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CreateBonds.py
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Iterate over all atoms of a molecule and create a bond if the two atoms are closer than 1.5 A.
system = getComposites()[0]
for atom1 in atoms(system):
for atom2 in atoms(system):
v = atom1.getPosition() - atom2.getPosition()
if v.getLength() < 1.5:
atom1.createBond(atom2)
getMainControl().update(system)
for atom1 in atoms(system):
for atom2 in atoms(system):
v = atom1.getPosition() - atom2.getPosition()
if v.getLength() < 1.5:
atom1.createBond(atom2)
getMainControl().update(system)
