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NEST main@caf0ae8
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NEST main@caf0ae8
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Namespace for the NEST simulation kernel. More...
Namespaces | |
| namespace | names |
| This namespace contains global name std::string objects. | |
| namespace | timers |
Classes | |
| class | AbstractLayer |
| Abstract base class for Layers of unspecified dimension. More... | |
| class | AbstractMask |
| Abstract base class for masks with unspecified dimension. More... | |
| class | ac_generator |
| class | AllMask |
| Mask which covers all of space. More... | |
| class | AllToAllBuilder |
| class | amat2_psc_exp |
| class | AMPA |
| class | AMPA_NMDA |
| class | AnchoredMask |
| Mask shifted by an anchor. More... | |
| class | ArchivingNode |
| A node which archives spike history for the purposes of spike-timing dependent plasticity (STDP) More... | |
| class | ArrayDoubleParameter |
| Array parameter classes, returning double values in order. More... | |
| class | ArrayLongParameter |
| Array parameter classes, returning integer values in order. More... | |
| struct | AssignedRanks |
| class | BackendAlreadyRegistered |
| class | BackendNotPrepared |
| class | BackendPrepared |
| class | BadDelay |
| Exception to be thrown if an invalid delay is used in a connection. More... | |
| class | BadParameter |
| Exception to be thrown if a parameter cannot be set. More... | |
| class | BadParameterValue |
| Exception to be thrown if a parameter value is not acceptable. More... | |
| class | BadProperty |
| Exception to be thrown if a status parameter is incomplete or inconsistent. More... | |
| class | BallMask |
| Mask defining a circular or spherical region. More... | |
| class | BaseRandomGenerator |
| Base class for RNG engine wrappers. More... | |
| class | BaseRandomGeneratorFactory |
| Base class for random generator factory. More... | |
| class | bernoulli_synapse |
| class | BernoulliBuilder |
| class | binary_neuron |
| Binary stochastic neuron with linear or sigmoidal gain function. More... | |
| class | BipartiteConnBuilder |
| Abstract base class for Bipartite ConnBuilders which form the components of ConnBuilder. More... | |
| class | BipartiteConnBuilderFactory |
| Factory class for bipartite ConnBuilders. More... | |
| class | BoolIndicatorUInt64 |
| A wrapper class for an integer that is only allowed to take the values 0 and 1. More... | |
| struct | Box |
| A box is defined by the lower left corner (minimum coordinates) and the upper right corner (maximum coordinates). More... | |
| class | BoxMask |
| Mask defining a box region. More... | |
| class | BufferResizeLog |
| Collect information on spike transmission buffer resizing. More... | |
| class | clopath_synapse |
| class | ClopathArchivingNode |
| An archiving node which additionally archives parameters and buffers needed for the Clopath plasticity rule. More... | |
| class | cm_default |
| class | CommonPropertiesHomW |
| Class containing the common properties for all synapses with common weight. More... | |
| class | CommonSynapseProperties |
| Class containing the common properties for all connections of a certain type. More... | |
| class | ComparingParameter |
| Parameter class representing the comparison of two parameters. More... | |
| class | Compartment |
| class | CompartmentCurrents |
| class | CompTree |
| class | ConditionalParameter |
| Parameter class choosing a value based on a comparing parameter. More... | |
| class | ConductanceEvent |
| Event for electrical conductances. More... | |
| class | ConnBuilder |
| Class representing a connection builder which may be bi- or tripartite. More... | |
| class | Connection |
| Base class for representing connections. More... | |
| class | ConnectionCreator |
| This class is a representation of the dictionary of connection properties given as an argument to the ConnectLayers function. More... | |
| class | ConnectionID |
| class | ConnectionLabel |
| The class ConnectionLabel enables synapse model to be labeled by a positive integer. More... | |
| class | ConnectionManager |
| class | Connector |
| Homogeneous connector, contains synapses of one particular type (syn_id_). More... | |
| class | ConnectorBase |
| Base class to allow storing Connectors for different synapse types in vectors. More... | |
| class | ConnectorModel |
| class | ConnParameter |
| class | ConnTestDummyNodeBase |
| Base class for dummy nodes used in connection testing. More... | |
| class | ConstantParameter |
| Parameter with constant value. More... | |
| class | cont_delay_synapse |
| class | ConverseMask |
| Mask oriented in the opposite direction. More... | |
| class | correlation_detector |
| class | correlomatrix_detector |
| class | correlospinmatrix_detector |
| class | CosParameter |
| Parameter class representing the cosine of a parameter. More... | |
| class | CSDMapEntry |
| Entry of compressed_spike_data_map_. More... | |
| class | CurrentEvent |
| Event for electrical currents. More... | |
| class | CycleTimeLog |
| Collect cycle duration and spike-count information for individual update cycles. More... | |
| class | DataAccessFunctor |
| Class that reads out state vector elements, used by UniversalDataLogger. More... | |
| class | DataEvent |
| Event for transmitting arbitrary data. More... | |
| class | DataLoggingReply |
| Provide logged data through request transmitting reference. More... | |
| class | DataLoggingRequest |
| Request data to be logged/logged data to be sent. More... | |
| class | DataSecondaryEvent |
| Template class for the storage and communication of a std::vector of type DataType. More... | |
| class | dc_generator |
| class | DelayChecker |
| class | DelayedRateConnectionEvent |
| Event for rate model connections with delay. More... | |
| class | DeprecationWarning |
| class | Device |
| Class implementing common interface and properties common for all devices. More... | |
| class | DeviceNode |
| Base class for device objects. More... | |
| class | DifferenceMask |
| Mask combining two masks with a minus operation, the difference. More... | |
| class | DifferenceParameter |
| Parameter class representing the difference of two parameters. More... | |
| class | diffusion_connection |
| class | DiffusionConnectionEvent |
| Event for diffusion connections (rate model connections for the siegert_neuron). More... | |
| class | DimensionMismatch |
| Exception to be thrown if the dimensions of two or more objects do not agree. More... | |
| class | DimensionParameter |
| Position-generating Parameter class. More... | |
| class | DistributionError |
| Exception to be thrown if a problem with the distribution of elements is encountered. More... | |
| class | DoubleDataEvent |
| class | DSCurrentEvent |
| "Callback request event" for use in Device. More... | |
| class | DSSpikeEvent |
| "Callback request event" for use in Device. More... | |
| class | DynamicModuleManagementError |
| Exception to be thrown if loading or unloading a dynamically loaded module fails. More... | |
| class | DynamicRecordablesMap |
| Map names of recordables to DataAccessFunctors. More... | |
| class | EllipseMask |
| Mask defining an elliptical or ellipsoidal region. More... | |
| struct | EnableBitMaskOperators |
| These methods support type-safe bitfields using C++'s enum classes. More... | |
| struct | EnableBitMaskOperators< ConnectionModelProperties > |
| class | eprop_iaf |
| Class implementing a LIF neuron model for e-prop plasticity with additional biological features. More... | |
| class | eprop_iaf_adapt |
| Class implementing an adaptive LIF neuron model for e-prop plasticity with additional biological features. More... | |
| class | eprop_iaf_adapt_bsshslm_2020 |
| Class implementing an adaptive LIF neuron model for e-prop plasticity. More... | |
| class | eprop_iaf_bsshslm_2020 |
| Class implementing a LIF neuron model for e-prop plasticity. More... | |
| class | eprop_iaf_psc_delta |
| Class implementing a LIF neuron model for e-prop plasticity with additional biological features. More... | |
| class | eprop_iaf_psc_delta_adapt |
| Class implementing an adaptive LIF neuron model for e-prop plasticity with additional biological features. More... | |
| class | eprop_learning_signal_connection |
| Class implementing a feedback connection model for e-prop plasticity with additional biological features. More... | |
| class | eprop_learning_signal_connection_bsshslm_2020 |
| Class implementing a feedback connection model for e-prop plasticity. More... | |
| class | eprop_readout |
| Class implementing a readout neuron model for e-prop plasticity with additional biological features. More... | |
| class | eprop_readout_bsshslm_2020 |
| Class implementing a readout neuron model for e-prop plasticity. More... | |
| class | eprop_synapse |
| Class implementing a synapse model for e-prop plasticity with additional biological features. More... | |
| class | eprop_synapse_bsshslm_2020 |
| Class implementing a synapse model for e-prop plasticity. More... | |
| class | EpropArchivingNode |
| Base class implementing archiving for node models supporting e-prop plasticity. More... | |
| class | EpropArchivingNodeReadout |
| Class implementing an intermediate archiving node model for readout node models supporting e-prop plasticity. More... | |
| class | EpropArchivingNodeRecurrent |
| Class implementing an intermediate archiving node model for recurrent node models supporting e-prop plasticity. More... | |
| class | EpropSynapseBSSHSLM2020CommonProperties |
| Base class implementing common properties for e-prop synapses. More... | |
| class | EpropSynapseCommonProperties |
| Base class implementing common properties for e-prop synapses with additional biological features. More... | |
| class | Event |
| Encapsulate information sent between nodes. More... | |
| class | EventDeliveryManager |
| class | ExpDistParameter |
| Parameter class representing an exponential distribution applied on a parameter. More... | |
| class | ExponentialParameter |
| Random parameter with exponential distribution. More... | |
| class | ExpParameter |
| Parameter class representing the exponential of a parameter. More... | |
| class | FixedInDegreeBuilder |
| class | FixedOutDegreeBuilder |
| class | FixedTotalNumberBuilder |
| class | FlushEventMechanism |
| Class implementing a flush event mechanism for neuron models. More... | |
| class | FreeLayer |
| Layer with free positioning of neurons, positions specified by user. More... | |
| class | GABA |
| class | GaborParameter |
| class | gainfunction_erfc |
| class | gainfunction_ginzburg |
| class | gainfunction_mcculloch_pitts |
| class | gamma_sup_generator |
| class | GammaParameter |
| Parameter class representing a gamma distribution applied on a parameter. More... | |
| class | gap_junction |
| class | GapJunctionEvent |
| Event for gap-junction information. More... | |
| class | Gaussian2DParameter |
| Parameter class representing a gaussian distribution in two dimensions applied on a parameter. More... | |
| class | GaussianParameter |
| Parameter class representing a gaussian distribution applied on a parameter. More... | |
| class | GenericBipartiteConnBuilderFactory |
| Generic factory class for bipartite ConnBuilder objects. More... | |
| class | GenericConnectorModel |
| class | GenericFactory |
| Generic Factory class for objects deriving from a base class BaseT. More... | |
| class | GenericGrowthCurveFactory |
| Generic factory class for GrowthCurve objects. More... | |
| class | GenericModel |
| Generic Model template. More... | |
| class | GenericThirdConnBuilderFactory |
| Generic factory class for tripartite ConnBuilder objects. More... | |
| class | gif_psc_exp |
| class | gif_psc_exp_multisynapse |
| class | glif_psc |
| class | glif_psc_double_alpha |
| class | GridLayer |
| Layer with neurons placed in a grid. More... | |
| class | GridMask |
| Mask defined in terms of grid points rather than spacial coordinates. More... | |
| class | GrowthCurve |
| Defines the way the number of synaptic elements changes through time according to the calcium concentration of the neuron. More... | |
| class | GrowthCurveFactory |
| Factory class for generating objects of type GrowthCurve. More... | |
| class | GrowthCurveGaussian |
| Gaussian version of a growth curve. More... | |
| class | GrowthCurveLinear |
| Linear version of a growth curve. More... | |
| class | GrowthCurveSigmoid |
| Sigmoid version of a growth curve. More... | |
| class | GSLSolverFailure |
| Exception to be thrown if a GSL solver does not return GSL_SUCCESS. More... | |
| class | histentry |
| Class to represent a single entry in the spiking history of the ArchivingNode. More... | |
| class | histentry_extended |
| Class to represent a single entry in the spiking history of the ClopathArchivingNode or the UrbanczikArchivingNode. More... | |
| class | HistEntryEprop |
| Base class implementing history entries for e-prop plasticity. More... | |
| class | HistEntryEpropFiringRateReg |
| Class implementing entries of the firing rate regularization history for e-prop plasticity. More... | |
| class | HistEntryEpropReadout |
| Class implementing entries of the readout node model's history of e-prop dynamic variables. More... | |
| class | HistEntryEpropRecurrent |
| Class implementing entries of the recurrent node model's history of e-prop dynamic variables. More... | |
| class | HistEntryEpropUpdate |
| Class implementing entries of the update history for e-prop plasticity. More... | |
| class | ht_synapse |
| class | iaf_chs_2007 |
| class | iaf_psc_alpha |
| class | iaf_psc_alpha_multisynapse |
| class | iaf_psc_alpha_ps |
| class | iaf_psc_delta |
| class | iaf_psc_delta_ps |
| class | iaf_psc_exp |
| class | iaf_psc_exp_htum |
| class | iaf_psc_exp_multisynapse |
| class | iaf_psc_exp_ps |
| class | iaf_psc_exp_ps_lossless |
| class | iaf_tum_2000 |
| class | ignore_and_fire |
| class | IgnoreAndSpikeMechanism |
| Class implementing an ignore-and-fire mechanism for neuron models. More... | |
| class | IllegalConnection |
| To be thrown if a connection is not possible. More... | |
| class | IncompatibleReceptorType |
| Exception to be thrown if the specified receptor type does not accept the event type. More... | |
| class | InexistentConnection |
| To be thrown if a connection does not exists but something is to be done with it. More... | |
| class | inhomogeneous_poisson_generator |
| class | InstantaneousRateConnectionEvent |
| Event for rate model connections without delay. More... | |
| class | InternalError |
| Exception to be thrown if an internal error occurs. More... | |
| class | IntersectionMask |
| Mask combining two masks with a Boolean AND, the intersection. More... | |
| class | InvalidDefaultResolution |
| Exception to be thrown on prototype construction if Time objects incompatible. More... | |
| class | InvalidTimeInModel |
| Exception to be thrown on instance construction if Time objects incompatible. More... | |
| class | IOError |
| Exception to be thrown if an error occured in an I/O operation. More... | |
| class | IOManager |
| Manager to handle everything related to input and output. More... | |
| class | izhikevich |
| class | jonke_synapse |
| class | JonkeCommonProperties |
| Class containing the common properties for all synapses of type dopamine connection. More... | |
| class | K |
| Channel taken from the following .mod file: https://senselab.med.yale.edu/ModelDB/ShowModel?model=140828&file=/Branco_2010/mod.files/kv.mod#tabs-2. More... | |
| class | KernelException |
| Base class for all Kernel exceptions. More... | |
| class | KernelManager |
| Global properties of the simulation kernel. More... | |
| class | KeyError |
| Exception to be thrown if when trying to delete an entry from DynamicRecordablesMap that does not exist. More... | |
| class | Layer |
| Abstract base class for Layer of given dimension (D=2 or 3). More... | |
| class | LayerExpected |
| class | LayerMetadata |
| Class containing spatial information to be used as metadata in a NodeCollection. More... | |
| class | LayerNodeExpected |
| class | LearningSignalConnectionEvent |
| Event for learning signal connections. More... | |
| class | ListRingBuffer |
| class | LocalNodeExpected |
| class | LoggingEvent |
| class | LoggingManager |
| class | LognormalParameter |
| Random parameter with lognormal distribution. More... | |
| class | ManagerInterface |
| Interface for kernel manager classes. More... | |
| class | Mask |
| Abstract base class for masks with given dimension. More... | |
| class | MaskedLayer |
| Class for applying masks to layers. More... | |
| class | mat2_psc_exp |
| class | MaxParameter |
| Parameter class representing the maximum of a parameter's value and a given value. More... | |
| class | MinParameter |
| Parameter class representing the minimum of a parameter's value and a given value. More... | |
| class | mip_generator |
| class | Model |
| Base class for all Models. More... | |
| class | ModelInUse |
| Exception to be thrown if a (neuron/synapse) model with the the specified ID is used within the network and the providing module hence cannot be uninstalled. More... | |
| class | ModelManager |
| class | modelrange |
