nanover.openmm package

Interface between NanoVer and OpenMM.

Submodules

• nanover.openmm.cli module
  • main()
• nanover.openmm.converter module
  • add_openmm_state_to_frame_data()
  • add_openmm_topology_to_frame_data()
  • openmm_to_frame_data()
• nanover.openmm.imd module
  • ImdForceManager
    • ImdForceManager.add_to_frame_data()
    • ImdForceManager.update_interactions()
  • NanoverImdReporter
    • NanoverImdReporter.describeNextReport()
    • NanoverImdReporter.force_interval
    • NanoverImdReporter.frame_interval
    • NanoverImdReporter.frame_publisher
    • NanoverImdReporter.imd_force
    • NanoverImdReporter.include_forces
    • NanoverImdReporter.include_velocities
    • NanoverImdReporter.make_regular_frame()
    • NanoverImdReporter.make_topology_frame()
    • NanoverImdReporter.report()
  • NextReport
    • NextReport.include_energies
    • NextReport.include_forces
    • NextReport.include_positions
    • NextReport.include_velocities
    • NextReport.steps
    • NextReport.wrap_positions
  • add_imd_force_to_system()
  • create_imd_force()
  • get_imd_forces_from_system()
  • get_sparse_forces()
  • populate_imd_force()
• nanover.openmm.nanoverreporter module
  • NanoverReporter
    • NanoverReporter.describeNextReport()
    • NanoverReporter.report()
• nanover.openmm.potentials module
  • restrain_particles()
  • restraint_force()
• nanover.openmm.runner module
  • OpenMMRunner
    • OpenMMRunner.app_server
    • OpenMMRunner.cancel_run()
    • OpenMMRunner.close()
    • OpenMMRunner.dynamics_interval
    • OpenMMRunner.force_interval
    • OpenMMRunner.frame_interval
    • OpenMMRunner.from_xml_input()
    • OpenMMRunner.from_xml_inputs()
    • OpenMMRunner.include_forces
    • OpenMMRunner.include_velocities
    • OpenMMRunner.is_running
    • OpenMMRunner.list()
    • OpenMMRunner.load()
    • OpenMMRunner.make_quiet()
    • OpenMMRunner.make_verbose()
    • OpenMMRunner.next()
    • OpenMMRunner.pause()
    • OpenMMRunner.play()
    • OpenMMRunner.reporter
    • OpenMMRunner.reset()
    • OpenMMRunner.run()
    • OpenMMRunner.simulation
    • OpenMMRunner.simulation_entry
    • OpenMMRunner.step()
    • OpenMMRunner.verbose
    • OpenMMRunner.verbosity_interval
  • SimulationEntry
    • SimulationEntry.reporter
    • SimulationEntry.reset()
• nanover.openmm.serializer module
  • deserialize_simulation()
  • serialize_simulation()