Index A | B | C | D | E | F | I | K | L | M | N | O | P | Q | R | S | T | U | V | W A as_dict() (vcsmd.compat.ConversionReport method) atomic_kinetic_energy (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) atomic_potential_energy (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) atomic_temperature (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) available_data (vcsmd.compat.ConversionReport attribute) average_kinetic_energy (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) average_potential_energy (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) average_pressure (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) averages (vcsmd.models.SimulationState attribute) B boltzmann_constant (vcsmd.NumericalModel attribute) C cartesian_velocities (vcsmd.SimulationState property) cell (vcsmd.InitialConditions attribute) (vcsmd.models.SimulationState attribute) (vcsmd.SimulationState property) (vcsmd.Structure attribute) cell_acceleration (vcsmd.models.SimulationState attribute) (vcsmd.SimulationState property) cell_components (vcsmd.models.SimulationEvent attribute) CELL_DYNAMICS (vcsmd.SimulationMode attribute) cell_geometry() (in module vcsmd.geometry) cell_inertia (vcsmd.NumericalModel attribute) (vcsmd.SimulationConfig attribute) cell_kinetic_energy (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) CELL_MINIMIZATION (vcsmd.SimulationMode attribute) cell_parameters() (in module vcsmd.geometry) cell_velocity (vcsmd.InitialConditions attribute) (vcsmd.models.SimulationState attribute) (vcsmd.SimulationConfig attribute) (vcsmd.SimulationState property) CellGeometry (class in vcsmd.geometry) COMPLETE (vcsmd.RunStatus attribute) completed_steps (vcsmd.RunReport attribute) completion_status (vcsmd.compat.ConversionReport attribute) config_from_mapping() (in module vcsmd) config_to_mapping() (in module vcsmd) ConversionReport (class in vcsmd.compat) convert_legacy_run() (in module vcsmd.compat) converted_steps (vcsmd.compat.ConversionReport attribute) count (vcsmd.models.RunningAverages attribute) cutoff (vcsmd.NumericalModel attribute) (vcsmd.SimulationConfig attribute) D destination (vcsmd.compat.ConversionReport attribute) directory (vcsmd.RunReport attribute) E epsilon (vcsmd.LennardJones attribute) (vcsmd.NumericalModel attribute) error (vcsmd.RunReport attribute) evaluate_lennard_jones() (in module vcsmd.potentials) EventKind (class in vcsmd) events (vcsmd.models.StepResult attribute) (vcsmd.StepResult attribute) extended_temperature (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) external_pressure (vcsmd.NumericalModel attribute) (vcsmd.SimulationConfig attribute) external_pressure_energy (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) F FAILED (vcsmd.RunStatus attribute) final_state (vcsmd.RunReport attribute) FIXED_DYNAMICS (vcsmd.SimulationMode attribute) FIXED_MINIMIZATION (vcsmd.SimulationMode attribute) ForceResult (class in vcsmd.potentials) fractional_acceleration (vcsmd.models.SimulationState attribute) (vcsmd.SimulationState property) fractional_positions (vcsmd.InitialConditions attribute) (vcsmd.models.SimulationState attribute) (vcsmd.SimulationState property) (vcsmd.Structure attribute) fractional_velocities (vcsmd.InitialConditions attribute) (vcsmd.models.SimulationState attribute) (vcsmd.SimulationConfig attribute) (vcsmd.SimulationState property) I image_range (vcsmd.NumericalModel attribute) (vcsmd.SimulationConfig attribute) import_legacy_input() (in module vcsmd.compat) InitialConditions (class in vcsmd) initialization (vcsmd.SimulationConfig attribute) InitializationMode (class in vcsmd) initialize() (in module vcsmd) (in module vcsmd.dynamics) interval (vcsmd.TemperatureControl attribute) K kind (vcsmd.models.SimulationEvent attribute) kinetic_sum (vcsmd.models.RunningAverages attribute) L LegacyFormatError (class in vcsmd.compat) LennardJones (class in vcsmd) limitations (vcsmd.compat.ConversionReport attribute) load_checkpoint() (in module vcsmd) (in module vcsmd.io.checkpoint) load_config() (in module vcsmd) M malformed_records (vcsmd.compat.ConversionReport attribute) masses (vcsmd.NumericalModel attribute) (vcsmd.Structure attribute) max_rescales (vcsmd.TemperatureControl attribute) metric_cell (vcsmd.SimulationMode