Hello justin, Am sorry to say that its not useful.But what i mean is that the rtp constructed manually is building up the polymer and generating topology files and gro files. But when i look into the gro file with vmd the connectivity between each of the monomer is not built.That is my polymer consists of 10 monomer units with ben and primary amine unit as a block polymer.
How can i include the connectivity information between these two in a rtp file?I can include that in session called bonds. But how to do that??And i want some help regarding the workflow that is how gromacs interpreting each of the rtp, atp ,ffnb.itp,ffbon.itp??I want to know that in a sequential order.are there any materials available other than manual..If so please let me know Thanks in advance. -krithika
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