> On Mar 11, 2015, at 1:47 PM, Satish Balay <[email protected]> wrote: > > Actually mumps is being used - so fortran is required [by mumps] > > The reason for the 'multiple' libgfortran messages is: openmpi is > compiled with an older version of gcc/gfortran >
You are right about openmpi being build with an older version of the compiler. I am trying to mix and match codes. > [and I suspect its harmless - as the binaries are created] > > The primary issue to check: is this openmpi install functional - if so > how do you run mpi binaries? Perhaps its a cluster - and have to go > through a scheduler.. [i.e make check is perhaps inappropriate for > this case] This might be true. This is my first time working on this system, so I need to find out the details. > > Satish > ---------- > > Python version: > 2.4.2 (#1, Jan 10 2008, 17:43:47) > [GCC 4.1.2 20070115 (prerelease) (SUSE Linux)] > > Executing: mpicc --version > stdout: > gcc (GCC) 4.8.3 > > Executing: mpicc -show > stdout: gcc -I/usr/local/mpi/x86_64/openmpi-1.4.2/include -pthread > -L/usr/local/mpi/x86_64/openmpi-1.4.2/lib -lmpi -lopen-rte -lopen-pal -ldl > -Wl,--export-dynamic -lnsl -lutil -lm -ldl > > Driving: /usr/local/gnu/gcc-4.8.3/bin/gfortran -o > /tmp/petsc-X1bXQ9/config.compilers/conftest -v -Wall -Wno-unused-variable > -ffree-line-length-0 -Wno-unused-dummy-argument -O > /tmp/petsc-X1bXQ9/config.compilers/conftest.o > -L/usr/local/mpi/x86_64/openmpi-1.4.2/lib > -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib/gcc/x86_64-unknown-linux-gnu/4.8.3 > -L/usr/local/s\ > erver/x86_64-SuSE10/gnu/gcc-4.8.3/lib/gcc > -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib64 > -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib -ldl -lmpi -lopen-rte > -lopen-pal -lnsl -lutil -lgcc_s -lpthread -ldl > -I/usr/local/mpi/x86_64/openmpi-1.4.2/include -pthread > -I/usr/local/mpi/x86_64/openmpi-1.4.2/lib > -L/usr/local/mpi/x86_64/openmpi-1.4.2/lib -lmpi_f90 -lmpi_f77 -lmpi > -lopen-rte -lopen-pal -ldl -Wl,--export-dynamic -lnsl -lutil -l gfortran -lm > -ldl -l gfortran -l m -shared-libgcc > -specs=/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib64/libgfortran.spec > > > /usr/local/gnu/gcc-4.8.3/binutils/bin/ld: warning: libgfortran.so.1, needed > by /usr/local/mpi/x86_64/openmpi-1.4.2/lib/libmpi_f90.so, may conflict with > libgfortran.so.3 > > > > On Wed, 11 Mar 2015, Barry Smith wrote: > >> >> Since you are providing mpicc and mpicxx do not provide the >> --with-mpi-include= --with-mpi-lib= >> >> I notice you have --with-fortran=0 if you do not want fortran than use >> --with-fc=0 and do not provide --FC and this may solve the gfortran issue >> >> Barry >> >> >> >>> On Mar 11, 2015, at 1:24 PM, Manav Bhatia <[email protected]> wrote: >>> >>> I apologize for not sending these files along. Here they are for the two >>> machines. >>> >>> Really appreciate your help. >>> >>> -Manav >>> >>> >>>> On Mar 11, 2015, at 1:21 PM, Barry Smith <[email protected]> wrote: >>>> >>>> >>>> Lots of problems with your system but the biggest is that it appears you >>>> have two gfortran installs that interfere with each other. If you had >>>> followed the instructions and sent configure.log and make.log we could >>>> help you more. >>>> >>>> Barry >>>> >>>> >>>>> On