| class | ModelRangeManager |
| class | ModuleManager |
| class | MPIManager |
| class | MultiChannelInputBuffer |
| class | MultiIndex |
| An index into a multidimensional array. More... | |
| class | multimeter |
| class | MultRBuffer |
| class | MUSICManager |
| Encapsulate all calls to MUSIC. More... | |
| class | Na |
| Channel taken from the following .mod file: https://senselab.med.yale.edu/ModelDB/ShowModel?model=140828&file=/Branco_2010/mod.files/na.mod#tabs-2. More... | |
| class | NamingConflict |
| Throw if an existing name is attempted to be redefined. More... | |
| class | nc_const_iterator |
| Iterator for NodeCollections. More... | |
| class | NESTExtensionInterface |
| class | NewModelNameExists |
| Exception to be thrown if a name requested for a user-defined model exist already. More... | |
| class | NMDA |
| class | Node |
| Base class for all NEST network objects. More... | |
| class | NodeCollection |
| Superclass for NodeCollections. More... | |
| class | NodeCollectionComposite |
| Subclass for the composite NodeCollection type. More... | |
| class | NodeCollectionMetadata |
| Class for Metadata attached to NodeCollection. More... | |
| class | NodeCollectionPrimitive |
| Subclass for the primitive NodeCollection type. More... | |
| class | NodeIDTriple |
| Represent single node entry in node collection. More... | |
| class | NodeManager |
| class | NodePosParameter |
| Node position parameter. More... | |
| class | NodeWithProxiesExpected |
| class | noise_generator |
| class | nonlinearities_gauss_rate |
| class | nonlinearities_lin_rate |
| class | nonlinearities_sigmoid_rate |
| class | nonlinearities_sigmoid_rate_gg_1998 |
| class | nonlinearities_tanh_rate |
| class | nonlinearities_threshold_lin_rate |
| struct | NoOpStopwatch |
| class | NormalParameter |
| Random parameter with normal distribution. More... | |
| class | NoThreadSiblingsAvailable |
| Exception to be thrown if the specified Node does not exist. More... | |
| class | NotImplemented |
| Exception to be thrown if a feature is unavailable. More... | |
| class | Ntree |
| A Ntree object represents a subtree or leaf in a Ntree structure. More... | |
| class | NumericalInstability |
| Exception to be thrown if numerical instabilities are detected. More... | |
| class | OffGridSpikeData |
| struct | OffGridSpikeDataWithRank |
| Combine target rank and spike data information for storage in emitted_off_grid_spikes_register. More... | |
| class | OffGridTarget |
| class | OneToOneBuilder |
| class | Parameter |
| Abstract base class for parameters. More... | |
| class | ParameterConnParameterWrapper |
| class | parrot_neuron |
| class | parrot_neuron_ps |
| class | PerThreadBoolIndicator |
| A thread-safe vector to keep track of the status across threads, for example during gather operations. More... | |
| class | poisson_generator |
| class | poisson_generator_ps |
| class | PoissonBuilder |
| class | Position |
| class | PowParameter |
| Parameter class representing the parameter raised to the power of an exponent. More... | |
| class | pp_psc_delta |
| class | ppd_sup_generator |
| struct | PrimitiveSortOp |
| Functor for sorting a vector of NodeCollectionPrimitives. More... | |
| class | ProductParameter |
| Parameter class representing the product of two parameters. More... | |
| class | proxynode |
| Proxy to provide Nodes on remote machines. More... | |
| class | PseudoRecordingDevice |
| Common properties of all pseudo-recording devices. More... | |
| class | pulsepacket_generator |
| class | quantal_stp_synapse |
| class | QuotientParameter |
| Parameter class representing the quotient of two parameters. More... | |
| class | RandomDistribution |
| Wrapper for distributions. More... | |
| class | RandomGenerator |
| Wrapper for RNG engines. More... | |
| class | RandomGeneratorFactory |
| class | RandomManager |
| Manage the kernel's random number generators. More... | |
| class | RangeCheck |
| Exception to be thrown if a given array has the wrong size. More... | |
| class | rate_connection_delayed |
| class | rate_connection_instantaneous |
| class | rate_neuron_ipn |
| class | rate_neuron_opn |
| class | rate_transformer_node |
| class | RateEvent |
| Event for firing rate information. More... | |
| class | RecordablesMap |
| Map names of recordables to data access functions. More... | |
| class | RecordingBackend |
| Abstract base class for all NESTio recording backends. More... | |
| class | RecordingBackendASCII |
| ASCII specialization of the RecordingBackend interface. More... | |
| class | RecordingBackendMemory |
| Memory specialization of the RecordingBackend interface. More... | |
| class | RecordingBackendMPI |
| A recording backend for sending information with MPI. More... | |
| class | RecordingBackendScreen |
| A simple recording backend implementation that prints all recorded data to screen. More... | |
| class | RecordingBackendSIONlib |
| class | RecordingDevice |
| Base class for all recording devices. More... | |
| class | RedrawParameter |
| Parameter class redrawing a parameter value if it is outside of specified limits. More... | |
| class | RingBuffer |
| Buffer Layout. More... | |
| class | ScalarDoubleParameter |
| Single double value. More... | |
| class | ScalarIntegerParameter |
| Single integer value. More... | |
| class | SecondaryEvent |
| Base class of secondary events. More... | |
| class | SecondaryTargetDataFields |
| class | SendBufferPosition |
| This class simplifies keeping track of write position in MPI buffer while collocating spikes. More... | |
| class | sic_connection |
| class | SICEvent |
| Event for slow inward current (SIC) connections between astrocytes and neurons. More... | |
| class | SimulationManager |
| class | SinParameter |
| Parameter class representing the sine of a parameter. More... | |
| class | sinusoidal_poisson_generator |
| class | SliceRingBuffer |
| Queue for all spikes arriving into a neuron. More... | |
| class | Source |
| Stores the node ID of a presynaptic neuron and the number of local targets, along with a flag, whether this entry has been processed yet. More... | |
| class | SourceTable |
| This data structure stores the node IDs of presynaptic neurons during postsynaptic connection creation, before the connection information has been transferred to the presynaptic side. More... | |
| struct | SourceTablePosition |
| Three-tuple to store position in 3d vector of sources. More... | |
| class | SparseNodeArray |
| Sparse representation of local nodes. More... | |
| class | SpatialDistanceParameter |
| Parameter representing the spatial distance between two nodes, optionally in a specific dimension. More... | |
| class | SPBuilder |
| class | spike_dilutor |
| class | spike_generator |
| class | spike_recorder |
| class | spike_train_injector |
| class | spikecounter |
| class | SpikeData |
| Used to communicate spikes. More... | |
| struct | SpikeDataWithRank |
| Combine target rank and spike data information for storage in emitted_spikes_register. More... | |
| class | SpikeEvent |
| Event for spike information. More... | |
| class | spin_detector |
| class | SPManager |
| The SPManager class is in charge of managing the dynamic creation and deletion of synapses in the simulation when structural plasticity is enabled. More... | |
| class | static_synapse |
| class | static_synapse_hom_w |
| struct | StaticAssert |
| Compile time assertions. More... | |
| struct | StaticAssert< true > |
| class | stdp_dopamine_synapse |
| class | stdp_facetshw_synapse_hom |
| Class representing an STDP connection with homogeneous parameters, i.e. More... | |
| class | stdp_nn_pre_centered_synapse |
| class | stdp_nn_restr_synapse |
| class | stdp_nn_symm_synapse |
| class | stdp_pl_synapse_hom |
| class | stdp_synapse |
| class | stdp_synapse_hom |
| class | stdp_triplet_synapse |
| class | STDPDopaCommonProperties |
| Class containing the common properties for all synapses of type dopamine connection. More... | |
| class | STDPFACETSHWHomCommonProperties |
| Class containing the common properties for all synapses of type stdp_facetshw_synapse_hom. More... | |
| class | STDPHomCommonProperties |
| Class containing the common properties for all synapses of type stdp_synapse_hom. More... | |
| class | STDPPLHomCommonProperties |
| Class containing the common properties for all synapses of type stdp_pl_synapse_hom. More... | |
| class | step_current_generator |
| class | step_rate_generator |
| class | StepMultipleRequired |
| Exception to be thrown if a Time object should be multiple of the resolution. More... | |
| class | StimulationBackend |
| Abstract base class for all NESTio stimulation backends. More... | |
| class | StimulationBackendMPI |
| A simple input backend MPI implementation. More... | |
| class | StimulationDevice |
| Base class for common properties of StimulationDevices. More... | |
| class | Stopwatch |
| This template has two template arguments. More... | |
| class | StructuralPlasticityNode |
| Implements functionality related to structural synaptic plasticity. More... | |
| class | SumParameter |
| Parameter class representing the sum of two parameters. More... | |
| class | SymmetricBernoulliBuilder |
| class | SynapticElement |
| Synaptic element of a node (axonal bouton or dendritic spine) for the purposes of structural plasticity. More... | |
| struct | SynIdDelay |
| class | Target |
| check legal size More... | |
| class | TargetData |
| Used to communicate part of the connection infrastructure from post- to presynaptic side. More... | |
| class | TargetDataFields |
| class | TargetIdentifierIndex |
| Class providing compact (hpc) target identified by index. More... | |
| class | TargetIdentifierPtrRport |
| Class providing classic target identified information with target pointer and rport. More... | |
| class | TargetSendBufferPosition |
| This class simplifies keeping track of write position in MPI buffer while collocating targets. More... | |
| class | TargetTable |
| This data structure stores all targets of the local neurons. More... | |
| class | TargetTableDevices |
| This data structure stores the connections between local neurons and devices. More... | |
| class | ThirdBernoulliWithPoolBuilder |
| Build third-factor connectivity based on Bernoulli trials, selecting third factor nodes from a fixed pool per target node. More... | |
| class | ThirdConnBuilderFactory |
| Factory class for Third-factor ConnBuilders. More... | |
| class | ThirdInBuilder |
| Builder creating "thÃrd in" connections based on data from "third out" builder. More... | |
| class | ThirdOutBuilder |
| Builder for connections from third-factor nodes to primary target populations. More... | |
| class | Time |
| class | TimeConverter |
| Class to convert times from one representation to another. More... | |
| class | TimeMultipleRequired |
| Exception to be thrown if a Time object should be a multiple of another. More... | |
| class | tsodyks2_synapse |
| class | tsodyks_synapse |
| class | tsodyks_synapse_hom |
| class | TsodyksHomCommonProperties |
| Class containing the common properties for all synapses of type tsodyks_synapse_hom. More... | |
| class | TypeMismatch |
| Exception to be thrown if a given type does not match the expected type. More... | |
| class | UnaccessedDictionaryEntry |
| Not all elements in a Dictionary have been accessed. More... | |
| class | UndefinedName |
| class | UnexpectedEvent |
| Exception to be thrown by the event handler of a node if it receives an event it cannot handle. More... | |
| class | UniformIntParameter |
| Random parameter with uniform distribution in [0,max), yielding integer values. More... | |
| class | UniformParameter |
| Random parameter with uniform distribution in [min,max). More... | |
| class | UnionMask |
| Mask combining two masks with a Boolean OR, the sum. More... | |
| class | UnknownCompartment |
| class | UnknownComponent |
| Exception to be thrown if a component with the the specified name does not exist. More... | |
| class | UnknownModelName |
| Exception to be thrown if a model with the the specified name does not exist. More... | |
| class | UnknownNode |
| Exception to be thrown if the specified Node does not exist. More... | |
| class | UnknownPort |
| To be thrown if a port does not exists. More... | |
| class | UnknownReceptorType |
| Exception to be thrown if the specified receptor type does not exist in the node. More... | |
| class | UnknownSynapseType |
| Exception to be thrown if the specified Synapse type does not exist. More... | |
| class | UnknownThread |
| Exception to be thrown if a thread id outside the range encountered. More... | |
| class | UnmatchedSteps |
| class | UnsupportedEvent |
| Exception to be thrown by a Connection object if a connection with an unsupported event type is attempted. More... | |
| class | urbanczik_synapse |
| class | UrbanczikArchivingNode |
| An archiving node which additionally archives parameters and buffers needed for the Urbanczik-Senn plasticity rule. More... | |
| class | vogels_sprekeler_synapse |
| class | voltmeter |
| class | volume_transmitter |
| class | VPManager |
| class | weight_recorder |
| class | WeightOptimizer |
| Base class implementing a weight optimizer model. More... | |
| class | WeightOptimizerAdam |
| Base class implementing an Adam weight optimizer model. More... | |
| class | WeightOptimizerCommonProperties |
| Base class implementing common properties of a weight optimizer model. More... | |
| class | WeightOptimizerCommonPropertiesAdam |
| Class implementing common properties of an Adam weight optimizer model. More... | |
| class | WeightOptimizerCommonPropertiesGradientDescent |
| Class implementing common properties of a gradient descent weight optimizer model. More... | |
| class | WeightOptimizerGradientDescent |
| Base class implementing a gradient descent weight optimizer model. More... | |
| class | WeightRecorderEvent |
| Event for recording the weight of a spike. More... | |
Functions | |
| double | beta_normalization_factor (const double tau_rise, const double tau_decay) |
| Computes the normalization constant for the beta function. | |
| template<typename T > | |
| bool | update_value_param (Dictionary const &d, const std::string &key, T &value, nest::Node *node) |
| Obtain value from parameter dictionary including evaluation of random or spatial parameters. | |
| template<typename Enum > | |
| constexpr std::enable_if< EnableBitMaskOperators< Enum >::enable, Enum >::type | operator| (const Enum lhs, const Enum rhs) |
| template<typename Enum > | |
| constexpr std::enable_if< EnableBitMaskOperators< Enum >::enable, Enum >::type | operator& (const Enum lhs, const Enum rhs) |
| template<typename Enum > | |
| constexpr std::enable_if< EnableBitMaskOperators< Enum >::enable, Enum >::type | operator^ (const Enum &lhs, const Enum rhs) |
| template<typename Enum > | |
| std::enable_if< EnableBitMaskOperators< Enum >::enable, Enum >::type | operator|= (Enum &lhs, Enum rhs) |
| template<typename Enum > | |
| std::enable_if< EnableBitMaskOperators< Enum >::enable, Enum >::type | operator&= (Enum &lhs, Enum rhs) |
| template<typename Enum > | |
| std::enable_if< EnableBitMaskOperators< Enum >::enable, Enum >::type | operator^= (Enum &lhs, Enum rhs) |
| template<typename Enum > | |
| bool | flag_is_set (const Enum en, const Enum flag) |
| std::ostream & | operator<< (std::ostream &out, const LoggingEvent &e) |
| constexpr uint64_t | generate_bit_mask (const uint8_t num_bits, const uint8_t bit_position) |
| Default types used by the NEST kernel. | |
| constexpr uint64_t | generate_max_value (const uint8_t num_bits) |
| __attribute__ ((__unused__)) const expr size_t invalid_index = invalid_targetindex - 1 | |
| Unsigned long type for enumerations. | |
| template<typename E > | |
| constexpr auto | to_underlying (E e) noexcept |
| Cast enum value to underlying integer type. | |
| template<typename CN > | |
| double | regula_falsi (const CN &node, const double dt) |
| Localize threshold crossing by using Illinois algorithm of regula falsi method. | |
| template<typename T > | |
| size_t | median3_ (const BlockVector< T > &vec, const size_t i, const size_t j, const size_t k) |
| Calculates the median of three elements. | |
| template<typename T1 , typename T2 > | |
| void | insertion_sort (BlockVector< T1 > &vec_sort, BlockVector< T2 > &vec_perm, const size_t lo, const size_t hi) |
| Insertion sort, adapted from Sedgewick & Wayne (2011), Algorithms 4th edition, p251ff. | |
| template<typename T1 , typename T2 > | |
| void | quicksort3way (BlockVector< T1 > &vec_sort, BlockVector< T2 > &vec_perm, const size_t lo, const size_t hi) |
| Quicksort with 3-way partitioning, adapted from Sedgewick & Wayne (2011), Algorithms 4th edition, p296ff (see http://algs4.cs.princeton.edu/23quicksort/QuickX.java.html). | |
| template<typename T1 , typename T2 > | |
| void | sort (BlockVector< T1 > &vec_sort, BlockVector< T2 > &vec_perm) |
| Sorts two vectors according to elements in first vector. | |
| void | register_ac_generator (const std::string &name) |
| void | register_amat2_psc_exp (const std::string &name) |
| void | register_bernoulli_synapse (const std::string &name) |
| void | register_clopath_synapse (const std::string &name) |
| void | register_cm_default (const std::string &name) |
