[gmx-users] make_hole vs. genconf

Alan Dodd anoddlad at yahoo.com
Tue Sep 19 19:35:22 CEST 2006

> > I'm also aware of the make_hole tool.  My question
> here is:  Does  
> > make_hole create a hole of specified dimensions
> and orientation,  
> > according to the solute coordinates?  And can you
> specify exactly  
> > where in the membrane you want the whole?
> Make_hole doesn't actually make a hole. You need to
> make the  
> premilinary hole yourself. 

Not true, I've made a hole using make_hole.  Manually
removing central lipids, and using make_hole to finess
the rim of the hole is probably more computationally
efficient, but make_hole is perfectly capable of doing
what the name says (and less labor intensive).

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