Dear Nilesh:
You don't seem to have made any progress since Mark gave you some
reading hints. Your best chance to get a useful response follows the
general form:
1. I want to do A.
2. I tried method B, here are the exact commands that I used (copy and paste)
3. With that method, I obtain C
4. But I am confused about why C does not look like D.
5. What is the problem?
Basically, it helps to show that you are doing your own work too.
For example, try a command on a single frame and then look at that
frame with VMD and count for yourself and verify the answer that way.
Chris.
-- original message --
I have a system with 128 emi (cations) and 128 Cl (anions).
I want to calculate how many CL atoms are in cutoff distance relative to
hydorgen aotm of cation. I considered all CL atoms are distinguishable.
Basically I want to calcualte the distance between each CL atom and
correponing hydorgen and registered those CL atoms which are whthin
cutoff.
How can I do ?
I am using Gromacs 4.0.7 version.
Thanks
Nilesh
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