Thank you for reply.
xtc trajectories do work.
Maybe the first time the problem occurred because I was using PyMOL
installed from Linux Mint repository. Now I use SVN one.
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The safest way to do that would be to convert your trajectory to a format
readably by PyMOL, with trajectory manipulation tools such as trjconv (in
GROMACS) or catdcd (you can find it in the VMD website). PyMOL recognizes
the AMBER .trj format with the "Load_traj" function, so you can use that:
Hi Timofey,
This wiki page is obsolete, current PyMOL includes a recent version of the VMD
plugins, and it can load xtc files (and probably trr too, but I don't have a
test file around). You need to load topology and trajectory in two steps, into
the same object. Example:
load topology.gro,
Hi Yunfeng Hu,
Frankly, with Pymol, people don't as far as I know. What I usually do is
determine for the first frame of the individual pdb files (obtained with
trjconv -sep) the orientation, viewing point and appearance. This I save
in a .pml script. Then with a bit of python code, looping
