Sorry - should have mentioned: do 'rm -rf arch-linux-cxx-opt' and rerun configure again.
The mpich install from previous build [that is currently in arch-linux-cxx-opt/] is conflicting with --with-mpi-dir=/app1/centos6.3/gnu/mvapich2-1.9/ Satish On Wed, 19 Apr 2017, Pham Pham wrote: > I reconfigured PETSs with installed MPI, however, I got serous error: > > **************************ERROR************************************* > Error during compile, check arch-linux-cxx-opt/lib/petsc/conf/make.log > Send it and arch-linux-cxx-opt/lib/petsc/conf/configure.log to > [email protected] > ******************************************************************** > > Please explain what is happening? > > Thank you very much. > > > > > On Wed, Apr 19, 2017 at 11:43 PM, Satish Balay <[email protected]> wrote: > > > Presumably your cluster already has a recommended MPI to use [which is > > already installed. So you should use that - instead of > > --download-mpich=1 > > > > Satish > > > > On Wed, 19 Apr 2017, Pham Pham wrote: > > > > > Hi, > > > > > > I just installed petsc-3.7.5 into my university cluster. When evaluating > > > the computer system, PETSc reports "It appears you have 1 node(s)", I > > donot > > > understand this, since the system is a multinodes system. Could you > > please > > > explain this to me? > > > > > > Thank you very much. > > > > > > S. > > > > > > Output: > > > ========================================= > > > Now to evaluate the computer systems you plan use - do: > > > make PETSC_DIR=/home/svu/mpepvs/petsc/petsc-3.7.5 > > > PETSC_ARCH=arch-linux-cxx-opt streams > > > [mpepvs@atlas7-c10 petsc-3.7.5]$ make > > > PETSC_DIR=/home/svu/mpepvs/petsc/petsc-3.7.5 > > PETSC_ARCH=arch-linux-cxx-opt > > > streams > > > cd src/benchmarks/streams; /usr/bin/gmake --no-print-directory > > > PETSC_DIR=/home/svu/mpepvs/petsc/petsc-3.7.5 > > PETSC_ARCH=arch-linux-cxx-opt > > > streams > > > /home/svu/mpepvs/petsc/petsc-3.7.5/arch-linux-cxx-opt/bin/mpicxx -o > > > MPIVersion.o -c -Wall -Wwrite-strings -Wno-strict-aliasing > > > -Wno-unknown-pragmas -fvisibility=hidden -g -O > > > -I/home/svu/mpepvs/petsc/petsc-3.7.5/include > > > -I/home/svu/mpepvs/petsc/petsc-3.7.5/arch-linux-cxx-opt/include > > > `pwd`/MPIVersion.c > > > Running streams with > > > '/home/svu/mpepvs/petsc/petsc-3.7.5/arch-linux-cxx-opt/bin/mpiexec ' > > using > > > 'NPMAX=12' > > > Number of MPI processes 1 Processor names atlas7-c10 > > > Triad: 9137.5025 Rate (MB/s) > > > Number of MPI processes 2 Processor names atlas7-c10 atlas7-c10 > > > Triad: 9707.2815 Rate (MB/s) > > > Number of MPI processes 3 Processor names atlas7-c10 atlas7-c10 > > atlas7-c10 > > > Triad: 13559.5275 Rate (MB/s) > > > Number of MPI processes 4 Processor names atlas7-c10 atlas7-c10 > > atlas7-c10 > > > atlas7-c10 > > > Triad: 14193.0597 Rate (MB/s) > > > Number of MPI processes 5 Processor names atlas7-c10 atlas7-c10 > > atlas7-c10 > > > atlas7-c10 atlas7-c10 > > > Triad: 14492.9234 Rate (MB/s) > > > Number of MPI processes 6 Processor names atlas7-c10 atlas7-c10 > > atlas7-c10 > > > atlas7-c10 atlas7-c10 atlas7-c10 > > > Triad: 15476.5912 Rate (MB/s) > > > Number of MPI processes 7 Processor names atlas7-c10 atlas7-c10 > > atlas7-c10 > > > atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 > > > Triad: 15148.7388 Rate (MB/s) > > > Number of MPI processes 8 Processor names atlas7-c10 atlas7-c10 > > atlas7-c10 > > > atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 > > > Triad: 15799.1290 Rate (MB/s) > > > Number of MPI processes 9 Processor names atlas7-c10 atlas7-c10 > > atlas7-c10 > > > atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 > > > Triad: 15671.3104 Rate (MB/s) > > > Number of MPI processes 10 Processor names atlas7-c10 atlas7-c10 > > > atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 > > > atlas7-c10 atlas7-c10 > > > Triad: 15601.4754 Rate (MB/s) > > > Number of MPI processes 11 Processor names atlas7-c10 atlas7-c10 > > > atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 > > > atlas7-c10 atlas7-c10 atlas7-c10 > > > Triad: 15434.5790 Rate (MB/s) > > > Number of MPI processes 12 Processor names atlas7-c10 atlas7-c10 > > > atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 > > > atlas7-c10 atlas7-c10 atlas7-c10 atlas7-c10 > > > Triad: 15134.1263 Rate (MB/s) > > > ------------------------------------------------ > > > np speedup > > > 1 1.0 > > > 2 1.06 > > > 3 1.48 > > > 4 1.55 > > > 5 1.59 > > > 6 1.69 > > > 7 1.66 > > > 8 1.73 > > > 9 1.72 > > > 10 1.71 > > > 11 1.69 > > > 12 1.66 > > > Estimation of possible speedup of MPI programs based on Streams > > benchmark. > > > It appears you have 1 node(s) > > > Unable to plot speedup to a file > > > Unable to open matplotlib to plot speedup > > > [mpepvs@atlas7-c10 petsc-3.7.5]$ > > > [mpepvs@atlas7-c10 petsc-3.7.5]$ > > > > > > > >