Mar 11, 2015, at 1:12 PM, Manav Bhatia <[email protected]> wrote: >>>>> >>>>> Greetings! >>>>> >>>>> I have come across the following error while running make check. I am >>>>> not sure where to begin to sort this out. Any pointers would be greatly >>>>> appreciated. >>>>> >>>>> Talon-login[114] bhatia$ make check >>>>> gmake[1]: Entering directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3' >>>>> Running test examples to verify correct installation >>>>> Using PETSC_DIR=/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3 and >>>>> PETSC_ARCH=arch-linux2-cxx-opt >>>>> gmake[2]: Entering directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> gmake[2]: Leaving directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> gmake[2]: Entering directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> *******************Error detected during compile or >>>>> link!******************* >>>>> See http://www.mcs.anl.gov/petsc/documentation/faq.html >>>>> /cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials >>>>> ex19 >>>>> ********************************************************************************* >>>>> gmake[3]: Entering directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> gmake[4]: Entering directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> gmake[4]: Leaving directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> mpicxx -o ex19.o -c -Wall -Wwrite-strings -Wno-strict-aliasing >>>>> -Wno-unknown-pragmas -O >>>>> -I/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/include >>>>> -I/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/arch-linux2-cxx-opt/include >>>>> -I/usr/local/openssl/x86_64/include >>>>> -I/usr/local/mpi/x86_64/openmpi/include >>>>> -I/usr/local/mpi/x86_64/openmpi-1.4.2/include `pwd`/ex19.c >>>>> mpicxx -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -O >>>>> -o ex19 ex19.o >>>>> -L/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/arch-linux2-cxx-opt/lib >>>>> -lpetsc >>>>> -Wl,-rpath,/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/arch-linux2-cxx-opt/lib >>>>> -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lscalapack >>>>> -lsuperlu_4.3 -lsuperlu_dist_3.3 >>>>> -Wl,-rpath,/cavs/projects/sams/codes/raptor/lapack >>>>> -L/cavs/projects/sams/codes/raptor/lapack -llapack >>>>> -Wl,-rpath,/cavs/projects/sams/codes/raptor/blas >>>>> -L/cavs/projects/sams/codes/raptor/blas -lblas -lparmetis -lmetis >>>>> -lpthread -Wl,-rpath,/usr/local/openssl/x86_64/lib >>>>> -L/usr/local/openssl/x86_64/lib -lssl -lcrypto >>>>> -Wl,-rpath,/usr/local/mpi/x86_64/openmpi/lib >>>>> -L/usr/local/mpi/x86_64/openmpi/lib -lmpi_cxx -lmpi >>>>> -L/usr/local/mpi/x86_64/openmpi-1.4.2/lib >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib/gcc/x86_64-unknown-linux-gnu/4.8.3 >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib/gcc >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib64 >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib -lmpi_f90 -lmpi_f77 >>>>> -lgfortran -lm -lgfortran -lm -lgfortran -lm -lquadmath -lm -lmpi_cxx >>>>> -lstdc++ -L/usr/local/mpi/x86_64/openmpi-1.4.2/lib >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib/gcc/x86_64-unknown-linux-gnu/4.8.3 >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib/gcc >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib64 >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib -ldl -lmpi -lopen-rte >>>>> -lopen-pal -lnsl -lutil -lgcc_s -lpthread -ldl >>>>> /usr/local/gnu/gcc-4.8.3/binutils/bin/ld: warning: libgfortran.so.1, >>>>> needed by /usr/local/mpi/x86_64/openmpi/lib/libmpi_f90.so, may conflict >>>>> with libgfortran.so.3 >>>>> /usr/local/gnu/gcc-4.8.3/binutils/bin/ld: warning: libgfortran.so.1, >>>>> needed by /usr/local/mpi/x86_64/openmpi/lib/libmpi_f90.so, may conflict >>>>> with libgfortran.so.3 >>>>> /usr/local/gnu/gcc-4.8.3/binutils/bin/ld: warning: libgfortran.so.1, >>>>> needed by /usr/local/mpi/x86_64/openmpi/lib/libmpi_f90.so, may conflict >>>>> with libgfortran.so.3 >>>>> /bin/rm -f ex19.o >>>>> gmake[3]: Leaving directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> Possible error running C/C++ src/snes/examples/tutorials/ex19 with 1 MPI >>>>> process >>>>> See http://www.mcs.anl.gov/petsc/documentation/faq.html >>>>> libibverbs: Warning: RLIMIT_MEMLOCK is 32768 bytes. >>>>> This will severely limit memory registrations. >>>>> libibverbs: Warning: couldn't open config directory '/etc/libibverbs.d'. >>>>> libibverbs: Warning: no userspace device-specific driver found for >>>>> /sys/class/infiniband_verbs/uverbs0 >>>>> CMA: unable to open /dev/infiniband/rdma_cm >>>>> libibverbs: Warning: RLIMIT_MEMLOCK is 32768 bytes. >>>>> This will severely limit memory registrations. >>>>> libibverbs: Warning: couldn't open config directory '/etc/libibverbs.d'. >>>>> [Talon-login:18281] *** Process received signal *** >>>>> [Talon-login:18281] Signal: Segmentation fault (11) >>>>> [Talon-login:18281] Signal code: Address not mapped (1) >>>>> [Talon-login:18281] Failing at address: 0x100002990 >>>>> [Talon-login:18281] [ 0] /lib64/libpthread.so.0 [0x2b8e9cbc6c00] >>>>> [Talon-login:18281] [ 1] /usr/ofed/lib64/libibverbs.so.1 [0x2b8e9fcad4ce] >>>>> [Talon-login:18281] [ 2] >>>>> /usr/ofed/lib64/libibverbs.so.1(ibv_get_device_list+0x9e) [0x2b8e9fcac49e] >>>>> [Talon-login:18281] [ 3] >>>>> /usr/local/mpi/x86_64/openmpi-1.4.2/lib/openmpi/mca_btl_openib.so >>>>> [0x2b8e9fdbe15a] >>>>> [Talon-login:18281] [ 4] >>>>> /usr/local/mpi/x86_64/openmpi/lib/libmpi.so.0(mca_btl_base_select+0x156) >>>>> [0x2b8e9d223166] >>>>> [Talon-login:18281] [ 5] >>>>> /usr/local/mpi/x86_64/openmpi-1.4.2/lib/openmpi/mca_bml_r2.so >>>>> [0x2b8e9f997821] >>>>> [Talon-login:18281] [ 6] >>>>> /usr/local/mpi/x86_64/openmpi/lib/libmpi.so.0(mca_bml_base_init+0x72) >>>>> [0x2b8e9d222972] >>>>> [Talon-login:18281] [ 7] >>>>> /usr/local/mpi/x86_64/openmpi-1.4.2/lib/openmpi/mca_pml_ob1.so >>>>> [0x2b8e9f77fc8f] >>>>> [Talon-login:18281] [ 8] >>>>> /usr/local/mpi/x86_64/openmpi/lib/libmpi.so.0(mca_pml_base_select+0x383) >>>>> [0x2b8e9d22c743] >>>>> [Talon-login:18281] [ 9] /usr/local/mpi/x86_64/openmpi/lib/libmpi.so.0 >>>>> [0x2b8e9d1f0050] >>>>> [Talon-login:18281] [10] >>>>> /usr/local/mpi/x86_64/openmpi/lib/libmpi.so.0(PMPI_Init_thread+0xc1) >>>>> [0x2b8e9d20db41] >>>>> [Talon-login:18281] [11] ./ex19(PetscInitialize+0x1bd) [0x4990fe] >>>>> [Talon-login:18281] [12] ./ex19(main+0x2a) [0x48471e] >>>>> [Talon-login:18281] [13] /lib64/libc.so.6(__libc_start_main+0xf4) >>>>> [0x2b8e9e331164] >>>>> [Talon-login:18281] [14] ./ex19 [0x482639] >>>>> [Talon-login:18281] *** End of error message *** >>>>> -------------------------------------------------------------------------- >>>>> mpirun noticed that process rank 0 with PID 18281 on node >>>>> Talon-login.HPC.MsState.Edu exited on signal 11 (Segmentation fault). >>>>> -------------------------------------------------------------------------- >>>>> Possible error running C/C++ src/snes/examples/tutorials/ex19 with 2 MPI >>>>> processes >>>>> See http://www.mcs.anl.gov/petsc/documentation/faq.html >>>>> libibverbs: Warning: RLIMIT_MEMLOCK is 32768 bytes. >>>>> This will severely limit memory registrations. >>>>> libibverbs: Warning: couldn't open config directory '/etc/libibverbs.d'. >>>>> libibverbs: Warning: no userspace device-specific driver found for >>>>> /sys/class/infiniband_verbs/uverbs0 >>>>> CMA: unable to open /dev/infiniband/rdma_cm >>>>> libibverbs: Warning: RLIMIT_MEMLOCK is 32768 bytes. >>>>> This will severely limit memory registrations. >>>>> libibverbs: Warning: couldn't open config directory '/etc/libibverbs.d'. >>>>> [Talon-login:18286] *** Process received signal *** >>>>> [Talon-login:18286] Signal: Segmentation fault (11) >>>>> [Talon-login:18286] Signal code: Address not mapped (1) >>>>> [Talon-login:18286] Failing at address: 0x100002990 >>>>> [Talon-login:18286] [ 0] /lib64/libpthread.so.0 [0x2acc0604ec00] >>>>> [Talon-login:18286] [ 1] /usr/ofed/lib64/libibverbs.so.1 [0x2acc091354ce] >>>>> [Talon-login:18286] [ 2] >>>>> /usr/ofed/lib64/libibverbs.so.1(ibv_get_device_list+0x9e) [0x2acc0913449e] >>>>> [Talon-login:18286] [ 3] >>>>> /usr/local/mpi/x86_64/openmpi-1.4.2/lib/openmpi/mca_btl_openib.so >>>>> [0x2acc0924615a] >>>>> [Talon-login:18286] [ 4] >>>>> /usr/local/mpi/x86_64/openmpi/lib/libmpi.so.0(mca_btl_base_select+0x156) >>>>> [0x2acc066ab166] >>>>> [Talon-login:18286] [ 5] >>>>> /usr/local/mpi/x86_64/openmpi-1.4.2/lib/openmpi/mca_bml_r2.so >>>>> [0x2acc08e1f821] >>>>> [Talon-login:18286] [ 6] >>>>> /usr/local/mpi/x86_64/openmpi/lib/libmpi.so.0(mca_bml_base_init+0x72) >>>>> [0x2acc066aa972] >>>>> [Talon-login:18286] [ 7] >>>>> /usr/local/mpi/x86_64/openmpi-1.4.2/lib/openmpi/mca_pml_ob1.so >>>>> [0x2acc08c07c8f] >>>>> [Talon-login:18286] [ 8] >>>>> /usr/local/mpi/x86_64/openmpi/lib/libmpi.so.0(mca_pml_base_select+0x383) >>>>> [0x2acc066b4743] >>>>> [Talon-login:18286] [ 9] /usr/local/mpi/x86_64/openmpi/lib/libmpi.so.0 >>>>> [0x2acc06678050] >>>>> [Talon-login:18286] [10] >>>>> /usr/local/mpi/x86_64/openmpi/lib/libmpi.so.0(PMPI_Init_thread+0xc1) >>>>> [0x2acc06695b41] >>>>> [Talon-login:18286] [11] ./ex19(PetscInitialize+0x1bd) [0x4990fe] >>>>> [Talon-login:18286] [12] ./ex19(main+0x2a) [0x48471e] >>>>> [Talon-login:18286] [13] /lib64/libc.so.6(__libc_start_main+0xf4) >>>>> [0x2acc077b9164] >>>>> [Talon-login:18286] [14] ./ex19 [0x482639] >>>>> [Talon-login:18286] *** End of error message *** >>>>> -------------------------------------------------------------------------- >>>>> mpirun noticed that process rank 0 with PID 18286 on node >>>>> Talon-login.HPC.MsState.Edu exited on signal 11 (Segmentation fault). >>>>> -------------------------------------------------------------------------- >>>>> gmake[3]: Entering directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> gmake[3]: Leaving directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> gmake[2]: Leaving directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> gmake[2]: Entering directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> *******************Error detected during compile or >>>>> link!