Index A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X A account (bbp_workflow.task.SlurmCfg attribute) Activity (class in entity_management.core) Agent (class in entity_management.core) AmendSimulationCampaign (class in bbp_workflow.simulation.task) Analysis (class in entity_management.simulation) AnalysisConfiguration (class in entity_management.simulation) AnalysisReport (class in entity_management.simulation) args (bbp_workflow.task.IPyParallel attribute) (bbp_workflow.task.SbatchTask attribute) (bbp_workflow.task.SrunTask attribute) as_dict() (entity_management.core.DataDownload method) as_json_ld() (entity_management.base.Identifiable method) attributes() (in module entity_management.base) attrs (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) B bbp_workflow.generation.workflow module bbp_workflow.luigi module bbp_workflow.simulation.sim_writer module bbp_workflow.simulation.task module bbp_workflow.simulation.util module bbp_workflow.target module bbp_workflow.task module benchmark (bbp_workflow.simulation.task.SimCampaign attribute) (bbp_workflow.simulation.task.SimulationCampaign attribute) BlankNode (class in entity_management.base) BluePyEfeConfiguration (class in entity_management.simulation) BluePyEfeFeatures (class in entity_management.simulation) BluePyOptRun (class in entity_management.simulation) BrainLocation (class in entity_management.base) C campaign_sims() (in module bbp_workflow.simulation.util) CampaignAnalysis (class in entity_management.simulation) CampaignSimProcessorSbatch (class in bbp_workflow.simulation.task) chdir (bbp_workflow.task.SlurmCfg attribute) circuit_url (bbp_workflow.simulation.task.GenerateAndRunSimCampaign attribute) (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) CircuitCellProperties (class in entity_management.simulation) CleanUpSimCampaignFiles (class in bbp_workflow.simulation.task) clone() (entity_management.base.Identifiable method) command (bbp_workflow.simulation.task.MultiscaleNrdmsPySim attribute) (bbp_workflow.simulation.task.NrdmsPySim attribute) (bbp_workflow.task.SbatchTask attribute) (bbp_workflow.task.SrunTask attribute) CompleteTask (class in bbp_workflow.luigi) config_path (bbp_workflow.simulation.task.RegisterSimCampaignFromConfig attribute) Configuration (class in entity_management.simulation) constraint (bbp_workflow.task.SlurmCfg attribute) container (bbp_workflow.simulation.task.CortexNrdmsPySim attribute) (bbp_workflow.simulation.task.HippocampusNrdmsPySim attribute) (bbp_workflow.simulation.task.NrdmsPySim attribute) Contribution (class in entity_management.core) coords (bbp_workflow.simulation.task.CampaignSimProcessorSbatch attribute) (bbp_workflow.simulation.task.GenerateCoupledCoordsSimulationCampaign attribute) (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) coords_filter (bbp_workflow.simulation.task.SimulationCampaignProcessor attribute) coords_filter_func (bbp_workflow.simulation.task.AmendSimulationCampaign attribute) (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) CoreTraceCollection (class in entity_management.simulation) CortexNrdmsPySim (class in bbp_workflow.simulation.task) cpus_per_task (bbp_workflow.simulation.task.MultiscaleNrdmsPySim attribute) (bbp_workflow.simulation.task.NrdmsPySim attribute) (bbp_workflow.simulation.task.SimulationCampaign attribute) (bbp_workflow.task.IPyParallelExclusive attribute) (bbp_workflow.task.SlurmCfg attribute) custom_getattr() (in module entity_management.base) CutPlane (class in entity_management.morphology) D DataDownload (class in entity_management.core) Decoder (class in bbp_workflow.luigi) deprecate() (entity_management.base.Identifiable method) Derivation (class in entity_management.base) description (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) (bbp_workflow.simulation.task.RegisterSimCampaignFromConfig attribute) DetailedCircuit (class in entity_management.simulation) DetailedCircuitValidation (class in entity_management.simulation) DetailedCircuitValidationReport (class in entity_management.simulation) done() (bbp_workflow.luigi.RunAnywayTarget method) (bbp_workflow.task.KgTask method) download() (entity_management.core.DataDownload method) E EdgeCollection (class in entity_management.simulation) EModelGenerationShape (class in entity_management.simulation) enable_internet (bbp_workflow.task.EnvCfg attribute) enable_shm (bbp_workflow.simulation.task.NrdmsPySim attribute) (bbp_workflow.simulation.task.SimCampaign attribute) (bbp_workflow.simulation.task.SimulationCampaign attribute) entity (bbp_workflow.target.KgUrlTarget property) Entity (class in entity_management.core) entity_management.base module entity_management.core module entity_management.morphology module entity_management.simulation module env (bbp_workflow.task.EnvCfg attribute) EnvCfg (class in bbp_workflow.task) ETypeFeatureProtocol (class in entity_management.simulation) evolve() (entity_management.base.Frozen method) (entity_management.base.Identifiable method) exclusive (bbp_workflow.simulation.task.NrdmsPySim attribute) (bbp_workflow.simulation.task.SimulationCampaign attribute) (bbp_workflow.task.IPyParallelExclusive attribute) (bbp_workflow.task.SlurmCfg attribute) exists() (bbp_workflow.target.KgUrlTarget method) ExperimentalCell (class in entity_management.simulation) extends (class in bbp_workflow.luigi) F files (bbp_workflow.simulation.task.CleanUpSimCampaignFiles attribute) force (bbp_workflow.simulation.task.SimCampaignHalt attribute) from_file() (bbp_workflow.task.KgTask method) (entity_management.core.DataDownload class method) from_id() (bbp_workflow.task.KgTask method) (entity_management.base.Identifiable class method) from_json_str() (bbp_workflow.task.KgTask method) (entity_management.core.DataDownload class method) from_url() (entity_management.base.Identifiable class method) Frozen (class in entity_management.base) G generate_campaign() (in module bbp_workflow.simulation.sim_writer) generate_stim_file() (in module bbp_workflow.simulation.sim_writer) generate_symlinks (bbp_workflow.simulation.task.SimCampaignInfo attribute) GenerateAndRunSimCampaign (class in bbp_workflow.simulation.task) GenerateCoupledCoordsAndRunSimCampaign (class in bbp_workflow.simulation.task) GenerateCoupledCoordsSimulationCampaign (class in bbp_workflow.simulation.task) GenerateSimulationCampaign (class in bbp_workflow.simulation.task) get_constrained_url() (entity_management.base.Identifiable class method) get_data() (bbp_workflow.luigi.RunAnywayTarget method) get_id() (entity_management.base.Identifiable method) (entity_management.core.DataDownload method) get_location() (entity_management.core.DataDownload method) get_location_path() (entity_management.core.DataDownload method) get_rev() (entity_management.base.Identifiable method) get_url() (entity_management.base.Identifiable method) get_url_as_path() (entity_management.core.DataDownload method) H HippocampusNrdmsPySim (class in bbp_workflow.simulation.task) host (bbp_workflow.task.RemoteHostCfg attribute) host_config (bbp_workflow.generation.workflow.SBOWorkflow property) I Identifiable (class in entity_management.base) inherits (class in bbp_workflow.luigi) install_luigi (bbp_workflow.task.MakeVirtualEnv attribute) IonChannelMechanismRelease (class in entity_management.simulation) IPyParallel (class in bbp_workflow.task) IPyParallelExclusive (class in bbp_workflow.task) is_sonata (bbp_workflow.simulation.task.CampaignSimProcessorSbatch attribute) (bbp_workflow.simulation.task.NrdmsPySim