> > If I could, I would RMS fit to the first frame the
> > anchor, but RMSd rotates the box so this will kill imaging. Ideally, I
> > would figure out how much in X,Y, and Z the anchor has moved and then
> > translate back or do an RMS fit without rotation (which I do not think is
> > possible at present...
>
> There is indeed a "norotate" option to the rmsd command in recent versions
> of cpptraj....
D'oh. Maybe I should read our manual! Then, what I would do is pick a
lipid residue of interest, rms fit to that with norotate to the first
frame, and then autoimage. Dan/Jason, you can let us know if this will
not work. --tec3
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Received on Mon Mar 10 2014 - 09:30:03 PDT
