[petsc-users] make test freeze
Patrick Begou
Patrick.Begou at legi.grenoble-inp.fr
Fri Jan 6 02:39:39 CST 2017
Hi Matthew,
Launching manualy ex19 shows only one process consuming cpu time, after 952mn
I've killed the job this morning.
[begou at kareline tutorials]$ make ex19
mpicc -o ex19.o -c -Wall -Wwrite-strings -Wno-strict-aliasing
-Wno-unknown-pragmas -fvisibility=hidden -g3
-I/kareline/data/begou/YALES2_1.0.0/PREREQUIS/petsc-git/include
-I/kareline/data/begou/YALES2_1.0.0/PREREQUIS/petsc-git/GCC48/include `pwd`/ex19.c
mpicc -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas
-fvisibility=hidden -g3 -o ex19 ex19.o
-L/kareline/data/begou/YALES2_1.0.0/PREREQUIS/petsc-git/GCC48/lib -lpetsc
-llapack -lblas -lX11 -lhwloc -lssl -lcrypto -L/opt/openmpi173-GCC48-node/lib
-L/opt/GCC48c/lib/gcc/x86_64-unknown-linux-gnu/4.8.1 -L/opt/GCC48c/lib64
-L/opt/GCC48c/lib -lmpi_usempi -lmpi_mpifh -lgfortran -lm -lgfortran -lm
-lquadmath -lm -lmpi_cxx -lstdc++ -L/opt/openmpi173-GCC48-node/lib
-L/opt/GCC48c/lib/gcc/x86_64-unknown-linux-gnu/4.8.1 -L/opt/GCC48c/lib64
-L/opt/GCC48c/lib -ldl -lmpi -lgcc_s -lpthread -ldl
/bin/rm -f ex19.o
[begou at kareline tutorials]$ mpiexec -n 2 ./ex19 -snes_monitor
top command shows:
PID USER PR NI VIRT RES SHR S %CPU %MEM TIME+ COMMAND
32184 begou 20 0 249m 7152 5132 R 99.8 0.0 952:15.97 ex19
32183 begou 20 0 71676 3508 2264 S 0.0 0.0 0:00.04 mpiexec
32185 begou 20 0 185m 7132 5124 S 0.0 0.0 0:00.04 ex19
looks like the first process waiting for something that never occur in MPI
communication....
Patrick
Matthew Knepley a écrit :
> On Thu, Jan 5, 2017 at 6:31 AM, Patrick Begou
> <Patrick.Begou at legi.grenoble-inp.fr> wrote:
>
> I am unable to run any test on petsc. It looks like if the ex19 run freeze
> on the server as it do not use any cpu time and pstree shows
>
> sshd---bash-+-gedit
> `-make---sh-+-gmake---sh---gmake---sh---mpiexec---ex19
> `-tee
> I've tested petsc-3.7.5.tar.gz and the latest sources on the Git repository.
>
>
> All make is doing is running ex19, which you can do by hand. What do you get for
>
> cd $PETSC_DIR
> cd src/snes/examples/tutorials
> make ex19
> mpiexec -n 2 ./ex19 -snes_monitor
>
> Thanks,
>
> Matt
>
> Setup from the Git repo:
> ./configure
> --prefix=/kareline/data/begou/YALES2_1.0.0/PREREQUIS/petsc-git-binaries \
> --PETSC_ARCH=GCC48 \
> --PETSC_DIR=/kareline/data/begou/YALES2_1.0.0/PREREQUIS/petsc-git \
> --with-shared-libraries=0 \
> --with-fortran-interfaces=1 \
> --with-fortran-kernels=1 \
> --with-cc=mpicc \
> --with-fc=mpif90 \
> --with-cxx=mpicxx
>
> make PETSC_DIR=/kareline/data/begou/YALES2_1.0.0/PREREQUIS/petsc-git
> PETSC_ARCH=GCC48 all
>
> make PETSC_DIR=/kareline/data/begou/YALES2_1.0.0/PREREQUIS/petsc-git
> PETSC_ARCH=GCC48 install
>
> make
> PETSC_DIR=/kareline/data/begou/YALES2_1.0.0/PREREQUIS/petsc-git-binaries
> PETSC_ARCH="" test
>
>
> In the log file I've just:
>
> Running test examples to verify correct installation
> Using
> PETSC_DIR=/kareline/data/begou/YALES2_1.0.0/PREREQUIS/petsc-git-binaries
> and PETSC_ARCH=
>
> I'm using:
> gcc version 4.8.1
> Open MPI: 1.7.3 (build with gcc 4.8.1)
> (This environment is in production for a while for many local software and
> works fine)
>
> Any suggestion is welcome
>
> Patrick
>
> --
> ===================================================================
> | Equipe M.O.S.T. | |
> | Patrick BEGOU | mailto:Patrick.Begou at grenoble-inp.fr
> <mailto:Patrick.Begou at grenoble-inp.fr> |
> | LEGI | |
> | BP 53 X | Tel 04 76 82 51 35 |
> | 38041 GRENOBLE CEDEX | Fax 04 76 82 52 71 |
> ===================================================================
>
>
>
>
> --
> What most experimenters take for granted before they begin their experiments
> is infinitely more interesting than any results to which their experiments lead.
> -- Norbert Wiener
--
===================================================================
| Equipe M.O.S.T. | |
| Patrick BEGOU |mailto:Patrick.Begou at grenoble-inp.fr |
| LEGI | |
| BP 53 X | Tel 04 76 82 51 35 |
| 38041 GRENOBLE CEDEX | Fax 04 76 82 52 71 |
===================================================================
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20170106/1af77031/attachment.html>
More information about the petsc-users
mailing list