From: Batuhan Kav <bkav13.ku.edu.tr>
Date: Mon, 22 Feb 2016 13:44:57 +0100
Dear All,
I am trying to set up a pure DPPC membrane simulation. To do this, I am
basically following the tutorial
http://ambermd.org/tutorials/advanced/tutorial16/ <http://ambermd.org/tutorials/advanced/tutorial16/> .
The problem is, when I use charmmlipid2amber.py, some of the atoms are
lost, i.e. total number of atoms before and after are not equal. I
wonder if this is expected, or am I doing something wrong?
I attach charmm-gui (step5_assembly.pdb) and charmmlipid2amber.py
(dppc_converted.pdb). I am using AmberTools15.
Best,
Batuhan
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