attribute) J job_id (bbp_workflow.simulation.task.SimCampaignThrottle attribute) job_name (bbp_workflow.task.SlurmCfg attribute) job_output (bbp_workflow.task.SlurmCfg attribute) K kg_base (bbp_workflow.task.KgCfg attribute) kg_config (bbp_workflow.generation.workflow.SBOWorkflow property) kg_org (bbp_workflow.task.KgCfg attribute) kg_proj (bbp_workflow.task.KgCfg attribute) KgCfg (class in bbp_workflow.task) KgTask (class in bbp_workflow.task) KgUrlTarget (class in bbp_workflow.target) L LabeledCell (class in entity_management.morphology) link_file() (entity_management.core.DataDownload class method) list_by_model() (entity_management.core.ModelRuntimeParameters class method) list_by_schema() (entity_management.base.Identifiable class method) LookupDetailedCircuit (class in bbp_workflow.simulation.task) LookupKgEntity (class in bbp_workflow.task) LookupSimCampaign (class in bbp_workflow.simulation.task) LookupSimulationCampaign (class in bbp_workflow.simulation.task) M make_web_link() (bbp_workflow.task.KgTask method) MakeRemoteFolder (class in bbp_workflow.task) MakeVirtualEnv (class in bbp_workflow.task) max_workers (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) mem (bbp_workflow.simulation.task.NrdmsPySim attribute) (bbp_workflow.simulation.task.SimulationCampaign attribute) (bbp_workflow.task.IPyParallelExclusive attribute) (bbp_workflow.task.SlurmCfg attribute) mem_per_cpu (bbp_workflow.task.SlurmCfg attribute) meta_seed (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) model_building_steps (bbp_workflow.simulation.task.NrdmsPySim attribute) (bbp_workflow.simulation.task.SimulationCampaign attribute) ModelInstance (class in entity_management.simulation) ModelRelease (class in entity_management.simulation) ModelReleaseIndex (class in entity_management.simulation) ModelRuntimeParameters (class in entity_management.core) ModelScript (class in entity_management.simulation) module bbp_workflow.generation.workflow bbp_workflow.luigi bbp_workflow.simulation.sim_writer bbp_workflow.simulation.task bbp_workflow.simulation.util bbp_workflow.target bbp_workflow.task entity_management.base entity_management.core entity_management.morphology entity_management.simulation module_archive (bbp_workflow.task.EnvCfg attribute) (bbp_workflow.task.MakeVirtualEnv attribute) module_path (bbp_workflow.task.EnvCfg attribute) modules (bbp_workflow.simulation.task.CortexNrdmsPySim attribute) (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) (bbp_workflow.simulation.task.HippocampusNrdmsPySim attribute) (bbp_workflow.simulation.task.MultiscaleNrdmsPySim attribute) (bbp_workflow.simulation.task.PlasticityCortexNrdmsPySim attribute) (bbp_workflow.simulation.task.ThalamusNrdmsPySim attribute) (bbp_workflow.task.EnvCfg attribute) (bbp_workflow.task.IPyParallel attribute) (bbp_workflow.task.MakeVirtualEnv attribute) Morphology (class in entity_management.morphology) (class in entity_management.simulation) MorphologyRelease (class in entity_management.simulation) MoveSimCampaign (class in bbp_workflow.simulation.task) mpi (bbp_workflow.task.SlurmCfg attribute) MultiDistributionEntity (class in entity_management.core) MultiscaleNrdmsPySim (class in bbp_workflow.simulation.task) N name (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) (bbp_workflow.simulation.task.RegisterSimCampaignFromConfig attribute) (bbp_workflow.task.KgTask attribute) NeuronMorphology (class in entity_management.morphology) NodeCollection (class in entity_management.simulation) nodes (bbp_workflow.task.SlurmCfg attribute) normalize() (bbp_workflow.luigi.OptionalQuantityParameter method) NrdmsPySim (class in bbp_workflow.simulation.task) ntasks (bbp_workflow.task.IPyParallel attribute) (bbp_workflow.task.SlurmCfg