[gmx-users] problem with trjconv

sudheer babu sudheer.pbm07 at gmail.com
Mon Mar 3 12:52:13 CET 2008

Hi all,
I am trying to use *trjconv command for -pbc but POPC molecules are breaking
when visualize in VMD. The commands  used are
grompp -f  pr.mdp  -c  em_out.gro -p .top -n index.ndx -o out.tpr
trjconv  -f em_out.gro  -s out.tpr  -o trj_out.gro  -pbc inbox or cluster or
Thi trj_out.gro contain broken POPC molecules
Pls suggest me what options I have to use for -pbc? or any addition option I
have to use?
Thanks in advance.......
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