Scripts: copymol.py

# Example of how to copy a molecule with moved atoms.

import chimera
m = chimera.openModels.list(modelTypes = [chimera.Molecule])[0]

# Make copy
from Molecule import copy_molecule
mc = copy_molecule(m)

# Set copy name
mc.name = m.name + ' copy'

# Change atom coordinates
xf = chimera.Xform.translation(chimera.Vector(20,0,0))
from MoleculeTransform import transform_atom_coordinates
transform_atom_coordinates(mc.atoms, xf)

# Add copy to list of open models
chimera.openModels.add([mc])

# Make sure molecule copy gets same position as molecule.
# By default it gets same position as model with lowest id number.
mc.openState.xform = m.openState.xform