BioSimSpace.Parameters.gaff

BioSimSpace.Parameters.gaff(molecule, options={}, work_dir=None, property_map={})

Parameterise using the gaff force field.

Parameters:

• molecule (Molecule) – The molecule to parameterise.
• options (dict) – A dictionary of keyword options to override the protocol defaults.
• work_dir (str) – The working directory for the process.
• property_map (dict) – A dictionary that maps system “properties” to their user defined values. This allows the user to refer to properties with their own naming scheme, e.g. { “charge” : “my-charge” }

Returns:

molecule – The parameterised molecule.

Return type:

Molecule