attribute) ntasks_per_node (bbp_workflow.simulation.task.MultiscaleNrdmsPySim attribute) (bbp_workflow.task.SlurmCfg attribute) O OntologyTerm (class in entity_management.base) OptionalQuantityParameter (class in bbp_workflow.luigi) output() (bbp_workflow.simulation.task.LookupDetailedCircuit method) (bbp_workflow.simulation.task.LookupSimulationCampaign method) (bbp_workflow.simulation.task.NrdmsPySim method) (bbp_workflow.simulation.task.SimCampaign method) (bbp_workflow.task.KgTask method) (bbp_workflow.task.MakeRemoteFolder method) (bbp_workflow.task.MakeVirtualEnv method) OutputCfg (class in bbp_workflow.task) P packages (bbp_workflow.task.MakeVirtualEnv attribute) parallel_jobs (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) (bbp_workflow.simulation.task.SimCampaignMixin attribute) (bbp_workflow.simulation.task.SimCampaignThrottle attribute) param_processors (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) parse() (bbp_workflow.luigi.OptionalQuantityParameter method) (bbp_workflow.luigi.QuantityDictParameter method) (bbp_workflow.luigi.QuantityParameter method) parse_circuit_config() (in module bbp_workflow.simulation.sim_writer) partition (bbp_workflow.task.SlurmCfg attribute) path (bbp_workflow.task.MakeRemoteFolder attribute) path_prefix (bbp_workflow.simulation.task.MoveSimCampaign attribute) (bbp_workflow.task.OutputCfg attribute) Person (class in entity_management.core) PlasticityCortexNrdmsPySim (class in bbp_workflow.simulation.task) PlotCollection (class in entity_management.simulation) post_processors (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) processor_task (bbp_workflow.simulation.task.SimulationCampaignProcessor attribute) publish() (bbp_workflow.task.KgTask method) (entity_management.base.Identifiable method) (entity_management.core.Activity method) (entity_management.core.Entity method) Q qos (bbp_workflow.task.SlurmCfg attribute) QuantitativeValue (class in entity_management.base) QuantityDictParameter (class in bbp_workflow.luigi) QuantityParameter (class in bbp_workflow.luigi) R read_config() (in module bbp_workflow.simulation.util) ReconstructedCell (class in entity_management.morphology) ReconstructedCellCollection (class in entity_management.simulation) ReconstructedNeuronMorphology (class in entity_management.morphology) ReconstructedPatchedCell (class in entity_management.morphology) ReconstructedWholeBrainCell (class in entity_management.morphology) RegisterCoupledCoordsSimulationCampaign (class in bbp_workflow.simulation.task) RegisterSimCampaignFromConfig (class in bbp_workflow.simulation.task) RegisterSimulationCampaign (class in bbp_workflow.simulation.task) remote_script() (bbp_workflow.task.IPyParallel method) RemoteContext (class in bbp_workflow.luigi) RemoteHostCfg (class in bbp_workflow.task) RemoteTarget (class in bbp_workflow.luigi) Report (class in entity_management.simulation) Requirement (class in bbp_workflow.luigi) requirements (bbp_workflow.task.MakeVirtualEnv attribute) Requires (class in bbp_workflow.luigi) requires() (bbp_workflow.generation.workflow.SBOWorkflow method) (bbp_workflow.simulation.task.AmendSimulationCampaign method) (bbp_workflow.simulation.task.CampaignSimProcessorSbatch method) (bbp_workflow.simulation.task.CleanUpSimCampaignFiles method) (bbp_workflow.simulation.task.GenerateAndRunSimCampaign method) (bbp_workflow.simulation.task.GenerateCoupledCoordsAndRunSimCampaign method) (bbp_workflow.simulation.task.GenerateSimulationCampaign method) (bbp_workflow.simulation.task.MoveSimCampaign method) (bbp_workflow.simulation.task.SimCampaign method) (bbp_workflow.simulation.task.SimCampaignHalt method) (bbp_workflow.simulation.task.SimCampaignInfo method) (bbp_workflow.simulation.task.SimCampaignThrottle