1. General topics
  3. Tools
  5. Problem in rendering CG bonds with VMD

unanswered Problem in rendering CG bonds with VMD

  • l_karami
  • l_karami's Avatar Topic Author
  • Offline
  • Junior Boarder
More
4 years 5 months ago #8340 by l_karami
Problem in rendering CG bonds with VMD was created by l_karami
Dear all,

I did md simulation of amphiphile peptides using gromacs and Martini force field. I loaded trajectory file in VMD. Then, I used following commands in TkConsole:

1) source cg_bonds.tcl

2) cg_bonds -tpr new.tpr -top C16.top -topoltype "elastic"

I encountered with:
atomsel : setbonds: Need one bondlist for each selected atom
version of gromacs is 2018.8
version of VMD is 1.9.1

I used cg_bonds.tcl script from this web site:
md.chem.rug.nl/images/tools/VMD/cg_bonds.tcl   

How to resolve this problem?

Best,
LK

Please Log in or Create an account to join the conversation.

  1. General topics
  3. Tools
  5. Problem in rendering CG bonds with VMD
Time to create page: 0.089 seconds