******************* >>>>> See http://www.mcs.anl.gov/petsc/documentation/faq.html >>>>> /cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials >>>>> ex5f >>>>> ********************************************************* >>>>> gmake[3]: Entering directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> mpif90 -c -Wall -Wno-unused-variable -ffree-line-length-0 >>>>> -Wno-unused-dummy-argument -O >>>>> -I/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/include >>>>> -I/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/arch-linux2-cxx-opt/include >>>>> -I/usr/local/openssl/x86_64/include >>>>> -I/usr/local/mpi/x86_64/openmpi/include >>>>> -I/usr/local/mpi/x86_64/openmpi-1.4.2/include -o ex5f.o ex5f.F >>>>> mpif90 -Wall -Wno-unused-variable -ffree-line-length-0 >>>>> -Wno-unused-dummy-argument -O -o ex5f ex5f.o >>>>> -L/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/arch-linux2-cxx-opt/lib >>>>> -lpetsc >>>>> -Wl,-rpath,/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/arch-linux2-cxx-opt/lib >>>>> -lcmumps -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lscalapack >>>>> -lsuperlu_4.3 -lsuperlu_dist_3.3 >>>>> -Wl,-rpath,/cavs/projects/sams/codes/raptor/lapack >>>>> -L/cavs/projects/sams/codes/raptor/lapack -llapack >>>>> -Wl,-rpath,/cavs/projects/sams/codes/raptor/blas >>>>> -L/cavs/projects/sams/codes/raptor/blas -lblas -lparmetis -lmetis >>>>> -lpthread -Wl,-rpath,/usr/local/openssl/x86_64/lib >>>>> -L/usr/local/openssl/x86_64/lib -lssl -lcrypto >>>>> -Wl,-rpath,/usr/local/mpi/x86_64/openmpi/lib >>>>> -L/usr/local/mpi/x86_64/openmpi/lib -lmpi_cxx -lmpi >>>>> -L/usr/local/mpi/x86_64/openmpi-1.4.2/lib >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib/gcc/x86_64-unknown-linux-gnu/4.8.3 >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib/gcc >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4..8.3/lib64 >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib -lmpi_f90 -lmpi_f77 >>>>> -lgfortran -lm -lgfortran -lm -lgfortran -lm -lquadmath -lm -lmpi_cxx >>>>> -lstdc++ -L/usr/local/mpi/x86_64/openmpi-1.4.2/lib >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib/gcc/x86_64-unknown-linux-gnu/4.8.3 >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib/gcc >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib64 >>>>> -L/usr/local/server/x86_64-SuSE10/gnu/gcc-4.8.3/lib -ldl -lmpi -lopen-rte >>>>> -lopen-pal -lnsl -lutil -lgcc_s -lpthread -ldl >>>>> /usr/local/gnu/gcc-4.8.3/binutils/bin/ld: warning: libgfortran.so.1, >>>>> needed by /usr/local/mpi/x86_64/openmpi/lib/libmpi_f90.so, may conflict >>>>> with libgfortran.so.3 >>>>> /usr/local/gnu/gcc-4.8.3/binutils/bin/ld: warning: libgfortran.so.1, >>>>> needed by /usr/local/mpi/x86_64/openmpi/lib/libmpi_f90.so, may conflict >>>>> with libgfortran.so.3 >>>>> /usr/local/gnu/gcc-4.8.3/binutils/bin/ld: warning: libgfortran.so.1, >>>>> needed by /usr/local/mpi/x86_64/openmpi/lib/libmpi_f90.so, may