property) METRIC_DYNAMICS (vcsmd.SimulationMode attribute) METRIC_MINIMIZATION (vcsmd.SimulationMode attribute) minimizes (vcsmd.SimulationMode property) missing_fields (vcsmd.compat.ConversionReport attribute) mode (vcsmd.InitialConditions attribute) (vcsmd.NumericalModel attribute) (vcsmd.SimulationConfig attribute) N native_files (vcsmd.compat.ConversionReport attribute) numerical (vcsmd.SimulationState attribute) NumericalModel (class in vcsmd) O Observables (class in vcsmd) (class in vcsmd.models) observables (vcsmd.models.StepResult attribute) (vcsmd.StepResult attribute) original_argon() (vcsmd.LennardJones class method) output_interval (vcsmd.SimulationConfig attribute) P parse_legacy_input() (in module vcsmd.compat) particle_components (vcsmd.models.SimulationEvent attribute) peculiar_velocities (vcsmd.SimulationState property) positions (vcsmd.SimulationState property) potential (vcsmd.SimulationConfig attribute) potential_sum (vcsmd.models.RunningAverages attribute) prepare() (in module vcsmd) pressure (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) pressure_sum (vcsmd.models.RunningAverages attribute) previous_cell_acceleration (vcsmd.models.SimulationState attribute) previous_fractional_acceleration (vcsmd.models.SimulationState attribute) problems (vcsmd.compat.ConversionReport property) provenance (vcsmd.compat.ConversionReport attribute) PROVIDED (vcsmd.InitializationMode attribute) Q Quantity (in module vcsmd.units) R reference_cell (vcsmd.models.SimulationState attribute) (vcsmd.SimulationState property) relative_tolerance (vcsmd.TemperatureControl attribute) replicate_cell() (in module vcsmd.geometry) requested_steps (vcsmd.RunReport attribute) rescalings_remaining (vcsmd.models.SimulationState attribute) resume() (in module vcsmd) run() (in module vcsmd) running_extended_temperature (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) RunningAverages (class in vcsmd.models) RunReport (class in vcsmd) RunStatus (class in vcsmd) S save_checkpoint() (in module vcsmd) (in module vcsmd.io.checkpoint) save_config() (in module vcsmd) scale (vcsmd.models.SimulationEvent attribute) seed (vcsmd.SimulationConfig attribute) sigma (vcsmd.LennardJones attribute) (vcsmd.NumericalModel attribute) simulate() (in module vcsmd) (in module vcsmd.dynamics) SimulationConfig (class in vcsmd) SimulationEvent (class in vcsmd.models) SimulationMode (class in vcsmd) SimulationState (class in vcsmd) (class in vcsmd.models) source (vcsmd.compat.ConversionReport attribute) source_files (vcsmd.compat.ConversionReport attribute) species (vcsmd.NumericalModel attribute) (vcsmd.Structure attribute) split_legacy_examples() (in module vcsmd.compat) state (vcsmd.models.StepResult attribute) (vcsmd.StepResult attribute) status (vcsmd.RunReport attribute) step() (in module vcsmd) (in module vcsmd.dynamics) step_index (vcsmd.models.Observables attribute) (vcsmd.models.SimulationEvent attribute) (vcsmd.models.SimulationState attribute) (vcsmd.Observables attribute) (vcsmd.SimulationState property) StepResult (class in vcsmd) (class in vcsmd.models) steps (vcsmd.SimulationConfig attribute) strain_cell (vcsmd.SimulationMode property) STRAIN_DYNAMICS (vcsmd.SimulationMode attribute) STRAIN_MINIMIZATION (vcsmd.SimulationMode attribute) Structure (class in vcsmd) structure (vcsmd.SimulationConfig attribute) T temperature (vcsmd.NumericalModel attribute) (vcsmd.SimulationConfig attribute) temperature_control (vcsmd.NumericalModel attribute) (vcsmd.SimulationConfig attribute) TEMPERATURE_RESCALED (vcsmd.EventKind attribute) TemperatureControl (class in vcsmd) THERMAL (vcsmd.InitializationMode attribute) time (vcsmd.models.Observables attribute) (vcsmd.models.SimulationState attribute) (vcsmd.Observables attribute) (vcsmd.SimulationState property) timestep (vcsmd.NumericalModel attribute) (vcsmd.SimulationConfig attribute) title (vcsmd.SimulationConfig attribute) total_energy (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) U ureg (in module vcsmd.units) V validate_image_range() (in module vcsmd.geometry) variable_cell (vcsmd.SimulationMode property) VELOCITIES_QUENCHED (vcsmd.EventKind attribute) volume (vcsmd.models.Observables attribute) (vcsmd.Observables attribute) W with_units() (in module vcsmd)