Read a membrane protein PDB with at least one jump, move a chain (this is a rigid body move; no packing), print the PDB Try: "TMHTopologySampler.cc -in::file::s <pdb file> -in::file::spanfile <spanfile> -database <database> -rigid::fragment_cycles <ncycles> -rigid::rotation <angle> -rigid::translation> -run::show_simulation_in_pymol <#seconds> -out::prefix <prefix>"