schrodinger.application.desmond package

Subpackages

• schrodinger.application.desmond.antlr3 package
  • Submodules
    • schrodinger.application.desmond.antlr3.compat module
    • schrodinger.application.desmond.antlr3.constants module
    • schrodinger.application.desmond.antlr3.debug module
    • schrodinger.application.desmond.antlr3.dfa module
    • schrodinger.application.desmond.antlr3.dottreegen module
    • schrodinger.application.desmond.antlr3.exceptions module
    • schrodinger.application.desmond.antlr3.extras module
    • schrodinger.application.desmond.antlr3.main module
    • schrodinger.application.desmond.antlr3.recognizers module
    • schrodinger.application.desmond.antlr3.streams module
    • schrodinger.application.desmond.antlr3.tokens module
    • schrodinger.application.desmond.antlr3.tree module
    • schrodinger.application.desmond.antlr3.treewizard module
• schrodinger.application.desmond.enhanced_sampling package
  • Submodules
    • schrodinger.application.desmond.enhanced_sampling.FcnTypes module
    • schrodinger.application.desmond.enhanced_sampling.mexpLexer module
    • schrodinger.application.desmond.enhanced_sampling.mexpParser module
• schrodinger.application.desmond.event_analysis package
  • Submodules
    • schrodinger.application.desmond.event_analysis.pl_image_tools module
• schrodinger.application.desmond.gpgpu namespace
  • Submodules
    • schrodinger.application.desmond.gpgpu.test_gpgpu module
• schrodinger.application.desmond.kinetics namespace
  • Submodules
    • schrodinger.application.desmond.kinetics.cleanup module
    • schrodinger.application.desmond.kinetics.enhanced_sampling module
    • schrodinger.application.desmond.kinetics.mtd_cleanup module
    • schrodinger.application.desmond.kinetics.utils module
• schrodinger.application.desmond.msj_generator package
  • Subpackages
    • schrodinger.application.desmond.msj_generator.fep package
      • Submodules
        • schrodinger.application.desmond.msj_generator.fep.absolute_binding module
        • schrodinger.application.desmond.msj_generator.fep.covalent_ligand module
        • schrodinger.application.desmond.msj_generator.fep.metalloprotein module
        • schrodinger.application.desmond.msj_generator.fep.protein module
        • schrodinger.application.desmond.msj_generator.fep.small_molecule module
        • schrodinger.application.desmond.msj_generator.fep.solubility module
  • Submodules
    • schrodinger.application.desmond.msj_generator.common module
    • schrodinger.application.desmond.msj_generator.constant_ph module
    • schrodinger.application.desmond.msj_generator.keep_struc_tags module
    • schrodinger.application.desmond.msj_generator.lambda_dynamics module
    • schrodinger.application.desmond.msj_generator.msj_constants module
    • schrodinger.application.desmond.msj_generator.mxmd module
    • schrodinger.application.desmond.msj_generator.subjob_msj module
    • schrodinger.application.desmond.msj_generator.unbinding_kinetics module
    • schrodinger.application.desmond.msj_generator.workflow_params module
• schrodinger.application.desmond.multisim package
  • Submodules
    • schrodinger.application.desmond.multisim.parser module
• schrodinger.application.desmond.mxmd namespace
  • Submodules
    • schrodinger.application.desmond.mxmd.mxmd_cleanup module
    • schrodinger.application.desmond.mxmd.mxmd_system_builder module
• schrodinger.application.desmond.sid_plots namespace
  • Submodules
    • schrodinger.application.desmond.sid_plots.pl_interactions module
    • schrodinger.application.desmond.sid_plots.pl_lid module
• schrodinger.application.desmond.stage package
  • Subpackages
    • schrodinger.application.desmond.stage.app package
      • Subpackages
        • schrodinger.application.desmond.stage.app.absolute_binding package
          • Submodules
            • schrodinger.application.desmond.stage.app.absolute_binding.restraint module
            • schrodinger.application.desmond.stage.app.absolute_binding.stage module
            • schrodinger.application.desmond.stage.app.absolute_binding.struc module
