Dear Dr. Saavedra,
I would like to ask your help for my use of Gromacs.
Now I run the Gromacs 4.05 on 16 node computer, but always meet the problems
like the following.
Would you please tell me how to sovle it.
Thank you very much in advanc,
James, Wang(Dr.)
Dalian university of Technology,
China
-------------------------------------
Back Off! I just backed up pr1.log to ./#pr1.log.5#
Reading file pr1.tpr, VERSION 4.0.5 (single precision)
Will use 10 particle-particle and 6 PME only nodes
This is a guess, check the performance at the end of the log file
-------------------------------------------------------
Program mdrun_mpi, VERSION 4.0.5
Source code file: domdec.c, line: 5873
Fatal error:
There is no domain decomposition for 10 nodes that is compatible with the given
box and a minimum cell size of 0.96025 nm
Change the number of nodes or mdrun option -rcon or -dds or your LINCS settings
Look in the log file for details on the domain decomposition
-------------------------------------------------------
"Baseball Heroes Only" (P.J. Harvey)
Error on node 0, will try to stop all the nodes
Halting parallel program mdrun_mpi on CPU 0 out of 16
rank 15 in job 1 node1_50926 caused collective abort of all ranks
exit status of rank 15: return code 0
rank 14 in job 1 node1_50926 caused collective abort of all ranks
exit status of rank 14: return code 0
rank 12 in job 1 node1_50926 caused collective abort of all ranks
exit status of rank 12: return code 0
rank 11 in job 1 node1_50926 caused collective abort of all ranks
exit status of rank 11: return code 0
rank 9 in job 1 node1_50926 caused collective abort of all ranks
exit status of rank 9: return code 0
rank 8 in job 1 node1_50926 caused collective abort of all ranks
exit status of rank 8: return code 0
rank 7 in job 1 node1_50926 caused collective abort of all ranks
exit status of rank 7: return code 0
rank 6 in job 1 node1_50926 caused collective abort of all ranks
exit status of rank 6: return code 0
rank 4 in job 1 node1_50926 caused collective abort of all ranks
exit status of rank 4: return code 0
rank 2 in job 1 node1_50926 caused collective abort of all ranks
exit status of rank 2: return code 0
rank 1 in job 1 node1_50926 caused collective abort of all ranks
exit status of rank 1: return code 0
[ma...@node1 seed]$
致
礼！
YH
[email protected]
2009-08-22
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