[gmx-users] afm pulling

Marta Murcia mam2070 at med.cornell.edu
Fri Apr 28 23:58:47 CEST 2006

Emily Walton wrote:

> afm_init describes only the initial position of the spring. afm_dir  
> describes how that position will change with time. You can normalize  
> afm_init and use it for afm_dir if you want- you'd be pulling along  
> the direction connecting the com of your reference and pull groups.
One last thing Emily, should be afm_dir vector be referenced to the 
reference group as origin as well as afm_init is, or kept the direction 
relative to 0,0,0 origin of the system?

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