        • schrodinger.application.desmond.stage.app.fragment_linking package
          • Submodules
            • schrodinger.application.desmond.stage.app.fragment_linking.stage module
            • schrodinger.application.desmond.stage.app.fragment_linking.utils module
      • Submodules
        • schrodinger.application.desmond.stage.app.constant_ph module
        • schrodinger.application.desmond.stage.app.kinetics module
        • schrodinger.application.desmond.stage.app.lambda_dynamics module
        • schrodinger.application.desmond.stage.app.lambda_dynamics_analysis module
        • schrodinger.application.desmond.stage.app.matsci module
        • schrodinger.application.desmond.stage.app.mxmd module
        • schrodinger.application.desmond.stage.app.solubility module
        • schrodinger.application.desmond.stage.app.watermap module
    • schrodinger.application.desmond.stage.prepare package
      • Submodules
        • schrodinger.application.desmond.stage.prepare.forcefield module
        • schrodinger.application.desmond.stage.prepare.structure module
  • Submodules
    • schrodinger.application.desmond.stage.analysis module
    • schrodinger.application.desmond.stage.constants module
    • schrodinger.application.desmond.stage.deprecate module
    • schrodinger.application.desmond.stage.fep_mapper module
    • schrodinger.application.desmond.stage.jobs module
    • schrodinger.application.desmond.stage.launcher module
    • schrodinger.application.desmond.stage.run_method_parallel module
    • schrodinger.application.desmond.stage.simulate module
    • schrodinger.application.desmond.stage.utils module
    • schrodinger.application.desmond.stage.workflow module
• schrodinger.application.desmond.starter package
  • Subpackages
    • schrodinger.application.desmond.starter.generator package
      • Submodules
        • schrodinger.application.desmond.starter.generator.common module
        • schrodinger.application.desmond.starter.generator.constant_ph module
        • schrodinger.application.desmond.starter.generator.fep_absolute_binding module
        • schrodinger.application.desmond.starter.generator.fep_plus module
        • schrodinger.application.desmond.starter.generator.fep_residue_scanning module
        • schrodinger.application.desmond.starter.generator.fep_solubility module
        • schrodinger.application.desmond.starter.generator.mxmd module
        • schrodinger.application.desmond.starter.generator.unbinding_kinetics module
    • schrodinger.application.desmond.starter.ui package
      • Submodules
        • schrodinger.application.desmond.starter.ui.cmdline module
        • schrodinger.application.desmond.starter.ui.constant_ph module
        • schrodinger.application.desmond.starter.ui.fep_absolute_binding module
        • schrodinger.application.desmond.starter.ui.fep_plus module
        • schrodinger.application.desmond.starter.ui.fep_residue_scanning module
        • schrodinger.application.desmond.starter.ui.fep_solubility module
        • schrodinger.application.desmond.starter.ui.mxmd module
        • schrodinger.application.desmond.starter.ui.unbinding_kinetics module
  • Submodules
    • schrodinger.application.desmond.starter.starter module

Submodules

• schrodinger.application.desmond.ana module
• schrodinger.application.desmond.arkdb module
• schrodinger.application.desmond.automatic_analysis_generator module
• schrodinger.application.desmond.autopartition module
• schrodinger.application.desmond.bennett module
• schrodinger.application.desmond.bld_def module
• schrodinger.application.desmond.bld_ver module
• schrodinger.application.desmond.cmdline module
• schrodinger.application.desmond.cmj module
• schrodinger.application.desmond.cms module
• schrodinger.application.desmond.cms_utils module
• schrodinger.application.desmond.cns_io module
• schrodinger.application.desmond.config_utils module
• schrodinger.application.desmond.constants module
• schrodinger.application.desmond.correlation_tau module
• schrodinger.application.desmond.cwidget module
• schrodinger.application.desmond.deltaE module