| void | register_cont_delay_synapse (const std::string &name) |
| void | register_correlation_detector (const std::string &name) |
| Correlation detector breaks with the persistence scheme as follows: the internal buffers for storing spikes are part of State_, but are initialized by init_buffers_(). | |
| void | register_correlomatrix_detector (const std::string &name) |
| void | register_correlospinmatrix_detector (const std::string &name) |
| Correlospinmatrix detector breaks with the persistence scheme as follows: the internal buffers for storing spikes are part of State_, but are initialized by init_buffers_(). | |
| void | register_dc_generator (const std::string &name) |
| void | register_diffusion_connection (const std::string &name) |
| void | register_eprop_iaf (const std::string &name) |
| void | register_eprop_iaf_adapt (const std::string &name) |
| void | register_eprop_iaf_adapt_bsshslm_2020 (const std::string &name) |
| void | register_eprop_iaf_bsshslm_2020 (const std::string &name) |
| void | register_eprop_iaf_psc_delta (const std::string &name) |
| void | register_eprop_iaf_psc_delta_adapt (const std::string &name) |
| void | register_eprop_learning_signal_connection (const std::string &name) |
| void | register_eprop_learning_signal_connection_bsshslm_2020 (const std::string &name) |
| void | register_eprop_readout (const std::string &name) |
| void | register_eprop_readout_bsshslm_2020 (const std::string &name) |
| void | register_eprop_synapse (const std::string &name) |
| Register the eprop synapse model. | |
| void | register_eprop_synapse_bsshslm_2020 (const std::string &name) |
| Register the eprop synapse model. | |
| void | register_erfc_neuron (const std::string &name) |
| void | register_gamma_sup_generator (const std::string &name) |
| void | register_gap_junction (const std::string &name) |
| void | register_gauss_rate_ipn (const std::string &name) |
| void | register_rate_transformer_gauss (const std::string &name) |
| void | register_gif_psc_exp (const std::string &name) |
| void | register_gif_psc_exp_multisynapse (const std::string &name) |
| void | register_ginzburg_neuron (const std::string &name) |
| void | register_glif_psc (const std::string &name) |
| void | register_glif_psc_double_alpha (const std::string &name) |
| void | register_ht_synapse (const std::string &name) |
| void | register_iaf_chs_2007 (const std::string &name) |
| void | register_iaf_psc_alpha (const std::string &name) |
| void | register_iaf_psc_alpha_multisynapse (const std::string &name) |
| void | register_iaf_psc_alpha_ps (const std::string &name) |
| void | register_iaf_psc_delta (const std::string &name) |
| The present implementation uses individual variables for the components of the state vector and the non-zero matrix elements of the propagator. | |
| void | register_iaf_psc_delta_ps (const std::string &name) |
| void | register_iaf_psc_exp (const std::string &name) |
| The present implementation uses individual variables for the components of the state vector and the non-zero matrix elements of the propagator. | |
| void | register_iaf_psc_exp_htum (const std::string &name) |
| void | register_iaf_psc_exp_multisynapse (const std::string &name) |
| void | register_iaf_psc_exp_ps (const std::string &name) |
| void | register_iaf_psc_exp_ps_lossless (const std::string &name) |
| void | register_iaf_tum_2000 (const std::string &name) |
| void | register_ignore_and_fire (const std::string &name) |
| void | register_inhomogeneous_poisson_generator (const std::string &name) |
| void | register_izhikevich (const std::string &name) |
| void | register_jonke_synapse (const std::string &name) |
| void | register_lin_rate_ipn (const std::string &name) |
| void | register_lin_rate_opn (const std::string &name) |
| void | register_rate_transformer_lin (const std::string &name) |
| void | register_mat2_psc_exp (const std::string &name) |
| The present implementation uses individual variables for the components of the state vector and the non-zero matrix elements of the propagator. | |
| void | register_mcculloch_pitts_neuron (const std::string &name) |
| void | register_mip_generator (const std::string &name) |
| void | register_models () |
| Function to register all node and connection models that were selected for compilation either by using the cmake switch -Dwith-models=<model;list> or as specified in the modelset given to the option -Dwith-modelset=<modelset> | |
| void | register_multimeter (const std::string &name) |
| void | register_voltmeter (const std::string &name) |
| void | register_noise_generator (const std::string &name) |
| void | register_parrot_neuron (const std::string &name) |
| void | register_parrot_neuron_ps (const std::string &name) |
| void | register_poisson_generator (const std::string &name) |
| void | register_poisson_generator_ps (const std::string &name) |
| void | register_pp_psc_delta (const std::string &name) |
| void | register_ppd_sup_generator (const std::string &name) |
| void | register_pulsepacket_generator (const std::string &name) |
| void | register_quantal_stp_synapse (const std::string &name) |
| void | register_rate_connection_delayed (const std::string &name) |
| Class representing a delayed rate connection. | |
| void | register_rate_connection_instantaneous (const std::string &name) |
| Class representing a rate connection. | |
| void | register_sic_connection (const std::string &name) |
| void | register_sigmoid_rate_ipn (const std::string &name) |
| void | register_rate_transformer_sigmoid (const std::string &name) |
| void | register_sigmoid_rate_gg_1998_ipn (const std::string &name) |
| void | register_rate_transformer_sigmoid_gg_1998 (const std::string &name) |
| void | register_sinusoidal_poisson_generator (const std::string &name) |
| void | register_spike_dilutor (const std::string &name) |
| void | register_spike_generator (const std::string &name) |
| void | register_spike_recorder (const std::string &name) |
| Class spike_recorder. | |
| void | register_spike_train_injector (const std::string &name) |
| Spike train injector node. | |
| void | register_spin_detector (const std::string &name) |
| Spin detector class. | |
| void | register_static_synapse (const std::string &name) |
| void | register_static_synapse_hom_w (const std::string &name) |
| void | register_stdp_dopamine_synapse (const std::string &name) |
| Class representing an stdp_dopamine_synapse with homogeneous parameters, i.e. | |
| void | register_stdp_facetshw_synapse_hom (const std::string &name) |
| void | register_stdp_nn_pre_centered_synapse (const std::string &name) |
| void | register_stdp_nn_restr_synapse (const std::string &name) |
| void | register_stdp_nn_symm_synapse (const std::string &name) |
| void | register_stdp_pl_synapse_hom (const std::string &name) |
| Class representing an STDP connection with homogeneous parameters, i.e. | |
| void | register_stdp_synapse (const std::string &name) |
| void | register_stdp_synapse_hom (const std::string &name) |
| Class representing an STDP connection with homogeneous parameters, i.e. | |
| void | register_stdp_triplet_synapse (const std::string &name) |
| void | register_step_current_generator (const std::string &name) |
| void | register_step_rate_generator (const std::string &name) |
| void | register_tanh_rate_ipn (const std::string &name) |
| void | register_tanh_rate_opn (const std::string &name) |
| void | register_rate_transformer_tanh (const std::string &name) |
| void | register_threshold_lin_rate_ipn (const std::string &name) |
| void | register_threshold_lin_rate_opn (const std::string &name) |
| void | register_rate_transformer_threshold_lin (const std::string &name) |
| void | register_tsodyks2_synapse (const std::string &name) |
| void | register_tsodyks_synapse (const std::string &name) |
| void | register_tsodyks_synapse_hom (const std::string &name) |
| void | register_urbanczik_synapse (const std::string &name) |
| void | register_vogels_sprekeler_synapse (const std::string &name) |
| void | register_volume_transmitter (const std::string &name) |
| void | register_weight_recorder (const std::string &name) |
| static std::deque< ConnectionID > & | extend_connectome (std::deque< ConnectionID > &out, std::deque< ConnectionID > &in) |
| template<int D> | |
| static bool | node_id_less (const std::pair< Position< D >, size_t > &a, const std::pair< Position< D >, size_t > &b) |
| bool | operator< (const histentry_extended &he, double t) |
| bool | operator< (const HistEntryEprop &a, const HistEntryEprop &b) |
| bool | operator< (const HistEntryEprop &e, long t) |
| bool | operator< (long t, const HistEntryEprop &e) |
| KernelManager & | kernel () |
| RngPtr | get_rank_synced_rng () |
| RngPtr | get_vp_synced_rng (size_t tid) |
| RngPtr | get_vp_specific_rng (size_t tid) |
| void | test_link (int, int) |
| void | test_links () |
| AbstractMask * | create_doughnut (const Dictionary &d) |
| void | init_nest (int *argc, char **argv[]) |
| void | shutdown_nest (int exitcode) |
| void | install_module (const std::string &module) |
| void | reset_kernel () |
| void | enable_structural_plasticity () |
| void | disable_structural_plasticity () |
| void | register_logger_client (const deliver_logging_event_ptr client_callback) |
| std::string | print_nodes_to_string () |
| std::string | pprint_to_string (NodeCollectionPTR nc) |
| size_t | nc_size (NodeCollectionPTR nc) |
| void | set_kernel_status (const Dictionary &dict) |
| Dictionary | get_kernel_status () |
| Dictionary | get_nc_status (NodeCollectionPTR nc) |
| void | set_nc_status (NodeCollectionPTR nc, std::vector< Dictionary > ¶ms) |
| void | set_connection_status (const std::deque< ConnectionID > &conns, const Dictionary &dict) |
| void | set_connection_status (const std::deque< ConnectionID > &conns, const std::vector< Dictionary > &dicts) |
| std::vector< Dictionary > | get_connection_status (const std::deque< ConnectionID > &conns) |
| void | set_node_status (const size_t node_id, const Dictionary &dict) |
| Dictionary | get_node_status (const size_t node_id) |
| Dictionary | get_connection_status (const ConnectionID &conn) |
| NodeCollectionPTR | slice_nc (const NodeCollectionPTR nc, long start, long stop, long step) |
| NodeCollectionPTR | create (const std::string &model_name, const size_t n_nodes) |
| NodeCollectionPTR | create_spatial (const Dictionary &layer_dict) |
| NodeCollectionPTR | make_nodecollection (const std::vector< size_t > &node_ids) |
| NodeCollectionPTR | get_nodes (const Dictionary ¶ms, const bool local_only) |
| bool | equal (const NodeCollectionPTR lhs, const NodeCollectionPTR rhs) |
| bool | contains (const NodeCollectionPTR nc, const size_t node_id) |
| long | find (const NodeCollectionPTR nc, size_t node_id) |
| Dictionary | get_metadata (const NodeCollectionPTR nc) |
| void | connect (NodeCollectionPTR sources, NodeCollectionPTR targets, const Dictionary &connectivity, const std::vector< Dictionary > &synapse_params) |
| Create bipartite connections. | |
| void | disconnect (NodeCollectionPTR sources, NodeCollectionPTR targets, const Dictionary &connectivity, const std::vector< Dictionary > &synapse_params) |
| Disconnect nodes. | |
| void | connect_tripartite (NodeCollectionPTR sources, NodeCollectionPTR targets, NodeCollectionPTR third, const Dictionary &connectivity, const Dictionary &third_connectivity, const std::map< std::string, std::vector< Dictionary > > &synapse_specs) |
| Create tripartite connections. | |
| void | connect_arrays (const long *sources, const long *targets, const double *weights, const double *delays, const std::vector< std::string > &p_keys, const double *p_values, size_t n, const std::string &syn_model) |
| Connect arrays of node IDs one-to-one. | |
| void | connect_sonata (const Dictionary &graph_specs, const long hyperslab_size) |
| std::deque< ConnectionID > | get_connections (const Dictionary &dict) |
| void | disconnect (const std::deque< ConnectionID > &conns) |
| void | simulate (const double t) |
| void | run (const double time) |
| void | prepare () |
| do calibrations for network, open files, ... before run() | |
| void | cleanup () |
| do cleanup after a simulation, such as closing files | |
| void | synchronize () |
| Force synchronization of MPI processes. | |
| void | copy_model (const std::string &oldmodname, const std::string &newmodname, const Dictionary &dict) |
| void | set_model_defaults (const std::string &component, const Dictionary &dict) |
| Dictionary | get_model_defaults (const std::string &component) |
| ParameterPTR | create_parameter (const any_type &value) |
| ParameterPTR | create_parameter (const double value) |
| ParameterPTR | create_parameter (const long value) |
| ParameterPTR | create_parameter (const Dictionary ¶m_dict) |
| ParameterPTR | create_parameter (const std::string &name, const Dictionary &d) |
| ParameterFactory & | parameter_factory_ (void) |
| MaskFactory & | mask_factory_ (void) |
| double | get_value (const ParameterPTR param) |
| bool | is_spatial (const ParameterPTR param) |
| std::vector< double > | apply (const ParameterPTR param, const NodeCollectionPTR nc) |
| std::vector< double > | apply (const ParameterPTR param, const Dictionary &positions) |
| NodeCollectionPTR | node_collection_array_index (NodeCollectionPTR nc, const long *array, unsigned long n) |
| NodeCollectionPTR | node_collection_array_index (NodeCollectionPTR nc, const bool *array, unsigned long n) |
| std::vector< size_t > | node_collection_to_array (NodeCollectionPTR node_collection, const std::string &selection) |
| void | message (const VerbosityLevel level, const std::string &function, const std::string &message, const std::string &file, const size_t line) |
| template<template< typename > class ConnectorModelT> | |
| void | register_connection_model (const std::string &name) |
| Register connection model (i.e. | |
| template<typename NodeModelT > | |
| void | register_node_model (const std::string &name, std::string deprecation_info=std::string()) |
| Register node model (i.e. | |
| void | print_nodes_to_stream (std::ostream &out=std::cout) |
| MaskPTR | create_mask (const std::string &name, const Dictionary &d) |
| Create a new Mask object using the mask factory. | |
| template<class T > | |
| bool | register_parameter (const std::string &name) |
| template<class T > | |
| bool | register_mask () |
| bool | register_mask (const std::string &name, MaskCreatorFunction creator) |
| template<class N > | |
| N | time_abs (const N n) |
| Class to handle simulation time and realtime. | |
| template<> | |
| long long | time_abs (long long n) |
| bool | operator== (const Time &t1, const Time &t2) |
| bool | operator!= (const Time &t1, const Time &t2) |
| bool | operator< (const Time &t1, const Time &t2) |
| bool | operator> (const Time &t1, const Time &t2) |
| bool | operator<= (const Time &t1, const Time &t2) |
| bool | operator>= (const Time &t1, const Time &t2) |
| Time | operator+ (const Time &t1, const Time &t2) |
| Time | operator- (const Time &t1, const Time &t2) |
| Time | operator* (const long factor, const Time &t) |
| Time | operator* (const Time &t, long factor) |
| NodeCollectionPTR | operator+ (NodeCollectionPTR lhs, NodeCollectionPTR rhs) |
| std::ostream & | operator<< (std::ostream &out, const NodeCollectionPTR nc) |
| static double | mod (double x, double p) |
| ParameterPTR | multiply_parameter (const ParameterPTR first, const ParameterPTR second) |
| Create the product of one parameter with another. | |
| ParameterPTR | divide_parameter (const ParameterPTR first, const ParameterPTR second) |
| Create the quotient of one parameter with another. | |
| ParameterPTR | add_parameter (const ParameterPTR first, const ParameterPTR second) |
| Create the sum of one parameter with another. | |
| ParameterPTR | subtract_parameter (const ParameterPTR first, const ParameterPTR second) |
| Create the difference between one parameter and another. | |
| ParameterPTR | compare_parameter (const ParameterPTR first, const ParameterPTR second, const Dictionary &d) |
| Create comparison of one parameter with another. | |
| ParameterPTR | conditional_parameter (const ParameterPTR condition, const ParameterPTR if_true, const ParameterPTR if_false) |
| Create a parameter that chooses between two other parameters, based on a given condition parameter. | |
| ParameterPTR | min_parameter (const ParameterPTR parameter, const double other) |
| Create parameter whose value is the minimum of a given parameter's value and the given value. | |
| ParameterPTR | max_parameter (const ParameterPTR parameter, const double other) |
| Create parameter whose value is the maximum of a given parameter's value and the given value. | |
| ParameterPTR | redraw_parameter (const ParameterPTR parameter, const double min, const double max) |
| Create parameter redrawing the value if the value of a parameter is outside the set limits. | |
| ParameterPTR | exp_parameter (const ParameterPTR parameter) |
| Create the exponential of a parameter. | |
| ParameterPTR | sin_parameter (const ParameterPTR parameter) |
| Create the sine of a parameter. | |
| ParameterPTR | cos_parameter (const ParameterPTR parameter) |
| Create the cosine of a parameter. | |
| ParameterPTR | pow_parameter (const ParameterPTR parameter, const double exponent) |
| Create a parameter raised to the power of an exponent. | |
