<html><div> Dear All,
I used top2psf.pl to visualize bonds in my coarse grained simulation with MARTINI ff. it worked well. my system contained a box of 1 protein and several hundreds of water molecules. then I repeated the box to make a bigger system with command below: genconf -nbox 2 2 2 -f 1box.gro -o 8box.gro Now I have 8 proteins.� to visualize, I make just proteins .gro file and repair .top file� but I can't visualize bonds in my new system. I think my .top file has a problem. I examined several ways, but without any results. Please help me. Regards Kargar -- This message has been scanned for viruses and dangerous content by MailScanner, and is believed to be clean.
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