• schrodinger.application.desmond.depictor module
• schrodinger.application.desmond.desmond_advanced_tab_ui module
• schrodinger.application.desmond.driver_utils module
• schrodinger.application.desmond.ene_utils module
• schrodinger.application.desmond.enhsamp module
• schrodinger.application.desmond.envir module
• schrodinger.application.desmond.fep_dialog module
• schrodinger.application.desmond.fep_edge_data module
• schrodinger.application.desmond.fep_edge_data_classifier module
• schrodinger.application.desmond.fep_edge_report_maker module
• schrodinger.application.desmond.fep_mapping module
• schrodinger.application.desmond.fep_net_charge module
• schrodinger.application.desmond.fep_reporter module
• schrodinger.application.desmond.fep_schedule module
• schrodinger.application.desmond.fep_scholar_msj_generator module
• schrodinger.application.desmond.fep_scholar_rules module
• schrodinger.application.desmond.fep_scholar_util module
• schrodinger.application.desmond.fep_struc module
• schrodinger.application.desmond.fep_util module
• schrodinger.application.desmond.fepana module
• schrodinger.application.desmond.feputils module
• schrodinger.application.desmond.ffiostructure module
• schrodinger.application.desmond.file_utils module
• schrodinger.application.desmond.frag_snap module
• schrodinger.application.desmond.gaussian_filter module
• schrodinger.application.desmond.gchart module
• schrodinger.application.desmond.gcmc_utils module
• schrodinger.application.desmond.gconfig module
• schrodinger.application.desmond.gui module
• schrodinger.application.desmond.image_generator module
• schrodinger.application.desmond.input_group_ui module
• schrodinger.application.desmond.keep_struc_tags module
• schrodinger.application.desmond.lambda_dynamics_utils module
• schrodinger.application.desmond.launch_utils module
• schrodinger.application.desmond.license module
• schrodinger.application.desmond.license_utils module
• schrodinger.application.desmond.maestro module
• schrodinger.application.desmond.measurement module
• schrodinger.application.desmond.membrane_utils module
• schrodinger.application.desmond.memory module
• schrodinger.application.desmond.meta module
• schrodinger.application.desmond.move_alchem_ions module
• schrodinger.application.desmond.mplchart module
• schrodinger.application.desmond.msj_defaults module
• schrodinger.application.desmond.multisimstartup module
• schrodinger.application.desmond.new_fep_edge_data module
• schrodinger.application.desmond.physical_leg_infra module
• schrodinger.application.desmond.picklejar module
• schrodinger.application.desmond.platforms module
• schrodinger.application.desmond.predict_remd_temp module
• schrodinger.application.desmond.process_fep_traj module
• schrodinger.application.desmond.queue module
• schrodinger.application.desmond.r_group_asl module
• schrodinger.application.desmond.remd module
• schrodinger.application.desmond.repair_cms module
• schrodinger.application.desmond.replica_dE module
• schrodinger.application.desmond.replica_exchange_review module
• schrodinger.application.desmond.replica_sid_generator module
• schrodinger.application.desmond.report_helper module
• schrodinger.application.desmond.rest_inp module
• schrodinger.application.desmond.rest_tab_ui module
• schrodinger.application.desmond.rl_helper module
• schrodinger.application.desmond.simulation_block_data module
• schrodinger.application.desmond.simulation_block_test module
• schrodinger.application.desmond.skip_fep_utils module
• schrodinger.application.desmond.smarts module
• schrodinger.application.desmond.solubility_utils module
• schrodinger.application.desmond.struc module
• schrodinger.application.desmond.system_builder_inp module
• schrodinger.application.desmond.system_builder_util module
• schrodinger.application.desmond.systype module
• schrodinger.application.desmond.task module
• schrodinger.application.desmond.test_utils module
• schrodinger.application.desmond.torsion_related module
• schrodinger.application.desmond.typing_utils module
• schrodinger.application.desmond.util module