| ParameterPTR | dimension_parameter (const ParameterPTR x_parameter, const ParameterPTR y_parameter) |
| Create a parameter that can generate position vectors from a given set of parameters. | |
| ParameterPTR | dimension_parameter (const ParameterPTR x_parameter, const ParameterPTR y_parameter, const ParameterPTR z_parameter) |
| template<int D, class T > | |
| std::ostream & | operator<< (std::ostream &os, const Position< D, T > &pos) |
| template<typename T > | |
| size_t | number_of_uints_covered () |
| This template function returns the number of uints covered by a variable of type T. | |
| template<typename T > | |
| void | write_to_comm_buffer (T d, std::vector< unsigned int >::iterator &pos) |
| This template function writes data of type T to a given position of a std::vector< unsigned int >. | |
| template<typename T > | |
| void | read_from_comm_buffer (T &d, std::vector< unsigned int >::iterator &pos) |
| This template function reads data of type T from a given position of a std::vector< unsigned int >. | |
| bool | operator< (const Source &lhs, const Source &rhs) |
| bool | operator> (const Source &lhs, const Source &rhs) |
| bool | operator== (const Source &lhs, const Source &rhs) |
| bool | operator== (const SourceTablePosition &lhs, const SourceTablePosition &rhs) |
| bool | operator!= (const SourceTablePosition &lhs, const SourceTablePosition &rhs) |
| bool | operator< (const SourceTablePosition &lhs, const SourceTablePosition &rhs) |
| bool | operator> (const SourceTablePosition &lhs, const SourceTablePosition &rhs) |
| bool | operator<= (const SourceTablePosition &lhs, const SourceTablePosition &rhs) |
| bool | operator>= (const SourceTablePosition &lhs, const SourceTablePosition &rhs) |
| AbstractLayerPTR | get_layer (NodeCollectionPTR nc) |
| NodeCollectionPTR | create_layer (const Dictionary &layer_dict) |
| std::vector< std::vector< double > > | get_position (NodeCollectionPTR layer_nc) |
| std::vector< double > | get_position (const size_t node_id) |
| std::vector< std::vector< double > > | displacement (NodeCollectionPTR layer_to_nc, NodeCollectionPTR layer_from_nc) |
| std::vector< std::vector< double > > | displacement (NodeCollectionPTR layer_nc, const std::vector< std::vector< double > > &point) |
| std::vector< double > | distance (NodeCollectionPTR layer_to_nc, NodeCollectionPTR layer_from_nc) |
| std::vector< double > | distance (NodeCollectionPTR layer_nc, const std::vector< std::vector< double > > &point) |
| std::vector< double > | distance (const std::vector< ConnectionID > &conns) |
| MaskPTR | create_mask (const Dictionary &mask_dict) |
| NodeCollectionPTR | select_nodes_by_mask (const NodeCollectionPTR layer_nc, const std::vector< double > &anchor, const MaskPTR mask) |
| bool | inside (const std::vector< double > &point, const MaskPTR mask) |
| MaskPTR | intersect_mask (const MaskPTR mask1, const MaskPTR mask2) |
| MaskPTR | union_mask (const MaskPTR mask1, const MaskPTR mask2) |
| MaskPTR | minus_mask (const MaskPTR mask1, const MaskPTR mask2) |
| void | connect_layers (NodeCollectionPTR source_nc, NodeCollectionPTR target_nc, const Dictionary &connection_dict) |
| void | dump_layer_nodes (const NodeCollectionPTR layer_nc, const std::string &filename) |
| void | dump_layer_connections (const NodeCollectionPTR source_layer_nc, const NodeCollectionPTR target_layer_nc, const std::string &syn_model, const std::string &filename) |
| Dictionary | get_layer_status (NodeCollectionPTR) |
Variables | |
| constexpr uint8_t | NUM_BITS_RANK = 18U |
| constexpr uint8_t | NUM_BITS_TID = 9U |
| constexpr uint8_t | NUM_BITS_SYN_ID = 9U |
| constexpr uint8_t | NUM_BITS_LCID = 27U |
| constexpr uint8_t | NUM_BITS_PROCESSED_FLAG = 1U |
| constexpr uint8_t | NUM_BITS_MARKER_SPIKE_DATA = 2U |
| constexpr uint8_t | NUM_BITS_FLUSH_EVENT = 1U |
| constexpr uint8_t | NUM_BITS_LAG = 14U |
| constexpr uint8_t | NUM_BITS_DELAY = 21U |
| constexpr uint8_t | NUM_BITS_NODE_ID = 61U |
| constexpr uint64_t | MAX_LCID = generate_max_value( NUM_BITS_LCID ) |
| constexpr int64_t | MAX_RANK = generate_max_value( NUM_BITS_RANK ) |
| constexpr int64_t | MAX_TID = generate_max_value( NUM_BITS_TID ) |
| constexpr uint64_t | MAX_SYN_ID = generate_max_value( NUM_BITS_SYN_ID ) |
| constexpr uint64_t | DISABLED_NODE_ID = generate_max_value( NUM_BITS_NODE_ID ) |
| constexpr uint64_t | MAX_NODE_ID = DISABLED_NODE_ID - 1 |
| constexpr tic_t | tic_t_max = std::numeric_limits< tic_t >::max() |
| constexpr tic_t | tic_t_min = std::numeric_limits< tic_t >::min() |
| constexpr synindex | invalid_synindex = MAX_SYN_ID |
| constexpr targetindex | invalid_targetindex = USHRT_MAX |
| constexpr size_t | invalid_lcid = MAX_LCID |
| Marker for invalid LCID values. | |
| constexpr size_t | invalid_thread = std::numeric_limits< size_t >::max() |
| Value for invalid connection thread id. | |
| constexpr size_t | invalid_port = std::numeric_limits< size_t >::max() |
| Value for invalid connection port number. | |
| constexpr long | delay_min = std::numeric_limits< long >::min() |
| Values for min and max delay. | |
| constexpr long | delay_max = std::numeric_limits< long >::max() |
| static const long | UNLABELED_CONNECTION = -1 |
| Connections are unlabeled by default. | |
| const Time | TimeZero |
| const struct nest::PrimitiveSortOp | primitive_sort_op |
| constexpr bool | use_detailed_timers = false |
| constexpr bool | use_threaded_timers = false |
Namespace for the NEST simulation kernel.
Contact point element for dynamic synapse creation and deletion.
Part of definition of volume_transmitter to record and manage spike times and multiplicity of neurons releasing a neuromodulator, which is needed for neuromodulated synaptic plasticity (volume transmitter and neuromodulated synapses are not included in the release version of NEST at the moment).
Implementation of volume_transmitter to record and manage spike times and multiplicity of neurons releasing a neuromodulator (volume_transmitter is not included in the current release version of NEST)
Interface for NEST Extenstion Modules.
General deprecation warning class for models with deprecated parameters.
Base class for parameters provided to connection routines.
Class managing flexible connection creation.
Created based on the connection_creator used for spatial networks.
Principles for these parameters are
General class for handling deprecations. The deprecation warning will only be issued the first time the deprecated parameter is updated.
In function updating the deprecated parameter put node->deprecation_warning.deprecation_warning(deprecated_parameter); or node->deprecation_warning.deprecation_warning(deprecated_parameter, new_parameter);
All NEST Extension Modules must be derived from this interface class.
Method init() will be called after the module is loaded.
The constructor should be empty.
This class represents synaptic element of a node (like Axonl boutons or dendritic spines) used for structural plasticity. The synaptic elements represent connection points between two neurons. They grow according to a homeostatic growth rule. The dynamics of the number of synaptic elements is driven by the average electrical activity of the neuron (indirectly measured through the Calcium concentration of the node). The probability of two neurons creating a new synapse between them, depends on the number of available synaptic elements of each neuron.
| z | Current number of synaptic elements. Stored as a double variable but the actual usable number of synaptic elements is an integer truncated from this double value. A standard value for the growth of a synaptic element is around 0.0001 elements/ms. |
| continuous | Defines if the number of synaptic elements should be treated as a continuous double number or as an integer value. Default is false. |
| growth_rate | The maximum amount by which the synaptic elements will change between time steps. In elements/ms. |
| tau_vacant | Rate at which vacant synaptic elements will decay. Typical is 0.1 which represents a loss of 10% of the vacant synaptic elements each time the structural_plasticity_update_interval is reached by the simulation time. |
| growth_curve | Rule which defines the dynamics of this synaptic element. |
[1] Butz, Markus, Florentin Wörgötter, and Arjen van Ooyen. "Activity-dependent structural plasticity." Brain research reviews 60.2 (2009): 287-305. [2] Butz, Markus, and Arjen van Ooyen. "A simple rule for dendritic spine and axonal bouton formation can account for cortical reorganization after focal retinal lesions." PLoS Comput Biol 9.10 (2013): e1003259.
| typedef std::shared_ptr< AbstractLayer > nest::AbstractLayerPTR |
| using nest::binomial_distribution = typedef RandomDistribution< std::binomial_distribution< unsigned long > > |
| typedef void(* nest::deliver_logging_event_ptr) (const LoggingEvent &e) |
| using nest::discrete_distribution = typedef RandomDistribution< std::discrete_distribution< unsigned long > > |
| typedef binary_neuron< gainfunction_erfc > nest::erfc_neuron |
| using nest::exponential_distribution = typedef RandomDistribution< std::exponential_distribution<> > |
| using nest::gamma_distribution = typedef RandomDistribution< std::gamma_distribution<> > |
| using nest::lognormal_distribution = typedef RandomDistribution< std::lognormal_distribution<> > |
| using nest::MaskCreatorFunction = typedef MaskFactory::CreatorFunction |
| using nest::MaskFactory = typedef GenericFactory< AbstractMask > |
| using nest::MaskPTR = typedef std::shared_ptr< AbstractMask > |
| using nest::NodeCollectionMetadataPTR = typedef std::shared_ptr< NodeCollectionMetadata > |
| using nest::NodeCollectionPTR = typedef std::shared_ptr< NodeCollection > |
| using nest::normal_distribution = typedef RandomDistribution< std::normal_distribution<> > |
| using nest::ParameterFactory = typedef GenericFactory< Parameter > |
| using nest::ParameterPTR = typedef std::shared_ptr< Parameter > |
| using nest::poisson_distribution = typedef RandomDistribution< std::poisson_distribution< unsigned long > > |
| typedef rate_transformer_node< nonlinearities_sigmoid_rate_gg_1998 > nest::rate_transformer_sigmoid_gg_1998 |
| typedef rate_transformer_node< nonlinearities_threshold_lin_rate > nest::rate_transformer_threshold_lin |
| using nest::RngPtr = typedef BaseRandomGenerator* |
| using nest::success_csdmapentry_size = typedef StaticAssert< sizeof( CSDMapEntry ) == 8 >::success |
check legal size
| using nest::success_offgrid_spike_data_size = typedef StaticAssert< sizeof( OffGridSpikeData ) == 16 >::success |
check legal size
| using nest::success_secondary_target_data_fields_size = typedef StaticAssert< sizeof( SecondaryTargetDataFields ) == 8 >::success |
check legal size
| using nest::success_spike_data_size = typedef StaticAssert< sizeof( SpikeData ) == 8 >::success |
check legal size
| using nest::success_syn_id_delay_data_size = typedef StaticAssert< sizeof( SynIdDelay ) == 4 >::success |
check legal size
| using nest::success_target_data_fields_size = typedef StaticAssert< sizeof( TargetDataFields ) == 8 >::success |
check legal size
| using nest::success_target_data_size = typedef StaticAssert< sizeof( TargetData ) == 12 >::success |
check legal size
| using nest::success_target_size = typedef StaticAssert< sizeof( Target ) == 8 >::success |
| typedef size_t nest::synindex |
For enumerations of synapse types.
| typedef unsigned short nest::targetindex |
Unsigned short type for compact target representation.
See Kunkel et al, Front Neuroinform 8:78 (2014). target index into thread local node vector
| typedef long long nest::tic_t |
Type for Time tics.
| using nest::uniform_int_distribution = typedef RandomDistribution< std::uniform_int_distribution< unsigned long > > |
| using nest::uniform_real_distribution = typedef RandomDistribution< std::uniform_real_distribution<> > |
|
strong |
Mark spike transmission status in SpikeData entries.
Below,
local_max_spikes_per_rank is the largest number of spikes a given rank needs to transmit to any other rank.global_max_spikes_per_rank is the maximum of all local_max_spikes_per_rank values. It determines theSpikeData marker values are defined as follows: have
DEFAULT: Normal entry, cannot occur in endposEND: Marks last entry containing data.local_max_spikes_per_rank of the sending rank is equal to the current buffer sizelocal_max_spikes_per_rank of the corresponding sending rank.INVALID:
local_max_spikes_per_rank of the corresponding sending rank.COMPLETE or END, transmission is completeINVALID, not all spikes could be sent, repeat with increased chunk sizeDEFAULT, something is seriously wrongEND, the required chunk size is equal to current chunk size (and LCID field contains LCID for spike in endpos)COMPLETE or INVALID, the required chunk size is given by the valued stored in the LCID field of endpos | Enumerator | |
|---|---|
| SPIKE_DATA_ID_DEFAULT | |
| SPIKE_DATA_ID_END | |
| SPIKE_DATA_ID_COMPLETE | |
| SPIKE_DATA_ID_INVALID | |
This class implements a 64-bit target neuron identifier type.
It uniquely identifies a target neuron on a (remote) machine. Used in TargetTable for the presynaptic part of the connection infrastructure.
The bitwise layout of the neuron identifier for the "standard" CMAKE option:
+-----— processed flag | +-— synapse-type id (syn_id) | | ||-------—||–thread–||------—rank-------—||-—local connection id (lcid)-—| 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 | | | | | | | | | | | | | | | | 63 56 55 48 47 40 39 32 31 24 23 16 15 8 7 0
The bitwise layout of the neuron identifier for the "hpc" CMAKE option:
+-----— processed flag | +-— synapse-type id (syn_id) | | ||--—||—thread-—||------—rank---------—||-—local connection id (lcid)-—| 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 0000 | | | | | | | | | | | | | | | | 63 56 55 48 47 40 39 32 31 24 23 16 15 8 7 0
Other custom layouts can be chosen by providing a list of 5 numbers, representing the bits required for rank, thread, synapse id, local connection id and processed flag, respectively. The number of bits needs to sum to 64. The processed flag must always use one bit.
| Enumerator | |
|---|---|
| TARGET_ID_PROCESSED | |
| TARGET_ID_UNPROCESSED | |
| enum nest::SignalType |
enum type of signal conveyed by spike events of a node.
These types are used upon connect to check if spikes sent by one neuron are interpreted the same way by receiving neuron.
Each possible signal that may be represented (currently SPIKE and BINARY) is interpreted as a separate bit flag. This way, upon connection, we determine by a bitwise AND operation if sender and receiver are compatible. The check takes place in connection::check_connection().
A device, such as the spike-generator or spike_recorder, that can in a meaningful way be connected to either neuron model can use the wildcard ALL, that will match any connection partner.
| Enumerator | |
|---|---|
| NONE | |
| SPIKE | |
| BINARY | |
| ALL | |
|
strong |
|
strong |
|
strong |
| nest::__attribute__ | ( | (__unused__) | ) | const = invalid_targetindex - 1 |
Unsigned long type for enumerations.
| ParameterPTR nest::add_parameter | ( | const ParameterPTR | first, |
| const ParameterPTR | second | ||
| ) |
Create the sum of one parameter with another.
| std::vector< double > nest::apply | ( | const ParameterPTR | param, |
| const Dictionary & | positions | ||
| ) |
References nest::names::source(), and nest::names::targets().
| std::vector< double > nest::apply | ( | const ParameterPTR | param, |
| const NodeCollectionPTR | nc | ||
| ) |
References nest::NodeManager::get_node_or_proxy(), get_rank_synced_rng(), kernel(), and nest::KernelManager::node_manager.
|
inline |
Computes the normalization constant for the beta function.
| tau_rise | Synaptic rise time constant, in ms |
| tau_decay | Synaptic decay time constant, in ms |
Calculates the factor used to normalize the synaptic conductance such that incoming spike causes a peak conductance of 1 nS.
The solution to the beta function ODE obtained by the solver is
g(t) = c / ( a - b ) * ( e^(-b t) - e^(-a t) )
with a = 1/tau_rise, b = 1/tau_decay, a != b. The maximum of this function is at
t* = 1/(a-b) ln a/b
We want to scale the function so that
max g == g(t*) == g_peak
We thus need to set
c = g_peak * ( a - b ) / ( e^(-b t*) - e^(-a t*) )
See Rotter & Diesmann, Biol Cybern 81:381 (1999) and Roth and van Rossum, Ch 6, in De Schutter, Computational Modeling Methods for Neuroscientists, MIT Press, 2010.
The denominator, tau_difference, that appears in the expression of the peak time is computed here to check that it is not zero. Another denominator, peak_value, appears in the expression of the normalization factor. Both tau_difference and peak_value are zero if tau_decay = tau_rise. But they can also be zero if tau_decay and tau_rise are not equal but very close to each other, due to the numerical precision limits. In such case the beta function reduces to the alpha function, and the normalization factor for the alpha function should be used.
References numerics::e.
| void nest::cleanup | ( | ) |
do cleanup after a simulation, such as closing files
Do cleanup to end a simulation using run() commands. After calling cleanup(), further run() calls must only happen after another call to prepare()
References nest::KernelManager::cleanup(), and kernel().
