On 6/15/12 12:19 PM, Shima Arasteh wrote:
OK, but as I know the trjconv is a command after mdrun, so when I get the
output of mdrun and see it in VMD, it doesn't make different.
Now wondering what is the benefit of trjconv -center and -pbc?
You have to load the output trajectory from trjconv into VMD, not the original.
If you visualize trajectory A, then manipulate it to produce trajectory B,
then trajectory B is no use to you unless you actually use it.
-Justin
--
========================================
Justin A. Lemkul, Ph.D.
Research Scientist
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
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