def simpleTemplateGenerator(forcefield, residue):
"""\
Simple residue template generator.
This implementation uses the programmatic API to define residue templates.
NOTE: We presume we have already loaded the force definitions into ForceField.
"""
# Generate a unique prefix name for generating parameters.
from uuid import uuid4
template_name = uuid4()
# Create residue template.
from simtk.openmm.app.forcefield import _createResidueTemplate
template = _createResidueTemplate(residue) # use helper function
template.name = template_name # replace template name
for (template_atom, residue_atom) in zip(template.atoms, residue.atoms()):
template_atom.type = 'XXX' # replace atom type
# Register the template.
forcefield.registerResidueTemplate(template)
# Signal that we have successfully parameterized the residue.
return True
def simpleTemplateGenerator(forcefield, residue):
"""\
Simple residue template generator.
This implementation uses the programmatic API to define residue templates.
NOTE: We presume we have already loaded the force definitions into ForceField.
"""
# Generate a unique prefix name for generating parameters.
from uuid import uuid4
template_name = uuid4()
# Create residue template.
from simtk.openmm.app.forcefield import _createResidueTemplate
template = _createResidueTemplate(residue) # use helper function
template.name = template_name # replace template name
for (template_atom, residue_atom) in zip(template.atoms, residue.atoms()):
template_atom.type = 'XXX' # replace atom type
# Register the template.
forcefield.registerResidueTemplate(template)
# Signal that we have successfully parameterized the residue.
return True