Referenced by simulate().
| ParameterPTR nest::compare_parameter | ( | const ParameterPTR | first, |
| const ParameterPTR | second, | ||
| const Dictionary & | d | ||
| ) |
Create comparison of one parameter with another.
| ParameterPTR nest::conditional_parameter | ( | const ParameterPTR | condition, |
| const ParameterPTR | if_true, | ||
| const ParameterPTR | if_false | ||
| ) |
Create a parameter that chooses between two other parameters, based on a given condition parameter.
The resulting value of the condition parameter is treated as a bool, meaning that a zero value evaluates as false, and all other values evaluate as true.
| void nest::connect | ( | NodeCollectionPTR | sources, |
| NodeCollectionPTR | targets, | ||
| const Dictionary & | connectivity, | ||
| const std::vector< Dictionary > & | synapse_params | ||
| ) |
Create bipartite connections.
References nest::ConnectionManager::connect(), nest::KernelManager::connection_manager, and kernel().
| void nest::connect_arrays | ( | const long * | sources, |
| const long * | targets, | ||
| const double * | weights, | ||
| const double * | delays, | ||
| const std::vector< std::string > & | p_keys, | ||
| const double * | p_values, | ||
| size_t | n, | ||
| const std::string & | syn_model | ||
| ) |
Connect arrays of node IDs one-to-one.
Connects an array of sources to an array of targets, with weights and delays from specified arrays, using the one-to-one rule. Additional synapse parameters can be specified with p_keys and p_values. Sources, targets, weights, delays, and receptor types are given as pointers to the first element. All arrays must have the same length, n. Weights, delays, and receptor types can be unspecified by passing a nullptr.
The p_keys vector contains keys of additional synapse parameters, with associated values in the flat array p_values. If there are n sources and targets, and M additional synapse parameters, p_keys has a size of M, and the p_values array has length of M*n.
References nest::ConnectionManager::connect_arrays(), nest::KernelManager::connection_manager, and kernel().
| void nest::connect_layers | ( | NodeCollectionPTR | source_nc, |
| NodeCollectionPTR | target_nc, | ||
| const Dictionary & | connection_dict | ||
| ) |
References Dictionary::all_entries_accessed(), nest::KernelManager::connection_manager, get_layer(), Dictionary::init_access_flags(), kernel(), nest::KernelManager::node_manager, nest::ConnectionManager::set_connections_have_changed(), nest::Stopwatch< detailed_timer, threaded_timer >::start(), nest::Stopwatch< detailed_timer, threaded_timer >::stop(), nest::ConnectionManager::sw_construction_connect, and nest::NodeManager::update_thread_local_node_data().
| void nest::connect_sonata | ( | const Dictionary & | graph_specs, |
| const long | hyperslab_size | ||
| ) |
References nest::ConnectionManager::connect_sonata(), nest::KernelManager::connection_manager, and kernel().
| void nest::connect_tripartite | ( | NodeCollectionPTR | sources, |
| NodeCollectionPTR | targets, | ||
| NodeCollectionPTR | third, | ||
| const Dictionary & | connectivity, | ||
| const Dictionary & | third_connectivity, | ||
| const std::map< std::string, std::vector< Dictionary > > & | synapse_specs | ||
| ) |
Create tripartite connections.
synapse_specs is dictionary {"primary": <syn_spec>, "third_in": <syn_spec>, "third_out": <syn_spec>}; all entries are optional. References nest::ConnectionManager::connect_tripartite(), nest::KernelManager::connection_manager, and kernel().
| bool nest::contains | ( | const NodeCollectionPTR | nc, |
| const size_t | node_id | ||
| ) |
| void nest::copy_model | ( | const std::string & | oldmodname, |
| const std::string & | newmodname, | ||
| const Dictionary & | dict | ||
| ) |
References nest::ModelManager::copy_model(), kernel(), and nest::KernelManager::model_manager.
| ParameterPTR nest::cos_parameter | ( | const ParameterPTR | parameter | ) |
Create the cosine of a parameter.
| NodeCollectionPTR nest::create | ( | const std::string & | model_name, |
| const size_t | n_nodes | ||
| ) |
References nest::NodeManager::add_node(), nest::ModelManager::get_node_model_id(), kernel(), nest::KernelManager::model_manager, and nest::KernelManager::node_manager.
Referenced by create_mask(), and create_parameter().
| AbstractMask * nest::create_doughnut | ( | const Dictionary & | d | ) |
References nest::names::anchor(), nest::names::inner_radius(), and nest::names::outer_radius().
Referenced by init_nest().
| NodeCollectionPTR nest::create_layer | ( | const Dictionary & | layer_dict | ) |
References Dictionary::all_entries_accessed(), nest::AbstractLayer::create_layer(), and Dictionary::init_access_flags().
Referenced by create_spatial().
| MaskPTR nest::create_mask | ( | const Dictionary & | mask_dict | ) |
References Dictionary::all_entries_accessed(), nest::names::anchor(), create_mask(), Dictionary::get(), Dictionary::init_access_flags(), and nest::GridMask< D >::set_anchor().
|
inline |
Create a new Mask object using the mask factory.
| name | Mask type to create. |
| d | Dictionary with parameters specific for this mask type. |
References create(), and mask_factory_().
Referenced by nest::ConnectionCreator::ConnectionCreator(), and create_mask().
| ParameterPTR nest::create_parameter | ( | const any_type & | value | ) |
References create_parameter(), and get_typename().
Referenced by nest::ConnectionCreator::ConnectionCreator(), create_parameter(), create_parameter(), and nest::ConnectionCreator::extract_params_().
| ParameterPTR nest::create_parameter | ( | const Dictionary & | param_dict | ) |
References Dictionary::all_entries_accessed(), Dictionary::begin(), create_parameter(), Dictionary::get(), Dictionary::init_access_flags(), and Dictionary::size().
| ParameterPTR nest::create_parameter | ( | const double | value | ) |
| ParameterPTR nest::create_parameter | ( | const long | value | ) |
| ParameterPTR nest::create_parameter | ( | const std::string & | name, |
| const Dictionary & | d | ||
| ) |
| NodeCollectionPTR nest::create_spatial | ( | const Dictionary & | layer_dict | ) |
| ParameterPTR nest::dimension_parameter | ( | const ParameterPTR | x_parameter, |
| const ParameterPTR | y_parameter | ||
| ) |
Create a parameter that can generate position vectors from a given set of parameters.
| ParameterPTR nest::dimension_parameter | ( | const ParameterPTR | x_parameter, |
| const ParameterPTR | y_parameter, | ||
| const ParameterPTR | z_parameter | ||
| ) |
| void nest::disable_structural_plasticity | ( | ) |
References nest::SPManager::disable_structural_plasticity(), kernel(), and nest::KernelManager::sp_manager.
| void nest::disconnect | ( | const std::deque< ConnectionID > & | conns | ) |
References nest::SPManager::disconnect(), nest::NodeManager::get_node_or_proxy(), kernel(), nest::KernelManager::node_manager, nest::KernelManager::sp_manager, and nest::NodeManager::update_thread_local_node_data().
| void nest::disconnect | ( | NodeCollectionPTR | sources, |
| NodeCollectionPTR | targets, | ||
| const Dictionary & | connectivity, | ||
| const std::vector< Dictionary > & | synapse_params | ||
| ) |
Disconnect nodes.
| connectivity | Must be one-to-one or all-to-all. |
| synapse_params | Can contain only a synapse model to limit disconnection to that model. Must be vector of length 1, but is still passed as vector for compatibility with ConnBuilder constructor. |
References nest::SPManager::disconnect(), kernel(), and nest::KernelManager::sp_manager.
| std::vector< std::vector< double > > nest::displacement | ( | NodeCollectionPTR | layer_nc, |
| const std::vector< std::vector< double > > & | point | ||
| ) |
References get_layer(), nest::NodeManager::is_local_node_id(), kernel(), and nest::KernelManager::node_manager.
| std::vector< std::vector< double > > nest::displacement | ( | NodeCollectionPTR | layer_to_nc, |
| NodeCollectionPTR | layer_from_nc | ||
| ) |
References get_layer(), get_position(), nest::NodeManager::is_local_node_id(), kernel(), and nest::KernelManager::node_manager.
Referenced by nest::Layer< D >::compute_displacement(), and nest::Layer< D >::compute_distance().
| std::vector< double > nest::distance | ( | const std::vector< ConnectionID > & | conns | ) |
References get_layer(), get_position(), kernel(), nest::NodeManager::node_id_to_node_collection(), and nest::KernelManager::node_manager.
| std::vector< double > nest::distance | ( | NodeCollectionPTR | layer_nc, |
| const std::vector< std::vector< double > > & | point | ||
| ) |
References get_layer(), nest::NodeManager::is_local_node_id(), kernel(), and nest::KernelManager::node_manager.
| std::vector< double > nest::distance | ( | NodeCollectionPTR | layer_to_nc, |
| NodeCollectionPTR | layer_from_nc | ||
| ) |
References get_layer(), get_position(), nest::NodeManager::is_local_node_id(), kernel(), and nest::KernelManager::node_manager.
| ParameterPTR nest::divide_parameter | ( | const ParameterPTR | first, |
| const ParameterPTR | second | ||
| ) |
Create the quotient of one parameter with another.
| void nest::dump_layer_connections | ( | const NodeCollectionPTR | source_layer_nc, |
| const NodeCollectionPTR | target_layer_nc, | ||
| const std::string & | syn_model, | ||
| const std::string & | filename | ||
| ) |
| void nest::dump_layer_nodes | ( | const NodeCollectionPTR | layer_nc, |
| const std::string & | filename | ||
| ) |
| void nest::enable_structural_plasticity | ( | ) |
References nest::SPManager::enable_structural_plasticity(), kernel(), and nest::KernelManager::sp_manager.
| bool nest::equal | ( | const NodeCollectionPTR | lhs, |
| const NodeCollectionPTR | rhs | ||
| ) |
| ParameterPTR nest::exp_parameter | ( | const ParameterPTR | parameter | ) |
Create the exponential of a parameter.
|
inlinestatic |
Referenced by nest::ConnectionManager::get_connections().
| long nest::find | ( | const NodeCollectionPTR | nc, |
| size_t | node_id | ||
| ) |
Referenced by nest::DynamicRecordablesMap< HostNode >::erase(), nest::SourceTable::fill_compressed_spike_data(), nest::cm_default::init_recordables_pointers_(), nest::RecordingBackendScreen::write(), and nest::RecordingBackendSIONlib::write().
| bool nest::flag_is_set | ( | const Enum | en, |
| const Enum | flag | ||
| ) |
|
constexpr |
Default types used by the NEST kernel.
These typedefs should be used in place of the primitive C/C++ types. Thus, it will be easy to change the precision of the kernel or to adapt the kernel to different architectures (e.g. 32 or 64 bit).
|
constexpr |
| Dictionary nest::get_connection_status | ( | const ConnectionID & | conn | ) |
References nest::KernelManager::connection_manager, nest::ConnectionID::get_port(), nest::ConnectionID::get_source_node_id(), nest::ConnectionID::get_synapse_model_id(), nest::ConnectionManager::get_synapse_status(), nest::ConnectionID::get_target_node_id(), nest::ConnectionID::get_target_thread(), and kernel().
| std::vector< Dictionary > nest::get_connection_status | ( | const std::deque< ConnectionID > & | conns | ) |
References nest::KernelManager::connection_manager, nest::ConnectionManager::get_synapse_status(), and kernel().
| std::deque< ConnectionID > nest::get_connections | ( | const Dictionary & | dict | ) |
References Dictionary::all_entries_accessed(), nest::KernelManager::connection_manager, nest::ConnectionManager::get_connections(), Dictionary::init_access_flags(), and kernel().
| Dictionary nest::get_kernel_status | ( | ) |
References nest::KernelManager::get_status(), and kernel().
| AbstractLayerPTR nest::get_layer | ( | NodeCollectionPTR | nc | ) |
References nest::LayerMetadata::get_layer().
Referenced by connect_layers(), nest::AbstractLayer::create_layer(), displacement(), displacement(), distance(), distance(), distance(), dump_layer_connections(), dump_layer_nodes(), get_position(), get_position(), and select_nodes_by_mask().
| Dictionary nest::get_layer_status | ( | NodeCollectionPTR | ) |
| Dictionary nest::get_metadata | ( | const NodeCollectionPTR | nc | ) |
References nest::names::network_size().
Referenced by nest::Layer< D >::~Layer().
| Dictionary nest::get_model_defaults | ( | const std::string & | component | ) |
References nest::ModelManager::get_connector_defaults(), nest::ModelManager::get_node_model(), nest::ModelManager::get_node_model_id(), nest::IOManager::get_recording_backend_status(), nest::Model::get_status(), nest::ModelManager::get_synapse_model_id(), nest::KernelManager::io_manager, kernel(), and nest::KernelManager::model_manager.
| Dictionary nest::get_nc_status | ( | NodeCollectionPTR | nc | ) |
References Dictionary::end(), Dictionary::find(), get_node_status(), get_typename(), and Dictionary::size().
| Dictionary nest::get_node_status | ( | const size_t | node_id | ) |
References nest::NodeManager::get_status(), kernel(), and nest::KernelManager::node_manager.
Referenced by get_nc_status().
| NodeCollectionPTR nest::get_nodes | ( | const Dictionary & | params, |
| const bool | local_only | ||
| ) |
References nest::NodeManager::get_nodes(), kernel(), and nest::KernelManager::node_manager.
| std::vector< double > nest::get_position | ( | const size_t | node_id | ) |
References get_layer(), kernel(), nest::NodeManager::node_id_to_node_collection(), and nest::KernelManager::node_manager.
| std::vector< std::vector< double > > nest::get_position | ( | NodeCollectionPTR | layer_nc | ) |
References get_layer(), nest::NodeManager::is_local_node_id(), kernel(), and nest::KernelManager::node_manager.
Referenced by nest::FreeLayer< D >::communicate_positions_(), nest::Layer< D >::compute_displacement(), displacement(), distance(), distance(), nest::Layer< D >::dump_nodes(), and nest::Layer< D >::get_position_vector().
|
inline |
References nest::RandomManager::get_rank_synced_rng(), kernel(), and nest::KernelManager::random_manager.
Referenced by nest::Parameter::apply(), apply(), nest::FixedOutDegreeBuilder::connect_(), nest::FixedTotalNumberBuilder::connect_(), nest::SPManager::create_synapses(), nest::SPManager::delete_synapses_from_post(), nest::SPManager::delete_synapses_from_pre(), nest::ConnectionCreator::fixed_outdegree_(), get_value(), and nest::FreeLayer< D >::set_status().
| double nest::get_value | ( | const ParameterPTR | param | ) |
|
inline |
References nest::RandomManager::get_vp_specific_rng(), kernel(), and nest::KernelManager::random_manager.
Referenced by nest::OneToOneBuilder::connect_(), nest::AllToAllBuilder::connect_(), nest::FixedInDegreeBuilder::connect_(), nest::FixedOutDegreeBuilder::connect_(), nest::FixedTotalNumberBuilder::connect_(), nest::BernoulliBuilder::connect_(), nest::PoissonBuilder::connect_(), nest::SPBuilder::connect_(), nest::ConnectionCreator::connect_to_target_(), nest::ConnectionCreator::connect_to_target_poisson_(), nest::gamma_sup_generator::event_hook(), nest::inhomogeneous_poisson_generator::event_hook(), nest::mip_generator::event_hook(), nest::poisson_generator::event_hook(), nest::poisson_generator_ps::event_hook(), nest::ppd_sup_generator::event_hook(), nest::sinusoidal_poisson_generator::event_hook(), nest::spike_dilutor::event_hook(), nest::ConnectionCreator::fixed_indegree_(), nest::rate_neuron_ipn< TNonlinearities >::init_buffers_(), nest::rate_neuron_opn< TNonlinearities >::init_buffers_(), nest::binary_neuron< TGainfunction >::pre_run_hook(), nest::gif_psc_exp::pre_run_hook(), nest::gif_psc_exp_multisynapse::pre_run_hook(), nest::iaf_psc_exp::pre_run_hook(), nest::iaf_tum_2000::pre_run_hook(), nest::pp_psc_delta::pre_run_hook(), nest::bernoulli_synapse< targetidentifierT >::send(), nest::quantal_stp_synapse< targetidentifierT >::send(), nest::OneToOneBuilder::sp_connect_(), nest::AllToAllBuilder::sp_connect_(), nest::ThirdBernoulliWithPoolBuilder::third_connect(), nest::noise_generator::update(), nest::pulsepacket_generator::update(), nest::sinusoidal_poisson_generator::update(), nest::rate_neuron_ipn< TNonlinearities >::update_(), nest::rate_neuron_opn< TNonlinearities >::update_(), and update_value_param().
