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?
Thanks
M
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