o): >> In function `hwloc_linux_set_area_membind': >> topology-linux.c:(.text+0x414): undefined reference to `mbind' >> topology-linux.c :(.text+0x46c): undefined reference to `mbind' >> /scratch1/bloscel/builds/release/openmpi-intel/lib/libmpi.a(topology-linux.o): >> In function `hwloc_linux_get_thisthread_membind': >> topology-linux.c:(.text+0x4ff): undefined reference to `get_mempolicy' >> topology-linux.c:(.text+0x5ff): undefined reference to `get_mempolicy' >> /scratch1/bloscel/builds/release/openmpi-intel/lib/libmpi.a(topology-linux.o): >> In function `hwloc_linux_set_thisthread_membind': >> topology-linux.c:(.text+0x7b5): undefined reference to `migrate_pages' >> topology-linux.c:(.text+0x7e9): undefined reference to `set_mempolicy' >> topology-linux.c:(.text+0x831): undefined reference to `set_mempolicy' >> make: *** [main] Error 1 >> >> S ome configure output that is probably relevant: >> >> checking numaif.h usability... yes >> checking numaif.h presence... yes >> checking for numaif.h... yes >> checking for set_mempolicy in -lnuma... yes >> checking for mbind in -lnuma... yes >> checking for migrate_pages in -lnuma... yes >> >> The FAQ says that I should have to give -with-libnuma explicitly, but I did >> not do that. Is there a problem with configure? Or the FAQ? Or perhaps >> the system has a configuration peculiarity? >> >> On another system, the configure output is different, and there are no >> unresolved references: >> >> checking numaif.h usability... no >> checking numaif.h presence... no >> checking for numaif.h... no >> >> What is the configure option that will make the unresolved references go >> away? >> >> Thanks, >> >> Ed >> _______________________________________________ >> users mailing list >> us...@open-mpi.org >> http://www.open-mpi.org/mailman/listinfo.cgi/users > > > -- > Jeff Squyres > jsquy...@cisco.com > For corporate legal information go to: > http://www.cisco.com/web/about/doing_business/legal/cri/ > > > _______________________________________________ > 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 -- Jeff Squyres jsquy...@cisco.com For corporate legal information go to: http://www.cisco.com/web/about/doing_business/legal/cri/
