[gmx-users] splitting chains

özge kül ozgekul8233 at yahoo.com
Fri Mar 30 22:32:36 CEST 2007

Hi Eric,
  Where  is the specbond.dat?After which line is it formed?
  1.      pdb2gmx_mpi -f 1ppbfree.pdb -p 1ppbfree.top -o  1ppbfree.gro   -merge
  2.editconf_mpi -f 1ppbfree.gro -o -d 0.8 -bt octahedron
  3.      genbox_mpi -cp out.gro -cs -p 1ppbfree.top -o 1ppbfree-gen.gro
  4.      grompp_mpi -v -f 1ppbfree-en.mdp -c 1ppbfree-gen.gro -o 1ppbfree-en.tpr -p 1ppbfree.top
  5.mdrun_mpi -v -s 1ppbfree-en.tpr -o 1ppbfree-en.trr -c 1ppbfree-aftermin.gro -g 1ppbfree-en.log -e 1ppbfree-en.edr
  Please help me?:)

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