Another thing I have already for my GAFF-param molecules "prepin" and "frcmod" files (wider library for different molecular segments). Is Chimera somehow able to accept them when creating prmtop and incprd files of the given system ?
Hi Marek,
Allowing WritePrmtop to accept custom leaprc files is on my to-do list but it just hasn't happened yet. I'll add you to the feature-request ticket in the Chimera Trac database so you'll know when it gets implemented.