Index _ | A | B | C | D | E | F | G | I | L | M | N | O | P | Q | S | T | U | V | W | X _ __init__() (pymerk.driver.BaseDriver method) (pymerk.driver.OrcaDriver method) (pymerk.driver.QMDriver method) (pymerk.driver.VlxDriver method) (pymerk.driver.XtbDriver method) (pymerk.ensemble.Ensemble method) (pymerk.molecule.Molecule method) (pymerk.scripts.filter.BaseFilter method) (pymerk.scripts.filter.BoltzmannFilter method) (pymerk.scripts.filter.EnergyFilter method) (pymerk.scripts.filter.MacroOptFilter method) (pymerk.scripts.filter.OptFilter method) A as_multi_xyz() (pymerk.ensemble.Ensemble method) AUX (pymerk.scripts.filter.SelectDriver attribute), [1] aux_driver (pymerk.scripts.filter.BaseFilter attribute) B BaseDriver (class in pymerk.driver) BaseFilter (class in pymerk.scripts.filter) BaseWorkflow (class in pymerk.scripts.run) basis (pymerk.driver.QMDriver attribute) BoltzmannFilter (class in pymerk.scripts.filter) C charge (pymerk.molecule.Molecule attribute) clear_workdir() (pymerk.driver.BaseDriver method) converged (pymerk.molecule.Molecule attribute) copy() (pymerk.molecule.Molecule method) D DefaultWorkflow (class in pymerk.scripts.run) E elements (pymerk.ensemble.Ensemble attribute) energy (pymerk.molecule.Molecule attribute) EnergyFilter (class in pymerk.scripts.filter) Ensemble (class in pymerk.ensemble) ethr (pymerk.scripts.filter.EnergyFilter attribute) (pymerk.scripts.filter.MacroOptFilter attribute) (pymerk.scripts.filter.OptFilter attribute) exe_path (pymerk.driver.OrcaDriver attribute) (pymerk.driver.VlxDriver attribute) (pymerk.driver.XtbDriver attribute) F filter() (pymerk.ensemble.Ensemble method) (pymerk.scripts.filter.BaseFilter method) (pymerk.scripts.filter.BoltzmannFilter method) (pymerk.scripts.filter.EnergyFilter method) (pymerk.scripts.filter.MacroOptFilter method) (pymerk.scripts.filter.OptFilter method) (pymerk.scripts.run.DefaultWorkflow method) from_multi_xyz() (pymerk.ensemble.Ensemble class method) (pymerk.molecule.Molecule static method) from_xyz() (pymerk.molecule.Molecule class method) G get_energy() (pymerk.driver.BaseDriver method) (pymerk.driver.OrcaDriver method) (pymerk.driver.VlxDriver method) (pymerk.driver.XtbDriver method) get_gibbs_free_energy() (pymerk.driver.BaseDriver method) (pymerk.driver.XtbDriver method) gnorm (pymerk.molecule.Molecule attribute) gradthr (pymerk.scripts.filter.MacroOptFilter attribute) gsolv (pymerk.scripts.filter.BoltzmannFilter attribute) (pymerk.scripts.filter.EnergyFilter attribute) gtrv (pymerk.scripts.filter.BoltzmannFilter attribute) (pymerk.scripts.filter.EnergyFilter attribute) (pymerk.scripts.filter.MacroOptFilter attribute) (pymerk.scripts.filter.OptFilter attribute) I imagthr (pymerk.driver.XtbDriver attribute) L label (pymerk.scripts.filter.BaseFilter attribute) M MacroOptFilter (class in pymerk.scripts.filter) MAIN (pymerk.scripts.filter.SelectDriver attribute), [1] main() (in module pymerk.scripts.run) main_driver (pymerk.scripts.filter.BaseFilter attribute) maxcycles (pymerk.scripts.filter.MacroOptFilter attribute) (pymerk.scripts.filter.OptFilter attribute) method (pymerk.driver.QMDriver attribute) module pymerk.driver pymerk.ensemble pymerk.molecule pymerk.scripts.filter pymerk.scripts.run Molecule (class in pymerk.molecule) multiplicity (pymerk.molecule.Molecule attribute) N name (pymerk.molecule.Molecule attribute) NONE (pymerk.scripts.filter.SelectDriver attribute), [1] nprocs (pymerk.driver.OrcaDriver attribute) O optcycles (pymerk.scripts.filter.MacroOptFilter attribute) OptFilter (class in pymerk.scripts.filter) optimize_geometry() (pymerk.driver.BaseDriver method) (pymerk.driver.OrcaDriver method) (pymerk.driver.VlxDriver method) (pymerk.driver.XtbDriver method) optlevel (pymerk.scripts.filter.MacroOptFilter attribute) (pymerk.scripts.filter.OptFilter attribute) OPTLEVELS (in module pymerk.driver) OrcaDriver (class in pymerk.driver) P positions (pymerk.molecule.Molecule attribute) pthr (pymerk.scripts.filter.BoltzmannFilter attribute) pymerk.driver module pymerk.ensemble module pymerk.molecule module pymerk.scripts.filter module pymerk.scripts.run module Q QMDriver (class in pymerk.driver) S scale (pymerk.driver.XtbDriver attribute) SelectDriver (class in pymerk.scripts.filter) solvatation_model (pymerk.driver.OrcaDriver attribute) (pymerk.driver.VlxDriver attribute) (pymerk.driver.XtbDriver attribute) solvent (pymerk.driver.OrcaDriver attribute) (pymerk.driver.VlxDriver attribute) (pymerk.driver.XtbDriver attribute) sthr (pymerk.driver.XtbDriver attribute) symbols (pymerk.molecule.Molecule attribute) T to_string() (pymerk.molecule.Molecule method) to_xyz() (pymerk.molecule.Molecule method) U use_bhess (pymerk.driver.XtbDriver attribute) use_solvent (pymerk.scripts.filter.MacroOptFilter attribute) (pymerk.scripts.filter.OptFilter attribute) V version (pymerk.driver.XtbDriver attribute) VlxDriver (class in pymerk.driver) W workdir (pymerk.driver.BaseDriver attribute) (pymerk.driver.BaseDriver property) X XtbDriver (class in pymerk.driver)