conflict >>>>> with libgfortran.so.3 >>>>> /usr/local/gnu/gcc-4.8.3/binutils/bin/ld: warning: libgfortran.so.1, >>>>> needed by /usr/local/mpi/x86_64/openmpi/lib/libmpi_f90.so, may conflict >>>>> with libgfortran.so.3 >>>>> /usr/local/gnu/gcc-4.8.3/binutils/bin/ld: warning: libgfortran.so.1, >>>>> needed by /usr/local/mpi/x86_64/openmpi/lib/libmpi_f90.so, may conflict >>>>> with libgfortran.so.3 >>>>> /usr/local/gnu/gcc-4.8.3/binutils/bin/ld: warning: libgfortran.so.1, >>>>> needed by /usr/local/mpi/x86_64/openmpi/lib/libmpi_f90.so, may conflict >>>>> with libgfortran.so.3 >>>>> /bin/rm -f ex5f.o >>>>> gmake[3]: Leaving directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> Possible error running Fortran example src/snes/examples/tutorials/ex5f >>>>> with 1 MPI process >>>>> See http://www.mcs.anl.gov/petsc/documentation/faq.html >>>>> libibverbs: Warning: RLIMIT_MEMLOCK is 32768 bytes. >>>>> This will severely limit memory registrations. >>>>> libibverbs: Warning: couldn't open config directory '/etc/libibverbs.d'. >>>>> libibverbs: Warning: no userspace device-specific driver found for >>>>> /sys/class/infiniband_verbs/uverbs0 >>>>> CMA: unable to open /dev/infiniband/rdma_cm >>>>> libibverbs: Warning: RLIMIT_MEMLOCK is 32768 bytes. >>>>> This will severely limit memory registrations. >>>>> libibverbs: Warning: couldn't open config directory '/etc/libibverbs.d'. >>>>> >>>>> Program received signal SIGSEGV: Segmentation fault - invalid memory >>>>> reference. >>>>> >>>>> Backtrace for this error: >>>>> #0 0x2B6CD4A6F4D7 >>>>> #1 0x2B6CD4A6FADE >>>>> #2 0x2B6CD5805E1F >>>>> #3 0x2B6CD716F4CE >>>>> #4 0x2B6CD716E49D >>>>> #5 0x2B6CD7280159 >>>>> #6 0x2B6CD46E5165 >>>>> #7 0x2B6CD6E59820 >>>>> #8 0x2B6CD46E4971 >>>>> #9 0x2B6CD6C41C8E >>>>> #10 0x2B6CD46EE742 >>>>> #11 0x2B6CD46B204F >>>>> #12 0x2B6CD46CF99F >>>>> #13 0x2B6CD494AA84 >>>>> #14 0x489A6D in petscinitialize_ >>>>> #15 0x487CEC in MAIN__ at ex5f.F:? >>>>> -------------------------------------------------------------------------- >>>>> mpirun noticed that process rank 0 with PID 18354 on node >>>>> Talon-login.HPC.MsState.Edu exited on signal 11 (Segmentation fault). >>>>> -------------------------------------------------------------------------- >>>>> gmake[3]: Entering directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> gmake[3]: Leaving directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> gmake[2]: Leaving directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> gmake[2]: Entering directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> gmake[2]: Leaving directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3/src/snes/examples/tutorials' >>>>> Completed test examples >>>>> gmake[1]: Leaving directory >>>>> `/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3' >>>>> ========================================= >>>>> Now to evaluate the computer systems you plan use - do: >>>>> make PETSC_DIR=/cavs/projects/sams/codes/raptor/petsc/petsc-3.5.3 >>>>> PETSC_ARCH=arch-linux2-cxx-opt streams NPMAX=<number of MPI processes you >>>>> intend to use> >>>>> Talon-login[115] bhatia$ >>>>> >>>>> >>>>> Thanks, >>>>> Manav >>>>> >>>> >>> >>> <configure_shadow.log><configure_talon.log><make_shadow.log><make_talon.log> >> >>
