.. _app : Application Layer ================= Loaders and Setup ~~~~~~~~~~~~~~~~~ .. autosummary:: :toctree: generated/ :template: class.rst ~openmm.app.amberinpcrdfile.AmberInpcrdFile ~openmm.app.amberprmtopfile.AmberPrmtopFile ~openmm.app.charmmcrdfiles.CharmmCrdFile ~openmm.app.charmmparameterset.CharmmParameterSet ~openmm.app.charmmpsffile.CharmmPsfFile ~openmm.app.charmmcrdfiles.CharmmRstFile ~openmm.app.dcdfile.DCDFile ~openmm.app.desmonddmsfile.DesmondDMSFile ~openmm.app.gromacsgrofile.GromacsGroFile ~openmm.app.gromacstopfile.GromacsTopFile ~openmm.app.pdbfile.PDBFile ~openmm.app.pdbxfile.PDBxFile ~openmm.app.xtcfile.XTCFile Representation and Manipulation ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ .. autosummary:: :toctree: generated/ :template: class.rst ~openmm.app.topology.Topology ~openmm.app.topology.Chain ~openmm.app.topology.Residue ~openmm.app.topology.Atom ~openmm.app.modeller.Modeller Simulation ~~~~~~~~~~ .. autosummary:: :toctree: generated/ :template: class.rst ~openmm.app.forcefield.ForceField ~openmm.app.simulation.Simulation Reporting Output ~~~~~~~~~~~~~~~~ .. autosummary:: :toctree: generated/ :template: class.rst ~openmm.app.checkpointreporter.CheckpointReporter ~openmm.app.dcdreporter.DCDReporter ~openmm.app.pdbreporter.PDBReporter ~openmm.app.pdbreporter.PDBxReporter ~openmm.app.statedatareporter.StateDataReporter ~openmm.app.xtcreporter.XTCReporter Extras ~~~~~~ .. autosummary:: :toctree: generated/ :template: class.rst ~openmm.app.metadynamics.BiasVariable ~openmm.app.internal.charmm.exceptions.CharmmPSFWarning ~openmm.app.element.Element ~openmm.app.metadynamics.Metadynamics ~openmm.app.simulatedtempering.SimulatedTempering Units ~~~~~~ .. autosummary:: :toctree: generated/ :template: class.rst :nosignatures: ~openmm.unit.basedimension.BaseDimension ~openmm.unit.baseunit.BaseUnit ~openmm.unit.quantity.Quantity ~openmm.unit.unit.ScaledUnit ~openmm.unit.prefix.SiPrefix ~openmm.unit.unit.Unit ~openmm.unit.unit.UnitSystem