[Octopus-users] error in compilation octopus 4.1.2 in parallel mode

Sorosh Rasti so.rasty at gmail.com
Fri Apr 25 07:46:29 WEST 2014


thanks for your help
the memory that is used is high and octopus only uses a small part of it


On Thu, Apr 24, 2014 at 7:55 PM, David Strubbe <dstrubbe at mit.edu> wrote:

> Most likely out of memory. That test has probably the highest memory
> demand in the testsuite.
>
> David
>
>
> On Thu, Apr 24, 2014 at 5:42 AM, Sorosh Rasti <so.rasty at gmail.com> wrote:
>
>> I install octopus in ubuntu 12.0.4 as the same mentioned in the
>>
>> http://www.tddft.org/programs/octopus/wiki/index.php/Manual:Specific_architectures
>>  in make check all tests are Ok but one of them fails as described below
>>
>>  Starting test 3: components/03-derivatives_3d.test
>>
>>  ***** Derivatives 3D *****
>>
>> Using workdir    : /tmp/octopus.GnhpK4
>> Using executable :
>> /home/soroosh/octopus-4.1.3/testsuite/../src/main/oct-test_mpi
>> Using test file  : ./components/03-derivatives_3d.test
>>
>>
>> Using input file : ./components/03-derivatives_3d.01.inp
>>
>> Starting test run ...
>> /home/soroosh/octopus-4.1.3/testsuite/../src/main/oct-test_mpi
>> Executing: cd /tmp/octopus.GnhpK4;  /usr/bin/mpiexec -n 2
>> /home/soroosh/octopus-4.1.3/testsuite/../src/main/oct-test_mpi > out
>> --------------------------------------------------------------------------
>> mpiexec noticed that process rank 0 with PID 46523 on node ubuntu exited
>> on signal 9 (Killed).
>> --------------------------------------------------------------------------
>>  Elapsed time:     96.6 s
>>
>>
>>
>> Test run failed with exit code 35072.
>>
>>  Execution                              :  [  FAIL  ]
>>
>> also when I run octopus_mpi in td mode it gives below error
>>
>> MPI_ABORT was invoked on rank 0 in communicator MPI_COMM_WORLD
>> with errorcode 999.
>>
>> NOTE: invoking MPI_ABORT causes Open MPI to kill all MPI processes.
>> You may or may not see output from other processes, depending on
>> exactly when Open MPI kills them.
>> --------------------------------------------------------------------------
>> --------------------------------------------------------------------------
>> mpirun has exited due to process rank 0 with PID 46666 on
>> node ubuntu exiting without calling "finalize". This may
>> have caused other processes in the application to be
>> terminated by signals sent by mpirun (as reported here).
>> --------------------------------------------------------------------------
>> [ubuntu:46665] 1 more process has sent help message help-mpi-api.txt /
>> mpi-abort
>> [ubuntu:46665] Set MCA parameter "orte_base_help_aggregate" to 0 to see
>> all help / error messages
>>
>> what should I do
>> thanks in advance
>>
>> _______________________________________________
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>> Octopus-users at tddft.org
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>>
>>
>
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