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inline |
References nest::RandomManager::get_vp_synced_rng(), kernel(), and nest::KernelManager::random_manager.
Referenced by nest::SymmetricBernoulliBuilder::connect_(), and nest::mip_generator::update().
| void nest::init_nest | ( | int * | argc, |
| char ** | argv[] | ||
| ) |
References create_doughnut(), nest::KernelManager::create_kernel_manager(), nest::MPIManager::init_mpi(), nest::KernelManager::initialize(), kernel(), nest::KernelManager::mpi_manager, and register_mask().
| void nest::insertion_sort | ( | BlockVector< T1 > & | vec_sort, |
| BlockVector< T2 > & | vec_perm, | ||
| const size_t | lo, | ||
| const size_t | hi | ||
| ) |
Insertion sort, adapted from Sedgewick & Wayne (2011), Algorithms 4th edition, p251ff.
Sorts the two vectors vec_sort and vec_perm, by sorting the entries in vec_sort and applying the same exchanges to vec_perm.
Referenced by quicksort3way().
| bool nest::inside | ( | const std::vector< double > & | point, |
| const MaskPTR | mask | ||
| ) |
Referenced by nest::BallMask< D >::inside(), nest::EllipseMask< D >::inside(), nest::BallMask< D >::inside(), nest::EllipseMask< D >::inside(), nest::BoxMask< D >::inside(), and nest::Mask< D >::inside().
| void nest::install_module | ( | const std::string & | module | ) |
References nest::ModuleManager::install(), kernel(), and nest::KernelManager::module_manager.
| bool nest::is_spatial | ( | const ParameterPTR | param | ) |
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inline |
References nest::KernelManager::get_kernel_manager().
Referenced by nest::GenericConnectorModel< ConnectionT >::add_connection(), nest::TargetTableDevices::add_connection_from_device(), nest::TargetTableDevices::add_connection_to_device(), nest::NodeManager::add_devices_(), nest::BufferResizeLog::add_entry(), nest::SparseNodeArray::add_local_node(), nest::NodeManager::add_music_nodes_(), nest::NodeManager::add_neurons_(), nest::NodeManager::add_node(), nest::SliceRingBuffer::add_spike(), nest::DataSecondaryEvent< DataType, Subclass >::add_syn_id(), nest::TargetTable::add_target(), nest::nc_const_iterator::advance_local_iter_to_new_part_(), nest::SimulationManager::advance_time_(), dictionary_::all_entries_accessed(), nest::PerThreadBoolIndicator::all_false(), nest::PerThreadBoolIndicator::all_true(), nest::PerThreadBoolIndicator::any_false(), nest::PerThreadBoolIndicator::any_true(), apply(), nest::NodeCollectionPrimitive::assert_consistent_model_ids_(), nest::DelayChecker::assert_two_valid_delays_steps(), nest::DelayChecker::assert_valid_delay_ms(), nest::inhomogeneous_poisson_generator::Parameters_::assert_valid_rate_time_and_insert(), nest::BipartiteConnBuilder::BipartiteConnBuilder(), nest::RecordingBackendSIONlib::build_filename_(), nest::ConnectionManager::calibrate(), nest::ModelManager::calibrate(), nest::SimulationManager::call_update_(), nest::BipartiteConnBuilder::change_connected_synaptic_elements(), nest::KernelManager::change_number_of_threads(), nest::RandomManager::check_rng_synchrony(), nest::ConnectionManager::check_secondary_connections_exist(), nest::stdp_dopamine_synapse< targetidentifierT >::check_synapse_params(), nest::NodeManager::check_wfr_use(), cleanup(), nest::RecordingBackendMPI::cleanup(), nest::SimulationManager::cleanup(), nest::StimulationBackendMPI::cleanup(), nest::RecordingBackendSIONlib::close_files_(), nest::ConnectionManager::collect_compressed_spike_data(), nest::SourceTable::collect_compressible_sources(), nest::EventDeliveryManager::collocate_target_data_buffers_(), nest::EventDeliveryManager::collocate_target_data_buffers_compressed_(), nest::FreeLayer< D >::communicate_positions_(), nest::ModelManager::compare_model_by_id_(), nest::SourceTable::compute_buffer_pos_for_unique_secondary_sources(), nest::ConnectionManager::compute_compressed_secondary_recv_buffer_positions(), nest::RecordingBackendASCII::DeviceData::compute_filename_(), nest::eprop_iaf_adapt_bsshslm_2020::compute_gradient(), nest::eprop_iaf_bsshslm_2020::compute_gradient(), nest::eprop_readout_bsshslm_2020::compute_gradient(), nest::ConnectionManager::compute_target_data_buffer_size(), nest::RecordingBackendASCII::compute_vp_node_id_string_(), nest::EventDeliveryManager::configure_secondary_buffers(), nest::EventDeliveryManager::configure_spike_data_buffers(), nest::EventDeliveryManager::configure_spike_register(), nest::BipartiteConnBuilder::connect(), nest::ConnectionManager::connect(), nest::ConnectionManager::connect(), nest::ConnectionManager::connect(), connect(), nest::ThirdInBuilder::connect_(), nest::OneToOneBuilder::connect_(), nest::AllToAllBuilder::connect_(), nest::FixedInDegreeBuilder::connect_(), nest::FixedOutDegreeBuilder::connect_(), nest::FixedTotalNumberBuilder::connect_(), nest::BernoulliBuilder::connect_(), nest::PoissonBuilder::connect_(), nest::SymmetricBernoulliBuilder::connect_(), nest::SPBuilder::connect_(), nest::ConnectionManager::connect_(), nest::ConnectionManager::connect_arrays(), connect_arrays(), connect_layers(), nest::ConnectionManager::connect_sonata(), connect_sonata(), nest::ConnectionCreator::connect_to_target_(), nest::ConnectionCreator::connect_to_target_poisson_(), nest::ConnectionManager::connect_tripartite(), connect_tripartite(), nest::ConnectionManager::connection_required(), nest::ConnectionCreator::ConnectionCreator(), nest::ModelManager::copy_connection_model_(), copy_model(), nest::ModelManager::copy_node_model_(), create(), nest::NodeCollection::create_(), nest::AbstractLayer::create_layer(), nest::SPManager::delete_synapse(), nest::SPManager::delete_synapses_from_post(), nest::SPManager::delete_synapses_from_pre(), nest::EventDeliveryManager::deliver_events_(), nest::EventDeliveryManager::deliver_secondary_events(), nest::ConnectionManager::deliver_secondary_events(), nest::NodeManager::destruct_nodes_(), disable_structural_plasticity(), nest::SliceRingBuffer::discard_events(), nest::SPManager::disconnect(), disconnect(), nest::SPManager::disconnect(), disconnect(), nest::OneToOneBuilder::disconnect_(), nest::AllToAllBuilder::disconnect_(), displacement(), displacement(), distance(), distance(), distance(), nest::EventDeliveryManager::distribute_target_data_buffers_(), nest::SourceTable::dump_compressed_spike_data(), nest::SourceTable::dump_compressible_sources(), nest::Layer< D >::dump_connections(), nest::SourceTable::dump_sources(), nest::Stopwatch< detailed_timer, threaded_timer >::elapsed(), nest::iaf_psc_exp_ps::emit_instant_spike_(), nest::iaf_psc_exp_ps_lossless::emit_instant_spike_(), nest::iaf_psc_alpha_ps::emit_instant_spike_(), nest::iaf_psc_delta_ps::emit_instant_spike_(), nest::iaf_psc_exp_ps::emit_spike_(), nest::iaf_psc_exp_ps_lossless::emit_spike_(), nest::iaf_psc_delta_ps::emit_spike_(), nest::iaf_psc_alpha_ps::emit_spike_(), enable_structural_plasticity(), nest::SPManager::enable_structural_plasticity(), nest::EpropArchivingNode< HistEntryT >::erase_used_eprop_history(), nest::ConnectionCreator::extract_params_(), nest::SourceTable::fill_compressed_spike_data(), nest::ConnectionManager::fill_target_buffer(), nest::NodeManager::finalize_nodes(), nest::SourceTable::find_first_source(), nest::SourceTable::find_maximal_position(), nest::ConnectionCreator::fixed_indegree_(), nest::ConnectionCreator::fixed_outdegree_(), nest::EventDeliveryManager::gather_secondary_events(), nest::EventDeliveryManager::gather_spike_data_(), nest::EventDeliveryManager::gather_target_data(), nest::EventDeliveryManager::gather_target_data_compressed(), get_connection_status(), get_connection_status(), get_connections(), nest::ConnectionManager::get_connections(), nest::ConnectionManager::get_connections(), nest::TargetTableDevices::get_connections_from_devices_(), nest::TargetTableDevices::get_connections_to_device_for_lid_(), nest::TargetTableDevices::get_connections_to_devices_(), nest::ModelManager::get_connector_defaults(), nest::ConnectionManager::get_delay_checker(), nest::VPManager::get_end_rank_per_thread(), nest::EventDeliveryManager::get_global_max_spikes_per_rank_(), nest::ArchivingNode::get_history(), nest::RingBuffer::get_index_(), nest::MultRBuffer::get_index_(), nest::ListRingBuffer::get_index_(), nest::ArchivingNode::get_K_value(), nest::ArchivingNode::get_K_values(), get_kernel_status(), nest::ListRingBuffer::get_list(), nest::ClopathArchivingNode::get_LTD_value(), nest::NodeManager::get_max_num_local_nodes(), nest::Node::get_model_(), get_model_defaults(), nest::ModelRangeManager::get_model_of_node_id(), nest::NodeManager::get_mpi_local_node_or_device_head(), nest::Node::get_name(), nest::SourceTable::get_next_target_data(), nest::SourceTable::get_node_id(), nest::NodeManager::get_node_or_proxy(), nest::NodeManager::get_node_or_proxy(), nest::NodePosParameter::get_node_pos_(), get_node_status(), nest::NodeManager::get_nodes(), get_nodes(), nest::VPManager::get_num_assigned_ranks_per_thread(), nest::ModelManager::get_num_connection_models(), nest::VPManager::get_num_virtual_processes(), nest::RecordingBackendMPI::get_port(), nest::StimulationBackendMPI::get_port(), get_position(), get_position(), nest::SimulationManager::get_previous_slice_origin(), nest::ModelManager::get_proxy_node(), get_rank_synced_rng(), nest::ConnectionManager::get_sources(), nest::Model::get_status(), nest::multimeter::get_status(), nest::spike_recorder::get_status(), nest::spin_detector::get_status(), nest::weight_recorder::get_status(), nest::GenericConnectorModel< ConnectionT >::get_status(), nest::proxynode::get_status(), nest::RecordingDevice::get_status(), nest::SPManager::get_status(), nest::FreeLayer< D >::get_status(), nest::Stopwatch< detailed_timer, threaded_timer >::get_status(), nest::Node::get_status_base(), nest::ConnectionManager::get_synapse_status(), nest::TargetTableDevices::get_synapse_status_to_device(), nest::SPManager::get_synaptic_elements(), nest::TargetIdentifierIndex::get_target_ptr(), nest::ConnectionManager::get_targets(), nest::NodeManager::get_thread_siblings(), nest::RingBuffer::get_value(), nest::MultRBuffer::get_value(), nest::RingBuffer::get_value_wfr_update(), nest::VPManager::get_vp(), get_vp_specific_rng(), get_vp_synced_rng(), nest::NodeCollectionComposite::gid_to_rank_(), nest::NodeCollectionComposite::gid_to_vp_(), nest::ignore_and_fire::handle(), nest::amat2_psc_exp::handle(), nest::binary_neuron< TGainfunction >::handle(), nest::cm_default::handle(), nest::eprop_iaf::handle(), nest::eprop_iaf_adapt::handle(), nest::eprop_iaf_adapt_bsshslm_2020::handle(), nest::eprop_iaf_bsshslm_2020::handle(), nest::eprop_iaf_psc_delta::handle(), nest::eprop_iaf_psc_delta_adapt::handle(), nest::eprop_readout::handle(), nest::eprop_readout_bsshslm_2020::handle(), nest::gif_psc_exp::handle(), nest::gif_psc_exp_multisynapse::handle(), nest::glif_psc::handle(), nest::glif_psc_double_alpha::handle(), nest::iaf_psc_alpha::handle(), nest::iaf_psc_alpha_multisynapse::handle(), nest::iaf_psc_alpha_ps::handle(), nest::iaf_psc_delta::handle(), nest::iaf_psc_delta_ps::handle(), nest::iaf_psc_exp::handle(), nest::iaf_psc_exp_htum::handle(), nest::iaf_psc_exp_multisynapse::handle(), nest::iaf_psc_exp_ps::handle(), nest::iaf_psc_exp_ps_lossless::handle(), nest::iaf_tum_2000::handle(), nest::izhikevich::handle(), nest::mat2_psc_exp::handle(), nest::pp_psc_delta::handle(), nest::rate_neuron_ipn< TNonlinearities >::handle(), nest::rate_neuron_opn< TNonlinearities >::handle(), nest::rate_transformer_node< TNonlinearities >::handle(), nest::ignore_and_fire::handle(), nest::amat2_psc_exp::handle(), nest::binary_neuron< TGainfunction >::handle(), nest::cm_default::handle(), nest::correlomatrix_detector::handle(), nest::correlospinmatrix_detector::handle(), nest::eprop_iaf::handle(), nest::eprop_iaf_adapt::handle(), nest::eprop_iaf_adapt_bsshslm_2020::handle(), nest::eprop_iaf_bsshslm_2020::handle(), nest::eprop_iaf_psc_delta::handle(), nest::eprop_iaf_psc_delta_adapt::handle(), nest::eprop_readout::handle(), nest::eprop_readout_bsshslm_2020::handle(), nest::gif_psc_exp::handle(), nest::gif_psc_exp_multisynapse::handle(), nest::glif_psc::handle(), nest::glif_psc_double_alpha::handle(), nest::iaf_chs_2007::handle(), nest::iaf_psc_alpha::handle(), nest::iaf_psc_alpha_multisynapse::handle(), nest::iaf_psc_alpha_ps::handle(), nest::iaf_psc_delta::handle(), nest::iaf_psc_delta_ps::handle(), nest::iaf_psc_exp::handle(), nest::iaf_psc_exp_htum::handle(), nest::iaf_psc_exp_multisynapse::handle(), nest::iaf_psc_exp_ps::handle(), nest::iaf_psc_exp_ps_lossless::handle(), nest::iaf_tum_2000::handle(), nest::izhikevich::handle(), nest::mat2_psc_exp::handle(), nest::parrot_neuron::handle(), nest::parrot_neuron_ps::handle(), nest::pp_psc_delta::handle(), nest::spike_dilutor::handle(), nest::volume_transmitter::handle(), nest::noise_generator::handles_test_event(), nest::eprop_readout::handles_test_event(), nest::eprop_readout_bsshslm_2020::handles_test_event(), dictionary_::init_access_flags(), nest::rate_neuron_ipn< TNonlinearities >::init_buffers_(), nest::rate_neuron_opn< TNonlinearities >::init_buffers_(), nest::rate_transformer_node< TNonlinearities >::init_buffers_(), nest::ClopathArchivingNode::init_clopath_buffers(), nest::EventDeliveryManager::init_moduli(), nest::MPIManager::init_mpi(), init_nest(), nest::spike_dilutor::init_state_(), nest::SourceTable::initialize(), nest::TargetTable::initialize(), nest::TargetTableDevices::initialize(), nest::RecordingBackendASCII::initialize(), nest::RecordingBackendMemory::initialize(), nest::RecordingBackendMPI::initialize(), nest::RecordingBackendScreen::initialize(), nest::RecordingBackendSIONlib::initialize(), nest::StimulationBackendMPI::initialize(), nest::ConnectionManager::initialize(), nest::EventDeliveryManager::initialize(), nest::ModelManager::initialize(), nest::NodeManager::initialize(), nest::RandomManager::initialize(), nest::PerThreadBoolIndicator::initialize(), nest::ConnectionManager::initialize_iteration_state(), install_module(), nest::NodeManager::is_local_node(), nest::NodeManager::is_local_node_id(), nest::VPManager::is_local_vp(), nest::Stopwatch< detailed_timer, threaded_timer >::is_running_(), nest::FreeLayer< D >::lid_to_position_id_(), nest::LognormalParameter::LognormalParameter(), nest::BipartiteConnBuilder::loop_over_targets_(), message(), nest::nc_const_iterator::nc_const_iterator(), nest::nc_const_iterator::nc_const_iterator(), nest::LoggingEvent::nest_verbosity_level(), nest::NodeCollectionPrimitive::NodeCollectionPrimitive(), nest::NormalParameter::NormalParameter(), nest::RecordingBackendASCII::DeviceData::open_file(), nest::RecordingBackendSIONlib::open_files_(), nest::nc_const_iterator::operator*(), nest::SynapticElement::operator=(), nest::ConnectionCreator::pairwise_bernoulli_on_source_(), nest::ConnectionCreator::pairwise_bernoulli_on_target_(), nest::ConnectionCreator::pairwise_poisson_(), nest::SourceTable::populate_target_data_fields_(), nest::NodeManager::post_run_cleanup(), nest::RecordingBackendSIONlib::post_step_hook(), nest::ac_generator::pre_run_hook(), nest::noise_generator::pre_run_hook(), nest::pulsepacket_generator::pre_run_hook(), nest::sinusoidal_poisson_generator::pre_run_hook(), nest::spike_train_injector::pre_run_hook(), nest::volume_transmitter::pre_run_hook(), nest::RecordingDevice::pre_run_hook(), prepare(), nest::RecordingBackendMPI::prepare(), nest::SimulationManager::prepare(), nest::StimulationBackendMPI::prepare(), nest::TargetTable::prepare(), nest::SliceRingBuffer::prepare_delivery(), nest::NodeManager::prepare_nodes(), nest::Stopwatch< detailed_timer, threaded_timer >::print(), nest::NodeManager::print(), nest::NodeCollectionComposite::print_me(), print_nodes_to_string(), nest::NodeCollectionPrimitive::print_primitive(), nest::stdp_dopamine_synapse< targetidentifierT >::process_dopa_spikes_(), nest::NodeCollectionPrimitive::rank_local_begin(), nest::NodeCollectionComposite::rank_local_begin(), nest::rate_neuron_ipn< TNonlinearities >::rate_neuron_ipn(), nest::rate_neuron_ipn< TNonlinearities >::rate_neuron_ipn(), nest::rate_neuron_opn< TNonlinearities >::rate_neuron_opn(), nest::rate_neuron_opn< TNonlinearities >::rate_neuron_opn(), nest::rate_transformer_node< TNonlinearities >::rate_transformer_node(), nest::rate_transformer_node< TNonlinearities >::rate_transformer_node(), nest::ThirdInBuilder::register_connection(), register_connection_model(), register_logger_client(), register_node_model(), nest::ModelManager::register_node_model_(), nest::ModelManager::register_specific_connection_model_(), nest::ArchivingNode::register_stdp_connection(), nest::SourceTable::remove_disabled_sources(), nest::Stopwatch< detailed_timer, threaded_timer >::reset(), nest::EventDeliveryManager::reset_complete_marker_spike_data_(), reset_kernel(), nest::RingBuffer::resize(), nest::MultRBuffer::resize(), nest::ListRingBuffer::resize(), nest::MultiChannelInputBuffer< num_channels >::resize(), nest::SliceRingBuffer::resize(), nest::SourceTable::resize_compressible_sources(), nest::ConnectionManager::resize_connections(), nest::EventDeliveryManager::resize_send_recv_buffers_spike_data_(), nest::EventDeliveryManager::resize_send_recv_buffers_target_data(), nest::SourceTable::resize_sources(), nest::TargetTableDevices::resize_to_number_of_neurons(), nest::TargetTableDevices::resize_to_number_of_synapse_types(), nest::Event::retrieve_sender_node_id_from_source_table(), run(), nest::SimulationManager::run(), nest::stdp_nn_pre_centered_synapse< targetidentifierT >::send(), nest::stdp_nn_restr_synapse< targetidentifierT >::send(), nest::stdp_nn_symm_synapse< targetidentifierT >::send(), nest::stdp_synapse< targetidentifierT >::send(), nest::stdp_triplet_synapse< targetidentifierT >::send(), nest::vogels_sprekeler_synapse< targetidentifierT >::send(), nest::jonke_synapse< targetidentifierT >::send(), nest::stdp_dopamine_synapse< targetidentifierT >::send(), nest::stdp_facetshw_synapse_hom< targetidentifierT >::send(), nest::stdp_synapse_hom< targetidentifierT >::send(), nest::stdp_pl_synapse_hom< targetidentifierT >::send(), nest::eprop_synapse_bsshslm_2020< targetidentifierT >::send(), nest::EventDeliveryManager::send(), nest::ConnectionManager::send_from_device(), nest::EventDeliveryManager::send_local_(), nest::EventDeliveryManager::send_local_(), nest::EventDeliveryManager::send_off_grid_remote(), nest::EventDeliveryManager::send_remote(), nest::EventDeliveryManager::send_secondary(), nest::proxynode::send_test_event(), nest::TargetTableDevices::send_to_device(), nest::TargetTableDevices::send_to_device(), nest::ConnectionManager::send_to_devices(), nest::ConnectionManager::send_to_devices(), nest::Connector< ConnectionT >::send_weight_event(), nest::SendBufferPosition::SendBufferPosition(), nest::proxynode::sends_secondary_event(), nest::proxynode::sends_secondary_event(), nest::proxynode::sends_secondary_event(), nest::proxynode::sends_secondary_event(), nest::proxynode::sends_secondary_event(), nest::proxynode::sends_secondary_event(), nest::proxynode::sends_signal(), nest::RecordingDevice::Parameters_::set(), nest::StimulationDevice::Parameters_::set(), nest::SynapticElement::set(), nest::DataSecondaryEvent< DataType, Subclass >::set_coeff_length(), set_connection_status(), set_connection_status(), nest::ConnectionManager::set_connections_have_changed(), nest::BipartiteConnBuilder::set_default_weight_or_delay_(), nest::EventDeliveryManager::set_end_marker_(), nest::StimulationDevice::set_initialized_(), nest::RecordingDevice::set_initialized_(), set_kernel_status(), set_model_defaults(), set_nc_status(), set_node_status(), nest::VPManager::set_num_threads(), nest::ArchivingNode::set_spiketime(), nest::RecordingBackendASCII::DeviceData::set_status(), nest::RecordingBackendMemory::DeviceData::set_status(), nest::spike_generator::set_status(), nest::spike_train_injector::set_status(), nest::ConnectionManager::set_status(), nest::GenericConnectorModel< ConnectionT >::set_status(), nest::FreeLayer< D >::set_status(), nest::RecordingDevice::set_status(), nest::SimulationManager::set_status(), nest::SPManager::set_status(), nest::StimulationDevice::set_status(), nest::VPManager::set_status(), nest::DelayChecker::set_status(), nest::cont_delay_synapse< targetidentifierT >::set_status(), nest::EpropSynapseCommonProperties::set_status(), nest::EpropSynapseBSSHSLM2020CommonProperties::set_status(), nest::STDPDopaCommonProperties::set_status(), nest::CommonSynapseProperties::set_status(), nest::Connection< targetidentifierT >::set_status(), nest::FlushEventMechanism::set_status(), nest::NodeManager::set_status(), nest::ModelManager::set_synapse_defaults_(), nest::BipartiteConnBuilder::set_synapse_model_(), nest::BipartiteConnBuilder::set_synapse_params(), nest::ConnectionManager::set_synapse_status(), nest::TargetTableDevices::set_synapse_status_to_device(), nest::TargetIdentifierIndex::set_target(), nest::Model::set_threads(), shutdown_nest(), nest::BipartiteConnBuilder::single_connect_(), nest::BipartiteConnBuilder::single_disconnect_(), nest::NodeCollectionComposite::slice(), nest::SourceTable::source_should_be_processed_(), nest::OneToOneBuilder::sp_connect_(), nest::AllToAllBuilder::sp_connect_(), nest::OneToOneBuilder::sp_disconnect_(), nest::AllToAllBuilder::sp_disconnect_(), nest::NodeCollectionComposite::specific_local_begin_(), nest::ConnectionManager::split_to_neuron_device_vectors_(), nest::Stopwatch< detailed_timer, threaded_timer >::start(), nest::Stopwatch< detailed_timer, threaded_timer >::stop(), nest::SynapticElement::SynapticElement(), nest::ConnectionManager::sync_has_primary_connections(), synchronize(), nest::ThirdBernoulliWithPoolBuilder::third_connect(), nest::ThirdBernoulliWithPoolBuilder::ThirdBernoulliWithPoolBuilder(), nest::ThirdInBuilder::ThirdInBuilder(), nest::NodeCollectionPrimitive::thread_local_begin(), nest::NodeCollectionComposite::thread_local_begin(), nest::VPManager::thread_to_vp(), nest::NodeCollection::to_array(), nest::ConnectionManager::trigger_update_weight(), nest::iaf_chs_2007::update(), nest::iaf_psc_exp::update(), nest::iaf_tum_2000::update(), nest::volume_transmitter::update(), nest::ignore_and_fire::update(), nest::ac_generator::update(), nest::amat2_psc_exp::update(), nest::binary_neuron< TGainfunction >::update(), nest::cm_default::update(), nest::dc_generator::update(), nest::eprop_iaf::update(), nest::eprop_iaf_adapt::update(), nest::eprop_iaf_adapt_bsshslm_2020::update(), nest::eprop_iaf_bsshslm_2020::update(), nest::eprop_iaf_psc_delta::update(), nest::eprop_iaf_psc_delta_adapt::update(), nest::eprop_readout::update(), nest::eprop_readout_bsshslm_2020::update(), nest::gamma_sup_generator::update(), nest::gif_psc_exp::update(), nest::gif_psc_exp_multisynapse::update(), nest::glif_psc::update(), nest::glif_psc_double_alpha::update(), nest::iaf_psc_alpha::update(), nest::iaf_psc_alpha_multisynapse::update(), nest::iaf_psc_delta::update(), nest::iaf_psc_exp_htum::update(), nest::iaf_psc_exp_multisynapse::update(), nest::inhomogeneous_poisson_generator::update(), nest::izhikevich::update(), nest::mat2_psc_exp::update(), nest::mip_generator::update(), nest::multimeter::update(), nest::noise_generator::update(), nest::parrot_neuron::update(), nest::parrot_neuron_ps::update(), nest::poisson_generator::update(), nest::poisson_generator_ps::update(), nest::pp_psc_delta::update(), nest::ppd_sup_generator::update(), nest::pulsepacket_generator::update(), nest::sinusoidal_poisson_generator::update(), nest::spike_dilutor::update(), nest::spike_generator::update(), nest::spike_train_injector::update(), nest::step_rate_generator::update(), nest::step_current_generator::update(), nest::SimulationManager::update_(), nest::rate_neuron_ipn< TNonlinearities >::update_(), nest::rate_neuron_opn< TNonlinearities >::update_(), nest::rate_transformer_node< TNonlinearities >::update_(), nest::SimulationManager::update_connection_infrastructure(), nest::SPBuilder::update_delay(), nest::ConnectionManager::update_delay_extrema_(), nest::StimulationBackendMPI::update_device(), nest::EventDeliveryManager::update_moduli(), nest::BipartiteConnBuilder::update_param_dict_(), nest::SPManager::update_structural_plasticity(), nest::NodeManager::update_thread_local_node_data(), update_value_param(), nest::GenericConnectorModel< ConnectionT >::used_default_delay(), nest::NodeCollection::valid(), nest::NormalParameter::value(), nest::LognormalParameter::value(), nest::VPManager::vp_to_thread(), nest::RecordingDevice::write(), nest::RecordingBackendMPI::write(), nest::EventDeliveryManager::write_done_marker_secondary_events_(), nest::EventDeliveryManager::write_toggle(), nest::ThirdBernoulliWithPoolBuilder::~ThirdBernoulliWithPoolBuilder(), and nest::ThirdInBuilder::~ThirdInBuilder().
| NodeCollectionPTR nest::make_nodecollection | ( | const std::vector< size_t > & | node_ids | ) |
| MaskFactory & nest::mask_factory_ | ( | void | ) |
Referenced by create_mask(), register_mask(), and register_mask().
| ParameterPTR nest::max_parameter | ( | const ParameterPTR | parameter, |
| const double | other | ||
| ) |
Create parameter whose value is the maximum of a given parameter's value and the given value.
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Calculates the median of three elements.
See http://algs4.cs.princeton.edu/23quicksort/QuickX.java.html.
Referenced by quicksort3way().
| void nest::message | ( | const VerbosityLevel | level, |
| const std::string & | function, | ||
| const std::string & | message, | ||
| const std::string & | file, | ||
| const size_t | line | ||
| ) |
References kernel(), nest::KernelManager::logging_manager, message(), and nest::LoggingManager::publish_log().
Referenced by nest::NodeCollectionPrimitive::assert_consistent_model_ids_(), nest::LoggingEvent::LoggingEvent(), and message().
| ParameterPTR nest::min_parameter | ( | const ParameterPTR | parameter, |
| const double | other | ||
| ) |
Create parameter whose value is the minimum of a given parameter's value and the given value.
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Referenced by nest::Ntree< D, T, max_capacity, max_depth >::masked_iterator::masked_iterator(), nest::ModelManager::memory_info(), and nest::NodeManager::print().
| ParameterPTR nest::multiply_parameter | ( | const ParameterPTR | first, |
| const ParameterPTR | second | ||
| ) |
Create the product of one parameter with another.
| size_t nest::nc_size | ( | NodeCollectionPTR | nc | ) |
| NodeCollectionPTR nest::node_collection_array_index | ( | NodeCollectionPTR | nc, |
| const bool * | array, | ||
| unsigned long | n | ||
| ) |
| NodeCollectionPTR nest::node_collection_array_index | ( | NodeCollectionPTR | nc, |
| const long * | array, | ||
| unsigned long | n | ||
| ) |
| std::vector< size_t > nest::node_collection_to_array | ( | NodeCollectionPTR | node_collection, |
| const std::string & | selection | ||
| ) |
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| size_t nest::number_of_uints_covered | ( | ) |
This template function returns the number of uints covered by a variable of type T.
This function is used to determine the storage demands for a variable of type T in the NEST communication buffer, which is of type std::vector<unsigned int>.
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| std::enable_if< EnableBitMaskOperators< Enum >::enable, Enum >::type nest::operator&= | ( | Enum & | lhs, |
| Enum | rhs | ||
| ) |
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| std::ostream & nest::operator<< | ( | std::ostream & | os, |
| const Position< D, T > & | pos | ||
| ) |
| std::ostream & nest::operator<< | ( | std::ostream & | out, |
| const LoggingEvent & | e | ||
| ) |
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| std::enable_if< EnableBitMaskOperators< Enum >::enable, Enum >::type nest::operator^= | ( | Enum & | lhs, |
| Enum | rhs | ||
| ) |
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| std::enable_if< EnableBitMaskOperators< Enum >::enable, Enum >::type nest::operator|= | ( | Enum & | lhs, |
| Enum | rhs | ||
| ) |
| ParameterFactory & nest::parameter_factory_ | ( | void | ) |
Referenced by create_parameter(), and register_parameter().
| ParameterPTR nest::pow_parameter | ( | const ParameterPTR | parameter, |
| const double | exponent | ||
| ) |
Create a parameter raised to the power of an exponent.
| std::string nest::pprint_to_string | ( | NodeCollectionPTR | nc | ) |
| void nest::prepare | ( | ) |
do calibrations for network, open files, ... before run()
Prepares a simulation before calling any number of run(t_n) calls to actually run the simulation
References kernel(), and nest::KernelManager::prepare().
Referenced by simulate().
| void nest::print_nodes_to_stream | ( | std::ostream & | out = std::cout | ) |
| std::string nest::print_nodes_to_string | ( | ) |
References kernel(), nest::KernelManager::node_manager, and nest::NodeManager::print().
| void nest::quicksort3way | ( | BlockVector< T1 > & | vec_sort, |
| BlockVector< T2 > & | vec_perm, | ||
| const size_t | lo, | ||
| const size_t | hi | ||
| ) |
Quicksort with 3-way partitioning, adapted from Sedgewick & Wayne (2011), Algorithms 4th edition, p296ff (see http://algs4.cs.princeton.edu/23quicksort/QuickX.java.html).
Recursively sorts the two vectors vec_sort and vec_perm, by sorting the entries in vec_sort and applying the same exchanges to vec_perm.
References insertion_sort(), INSERTION_SORT_CUTOFF, median3_(), quicksort3way(), and BlockVector< value_type_ >::size().
Referenced by quicksort3way(), and sort().
| void nest::read_from_comm_buffer | ( | T & | d, |
| std::vector< unsigned int >::iterator & | pos | ||
| ) |
This template function reads data of type T from a given position of a std::vector< unsigned int >.
The function is used to read SecondaryEvents data from the NEST communication buffer. The pos iterator is advanced during execution. For a discussion on the functionality of this function see github issue #181 and pull request #184.
