[gmx-users] error with x2top.

[Elie M]

Dear all,
i am trying to convert a .gro file into a top file using .x2top but not all atoms can be assigned forcefields and the code stops with the error:
Generating bonds from distances...atom 94Can not find forcefield for atom C-2 with 2 bondsCan not find forcefield for atom S-3 with 0 bondsCan not find forcefield for atom C-4 with 2 bondsCan not find forcefield for atom C-7 with 3 bondsCan not find forcefield for atom C-10 with 3 bondsCan not find forcefield for atom S-12 with 0 bondsCan not find forcefield for atom C-13 with 2 bondsCan not find forcefield for atom C-16 with 2 bondsCan not find forcefield for atom O-17 with 2 bondsCan not find forcefield for atom O-18 with................Fatal error:Could only find a forcefield type for 73 out of 94 atoms
I looked at the .atp and n2t files. I am not sure where to start. is the second column partial charges? how to determine these? are they automatically determined ..what about the numbers at the end after each atom symbol?  Is there any clear examples of how to do this? Any help would be appreciated. Thanks

Elie