AMBER Archive (2007)Subject: RE: AMBER: follow-up
From: Ross Walker (ross_at_rosswalker.co.uk)
Date: Tue Oct 09 2007 - 16:24:50 CDT
Hi Wenyong,
> My g.ann.rst file has " ****" as follows:
>
> 2153.6966097************5332.72304812153.4352331************53
31.5924867
> 2152.8627430************5331.94715012154.7117253************53
31.0164644
> .......
> ************************************7816.6234070**************
**********
> 0.0035586 0.0233672 -0.0140135 -0.0294524
> 0.0219386 0.0164750
> .....
>
> What are problems here?
You have solvent molecules that have diffused too far. Take your last good
restart file and run 1 step with iwrap=1 and it will wrap everything into
the central image. Then you can either proceed with iwrap=1 to always wrap
or just continue running until your waters diffuse too far again.
Good luck,
Ross
/\
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|\oss Walker
| HPC Consultant and Staff Scientist |
| San Diego Supercomputer Center |
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