method) (bbp_workflow.simulation.task.SimulationCampaign method) (bbp_workflow.simulation.task.SimulationCampaignProcessor method) return_result (bbp_workflow.task.SrunTask attribute) run() (bbp_workflow.task.SrunTask method) RunAnywayTarget (class in bbp_workflow.luigi) S SbatchTask (class in bbp_workflow.task) SBOWorkflow (class in bbp_workflow.generation.workflow) seed_as_coord (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) serialize() (bbp_workflow.luigi.OptionalQuantityParameter method) (bbp_workflow.luigi.QuantityDictParameter method) sim_config_url (bbp_workflow.simulation.task.AmendSimulationCampaign attribute) (bbp_workflow.simulation.task.CleanUpSimCampaignFiles attribute) (bbp_workflow.simulation.task.MoveSimCampaign attribute) (bbp_workflow.simulation.task.SimCampaign attribute) (bbp_workflow.simulation.task.SimCampaignHalt attribute) (bbp_workflow.simulation.task.SimCampaignInfo attribute) (bbp_workflow.simulation.task.SimCampaignThrottle attribute) (bbp_workflow.simulation.task.SimulationCampaign attribute) (bbp_workflow.simulation.task.SimulationCampaignProcessor attribute) sim_indices (bbp_workflow.simulation.task.SimCampaign attribute) SimCampaign (class in bbp_workflow.simulation.task) SimCampaignHalt (class in bbp_workflow.simulation.task) SimCampaignInfo (class in bbp_workflow.simulation.task) SimCampaignMixin (class in bbp_workflow.simulation.task) SimCampaignThrottle (class in bbp_workflow.simulation.task) Simulation (class in entity_management.simulation) simulation_type (bbp_workflow.simulation.task.SimulationCampaign attribute) SimulationCampaign (class in bbp_workflow.simulation.task) (class in entity_management.simulation) SimulationCampaignAnalysis (class in entity_management.simulation) SimulationCampaignConfiguration (class in entity_management.simulation) SimulationCampaignExecution (class in entity_management.simulation) SimulationCampaignGeneration (class in entity_management.simulation) SimulationCampaignProcessor (class in bbp_workflow.simulation.task) SimulationCampaignReportCollection (class in entity_management.simulation) SimulationConfiguration (class in entity_management.simulation) SingleCellSimulationTrace (class in entity_management.simulation) SingleCellTraceGeneration (class in entity_management.simulation) SlurmCfg (class in bbp_workflow.task) SoftwareAgent (class in entity_management.core) SpikeReport (class in entity_management.simulation) SrunTask (class in bbp_workflow.task) Subject (class in entity_management.base) SynapseRelease (class in entity_management.simulation) SynthesizedNeuronMorphology (class in entity_management.morphology) T Target (class in entity_management.simulation) ThalamusNrdmsPySim (class in bbp_workflow.simulation.task) Threshold (class in entity_management.simulation) time (bbp_workflow.task.SlurmCfg attribute) TraceCollection (class in entity_management.simulation) TraceFeature (class in entity_management.simulation) TraceFeatureExtraction (class in entity_management.simulation) U Unconstrained (class in entity_management.base) url (bbp_workflow.task.LookupKgEntity attribute) used() (entity_management.simulation.SimulationCampaignGeneration class method) user_target_processor() (in module bbp_workflow.simulation.sim_writer) V validate_output (bbp_workflow.simulation.task.GenerateSimulationCampaign attribute) VariableReport (class in entity_management.simulation) virtual_env (bbp_workflow.task.EnvCfg attribute) (bbp_workflow.task.MakeVirtualEnv attribute) W was_generated_by() (entity_management.core.Entity class method) WorkflowExecution (class in entity_management.core) X xr_from_dict() (in module bbp_workflow.simulation.util) xr_to_dict() (in module bbp_workflow.simulation.util)
