Hi, I am trying to write a code for Deuterium order parameter of DOPC lipid. I went through the code in gmx_order.c, I did the following,
1. I took the carbons in the chain, and found its neighbors. 2. Took the bilayer normal and found the angle between the bilayer normal and the -CH molecular axis. 3. Took care of the periodic boundary conditions since I use NPT ensemble. But the code in gmx_order.c in GROMACS tries to do a lot of things other than this, as I don't know C or C++ language that it is using, I don't know what else I am supposed to include. Can someone please help me? Ramya
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