Jennifer Williams wrote:
Dear All,
I am having problems compiling gromacs 4.0.7 in parallel. I am following
the
Quick and Dirty Installation instructions on the gromacs webpage.
I downloaded the the versions of fftw, OpenMPI and gromacs-4.0.7
following these instructions.
Everything seems to compile OK and I get all the serial executables
including mdrun written to my bin directory and they seem to run fine.
However when I try to run mdrun_mpi on 6 nodes I get the following:
[vlxbig16:08666] [NO-NAME] ORTE_ERROR_LOG: Not found in file
runtime/orte_init_stage1.c at line 182
[vlxbig16:08667] [NO-NAME] ORTE_ERROR_LOG: Not found in file
runtime/orte_init_stage1.c at line 182
[vlxbig16:08700] [NO-NAME] ORTE_ERROR_LOG: Not found in file
runtime/orte_init_stage1.c at line 182
[vlxbig16:08670] [NO-NAME] ORTE_ERROR_LOG: Not found in file
runtime/orte_init_stage1.c at line 182
[vlxbig16:08681] [NO-NAME] ORTE_ERROR_LOG: Not found in file
runtime/orte_init_stage1.c at line 182
[vlxbig16:08659] [NO-NAME] ORTE_ERROR_LOG: Not found in file
runtime/orte_init_stage1.c at line 182
--------------------------------------------------------------------------
It looks like orte_init failed for some reason; your parallel process is
likely to abort. There are many reasons that a parallel process can
fail during orte_init; some of which are due to configuration or
environment problems. This failure appears to be an internal failure;
here's some additional information (which may only be relevant to an
Open MPI developer):
orte_rml_base_select failed
--> Returned value -13 instead of ORTE_SUCCESS
Does anyone have any idea what is causing this? Computer support at my
University is not sure.
How are you launching mdrun_mpi (command line)?
-Justin
Thanks
--
========================================
Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
MILES-IGERT Trainee
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
========================================
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