Referenced by nest::DataSecondaryEvent< DataType, Subclass >::get_coeffvalue().
| ParameterPTR nest::redraw_parameter | ( | const ParameterPTR | parameter, |
| const double | min, | ||
| const double | max | ||
| ) |
Create parameter redrawing the value if the value of a parameter is outside the set limits.
| void nest::register_ac_generator | ( | const std::string & | name | ) |
| void nest::register_amat2_psc_exp | ( | const std::string & | name | ) |
| void nest::register_bernoulli_synapse | ( | const std::string & | name | ) |
| void nest::register_clopath_synapse | ( | const std::string & | name | ) |
| void nest::register_cm_default | ( | const std::string & | name | ) |
| void nest::register_connection_model | ( | const std::string & | name | ) |
Register connection model (i.e.
an instance of a class inheriting from Connection).
References kernel(), nest::KernelManager::model_manager, and nest::ModelManager::register_connection_model().
| void nest::register_cont_delay_synapse | ( | const std::string & | name | ) |
| void nest::register_correlation_detector | ( | const std::string & | name | ) |
Correlation detector breaks with the persistence scheme as follows: the internal buffers for storing spikes are part of State_, but are initialized by init_buffers_().
| void nest::register_correlomatrix_detector | ( | const std::string & | name | ) |
| void nest::register_correlospinmatrix_detector | ( | const std::string & | name | ) |
Correlospinmatrix detector breaks with the persistence scheme as follows: the internal buffers for storing spikes are part of State_, but are initialized by init_buffers_().
| void nest::register_dc_generator | ( | const std::string & | name | ) |
| void nest::register_diffusion_connection | ( | const std::string & | name | ) |
| void nest::register_eprop_iaf | ( | const std::string & | name | ) |
| void nest::register_eprop_iaf_adapt | ( | const std::string & | name | ) |
| void nest::register_eprop_iaf_adapt_bsshslm_2020 | ( | const std::string & | name | ) |
| void nest::register_eprop_iaf_bsshslm_2020 | ( | const std::string & | name | ) |
| void nest::register_eprop_iaf_psc_delta | ( | const std::string & | name | ) |
| void nest::register_eprop_iaf_psc_delta_adapt | ( | const std::string & | name | ) |
| void nest::register_eprop_learning_signal_connection | ( | const std::string & | name | ) |
| void nest::register_eprop_learning_signal_connection_bsshslm_2020 | ( | const std::string & | name | ) |
| void nest::register_eprop_readout | ( | const std::string & | name | ) |
| void nest::register_eprop_readout_bsshslm_2020 | ( | const std::string & | name | ) |
| void nest::register_eprop_synapse | ( | const std::string & | name | ) |
Register the eprop synapse model.
| void nest::register_eprop_synapse_bsshslm_2020 | ( | const std::string & | name | ) |
Register the eprop synapse model.
| void nest::register_erfc_neuron | ( | const std::string & | name | ) |
| void nest::register_gamma_sup_generator | ( | const std::string & | name | ) |
| void nest::register_gap_junction | ( | const std::string & | name | ) |
| void nest::register_gauss_rate_ipn | ( | const std::string & | name | ) |
| void nest::register_gif_psc_exp | ( | const std::string & | name | ) |
| void nest::register_gif_psc_exp_multisynapse | ( | const std::string & | name | ) |
| void nest::register_ginzburg_neuron | ( | const std::string & | name | ) |
| void nest::register_glif_psc | ( | const std::string & | name | ) |
| void nest::register_glif_psc_double_alpha | ( | const std::string & | name | ) |
| void nest::register_ht_synapse | ( | const std::string & | name | ) |
| void nest::register_iaf_chs_2007 | ( | const std::string & | name | ) |
| void nest::register_iaf_psc_alpha | ( | const std::string & | name | ) |
| void nest::register_iaf_psc_alpha_multisynapse | ( | const std::string & | name | ) |
| void nest::register_iaf_psc_alpha_ps | ( | const std::string & | name | ) |
| void nest::register_iaf_psc_delta | ( | const std::string & | name | ) |
The present implementation uses individual variables for the components of the state vector and the non-zero matrix elements of the propagator.
Because the propagator is a lower triangular matrix, no full matrix multiplication needs to be carried out and the computation can be done "in place", i.e. no temporary state vector object is required.
The template support of recent C++ compilers enables a more succinct formulation without loss of runtime performance already at minimal optimization levels. A future version of iaf_psc_delta will probably address the problem of efficient usage of appropriate vector and matrix objects.
| void nest::register_iaf_psc_delta_ps | ( | const std::string & | name | ) |
| void nest::register_iaf_psc_exp | ( | const std::string & | name | ) |
The present implementation uses individual variables for the components of the state vector and the non-zero matrix elements of the propagator.
Because the propagator is a lower triangular matrix, no full matrix multiplication needs to be carried out and the computation can be done "in place", i.e. no temporary state vector object is required.
The template support of recent C++ compilers enables a more succinct formulation without loss of runtime performance already at minimal optimization levels. A future version of iaf_psc_exp will probably address the problem of efficient usage of appropriate vector and matrix objects.
| void nest::register_iaf_psc_exp_htum | ( | const std::string & | name | ) |
| void nest::register_iaf_psc_exp_multisynapse | ( | const std::string & | name | ) |
| void nest::register_iaf_psc_exp_ps | ( | const std::string & | name | ) |
| void nest::register_iaf_psc_exp_ps_lossless | ( | const std::string & | name | ) |
| void nest::register_iaf_tum_2000 | ( | const std::string & | name | ) |
| void nest::register_ignore_and_fire | ( | const std::string & | name | ) |
| void nest::register_inhomogeneous_poisson_generator | ( | const std::string & | name | ) |
| void nest::register_izhikevich | ( | const std::string & | name | ) |
| void nest::register_jonke_synapse | ( | const std::string & | name | ) |
| void nest::register_lin_rate_ipn | ( | const std::string & | name | ) |
| void nest::register_lin_rate_opn | ( | const std::string & | name | ) |
| void nest::register_logger_client | ( | const deliver_logging_event_ptr | client_callback | ) |
References kernel(), nest::KernelManager::logging_manager, and nest::LoggingManager::register_logging_client().
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References mask_factory_(), and nest::GenericFactory< BaseT >::register_subtype().
Referenced by init_nest().
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References mask_factory_(), and nest::GenericFactory< BaseT >::register_subtype().
| void nest::register_mat2_psc_exp | ( | const std::string & | name | ) |
The present implementation uses individual variables for the components of the state vector and the non-zero matrix elements of the propagator.
Because the propagator is a lower triangular matrix, no full matrix multiplication needs to be carried out and the computation can be done "in place", i.e. no temporary state vector object is required.
| void nest::register_mcculloch_pitts_neuron | ( | const std::string & | name | ) |
| void nest::register_mip_generator | ( | const std::string & | name | ) |
Class mip_generator generates spike trains as described in the MIP model.
| void nest::register_models | ( | ) |
Function to register all node and connection models that were selected for compilation either by using the cmake switch -Dwith-models=<model;list> or as specified in the modelset given to the option -Dwith-modelset=<modelset>
Referenced by nest::ModelManager::initialize().
| void nest::register_multimeter | ( | const std::string & | name | ) |
| void nest::register_node_model | ( | const std::string & | name, |
| std::string | deprecation_info = std::string() |
||
| ) |
Register node model (i.e.
an instance of a class inheriting from Node).
References kernel(), nest::KernelManager::model_manager, and nest::ModelManager::register_node_model().
| void nest::register_noise_generator | ( | const std::string & | name | ) |
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References parameter_factory_(), and nest::GenericFactory< BaseT >::register_subtype().
| void nest::register_parrot_neuron | ( | const std::string & | name | ) |
| void nest::register_parrot_neuron_ps | ( | const std::string & | name | ) |
| void nest::register_poisson_generator | ( | const std::string & | name | ) |
| void nest::register_poisson_generator_ps | ( | const std::string & | name | ) |
| void nest::register_pp_psc_delta | ( | const std::string & | name | ) |
| void nest::register_ppd_sup_generator | ( | const std::string & | name | ) |
| void nest::register_pulsepacket_generator | ( | const std::string & | name | ) |
| void nest::register_quantal_stp_synapse | ( | const std::string & | name | ) |
| void nest::register_rate_connection_delayed | ( | const std::string & | name | ) |
Class representing a delayed rate connection.
A rate_connection_delayed has the properties weight, delay and receiver port.
| void nest::register_rate_connection_instantaneous | ( | const std::string & | name | ) |
Class representing a rate connection.
A rate connection has the properties weight and receiver port.
| void nest::register_rate_transformer_gauss | ( | const std::string & | name | ) |
| void nest::register_rate_transformer_lin | ( | const std::string & | name | ) |
| void nest::register_rate_transformer_sigmoid | ( | const std::string & | name | ) |
| void nest::register_rate_transformer_sigmoid_gg_1998 | ( | const std::string & | name | ) |
| void nest::register_rate_transformer_tanh | ( | const std::string & | name | ) |
| void nest::register_rate_transformer_threshold_lin | ( | const std::string & | name | ) |
| void nest::register_sic_connection | ( | const std::string & | name | ) |
| void nest::register_sigmoid_rate_gg_1998_ipn | ( | const std::string & | name | ) |
| void nest::register_sigmoid_rate_ipn | ( | const std::string & | name | ) |
| void nest::register_sinusoidal_poisson_generator | ( | const std::string & | name | ) |
| void nest::register_spike_dilutor | ( | const std::string & | name | ) |
| void nest::register_spike_generator | ( | const std::string & | name | ) |
| void nest::register_spike_recorder | ( | const std::string & | name | ) |
Class spike_recorder.
| void nest::register_spike_train_injector | ( | const std::string & | name | ) |
Spike train injector node.
See UserDocs for details.
| void nest::register_spin_detector | ( | const std::string & | name | ) |
Spin detector class.
This class decodes binary states based on incoming spikes. It receives spikes via its handle(SpikeEvent&) method, decodes the state, and stores them via its RecordingDevice.
| void nest::register_static_synapse | ( | const std::string & | name | ) |
| void nest::register_static_synapse_hom_w | ( | const std::string & | name | ) |
| void nest::register_stdp_dopamine_synapse | ( | const std::string & | name | ) |
Class representing an stdp_dopamine_synapse with homogeneous parameters, i.e.
parameters are the same for all synapses.
| void nest::register_stdp_facetshw_synapse_hom | ( | const std::string & | name | ) |
| void nest::register_stdp_nn_pre_centered_synapse | ( | const std::string & | name | ) |
| void nest::register_stdp_nn_restr_synapse | ( | const std::string & | name | ) |
| void nest::register_stdp_nn_symm_synapse | ( | const std::string & | name | ) |
| void nest::register_stdp_pl_synapse_hom | ( | const std::string & | name | ) |
Class representing an STDP connection with homogeneous parameters, i.e.
parameters are the same for all synapses.
| void nest::register_stdp_synapse | ( | const std::string & | name | ) |
| void nest::register_stdp_synapse_hom | ( | const std::string & | name | ) |
Class representing an STDP connection with homogeneous parameters, i.e.
parameters are the same for all synapses.
| void nest::register_stdp_triplet_synapse | ( | const std::string & | name | ) |
| void nest::register_step_current_generator | ( | const std::string & | name | ) |
| void nest::register_step_rate_generator | ( | const std::string & | name | ) |
| void nest::register_tanh_rate_ipn | ( | const std::string & | name | ) |
| void nest::register_tanh_rate_opn | ( | const std::string & | name | ) |
| void nest::register_threshold_lin_rate_ipn | ( | const std::string & | name | ) |
| void nest::register_threshold_lin_rate_opn | ( | const std::string & | name | ) |
| void nest::register_tsodyks2_synapse | ( | const std::string & | name | ) |
| void nest::register_tsodyks_synapse | ( | const std::string & | name | ) |
| void nest::register_tsodyks_synapse_hom | ( | const std::string & | name | ) |
| void nest::register_urbanczik_synapse | ( | const std::string & | name | ) |
| void nest::register_vogels_sprekeler_synapse | ( | const std::string & | name | ) |
| void nest::register_voltmeter | ( | const std::string & | name | ) |
| void nest::register_volume_transmitter | ( | const std::string & | name | ) |
| void nest::register_weight_recorder | ( | const std::string & | name | ) |
| double nest::regula_falsi | ( | const CN & | node, |
| const double | dt | ||
| ) |
Localize threshold crossing by using Illinois algorithm of regula falsi method.
See https://en.wikipedia.org/wiki/Regula_falsi#The_Illinois_algorithm for details on the algorithm.
| Node | model object that call function |
| double | length of interval since previous event |
Referenced by nest::iaf_psc_exp_ps::emit_spike_(), nest::iaf_psc_exp_ps_lossless::emit_spike_(), and nest::iaf_psc_alpha_ps::emit_spike_().
| void nest::reset_kernel | ( | ) |
| void nest::run | ( | const double | time | ) |
References nest::Time::is_finite(), nest::Time::is_grid_time(), kernel(), nest::SimulationManager::run(), and nest::KernelManager::simulation_manager.
Referenced by simulate().
| NodeCollectionPTR nest::select_nodes_by_mask | ( | const NodeCollectionPTR | layer_nc, |
| const std::vector< double > & | anchor, | ||
| const MaskPTR | mask | ||
| ) |
References nest::NodeCollection::create(), and get_layer().
| void nest::set_connection_status | ( | const std::deque< ConnectionID > & | conns, |
| const Dictionary & | dict | ||
| ) |
References Dictionary::all_entries_accessed(), nest::KernelManager::connection_manager, Dictionary::init_access_flags(), kernel(), and nest::ConnectionManager::set_synapse_status().
| void nest::set_connection_status | ( | const std::deque< ConnectionID > & | conns, |
| const std::vector< Dictionary > & | dicts | ||
| ) |
References nest::KernelManager::connection_manager, kernel(), and nest::ConnectionManager::set_synapse_status().
| void nest::set_kernel_status | ( | const Dictionary & | dict | ) |
References Dictionary::all_entries_accessed(), Dictionary::init_access_flags(), kernel(), and nest::KernelManager::set_status().
| void nest::set_model_defaults | ( | const std::string & | component, |
| const Dictionary & | dict | ||
| ) |
References nest::KernelManager::io_manager, kernel(), and nest::IOManager::set_recording_backend_status().
| void nest::set_nc_status | ( | NodeCollectionPTR | nc, |
| std::vector< Dictionary > & | params | ||
| ) |
References kernel(), nest::KernelManager::node_manager, and nest::NodeManager::set_status().
| void nest::set_node_status | ( | const size_t | node_id, |
| const Dictionary & | dict | ||
| ) |
References kernel(), nest::KernelManager::node_manager, and nest::NodeManager::set_status().
| void nest::shutdown_nest | ( | int | exitcode | ) |
References kernel(), nest::MPIManager::mpi_finalize(), and nest::KernelManager::mpi_manager.
| void nest::simulate | ( | const double | t | ) |
| ParameterPTR nest::sin_parameter | ( | const ParameterPTR | parameter | ) |
Create the sine of a parameter.
| NodeCollectionPTR nest::slice_nc | ( | const NodeCollectionPTR | nc, |
| long | start, | ||
| long | stop, | ||
| long | step | ||
| ) |
| void nest::sort | ( | BlockVector< T1 > & | vec_sort, |
| BlockVector< T2 > & | vec_perm | ||
| ) |
Sorts two vectors according to elements in first vector.
Convenience function.
References BlockVector< value_type_ >::begin(), BlockVector< value_type_ >::end(), make_iterator_pair(), quicksort3way(), and BlockVector< value_type_ >::size().
Referenced by nest::Connector< ConnectionT >::sort_connections().
| ParameterPTR nest::subtract_parameter | ( | const ParameterPTR | first, |
| const ParameterPTR | second | ||
| ) |
Create the difference between one parameter and another.
| void nest::synchronize | ( | ) |
Force synchronization of MPI processes.
References kernel(), nest::KernelManager::mpi_manager, and nest::MPIManager::synchronize().
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Class to handle simulation time and realtime.
All times given in multiples of "tics": A "tic" is a microsecond by default (1000 tics per ms).
User access to time only through accessor functions:
Three time variables are kept: #- time in tics #- time in ms #- time in steps
The largest representable time is available through Time::max().
@NOTE
@NOTE The step-time counter is NOT changed when the resolution is changed. This is of no consequence, since changes in resolution are permitted at t=0 only.
@NOTE
@NOTE Delays must be added to current time, and moduloed each time a spike is inserted into a ring buffer. That operation must be very fast, and there is no time for conversions. Thus, delays must be stored in steps. Given the large number of delays in a system, we cannot use class Time with its three member variables to store delays. Delays must thus be stored explicitly as delay steps.
Markus Diesmann, 2008-01-25 Hans Ekkehard Plesser, 2004-01-25, 2006-12-18 Marc-Oliver Gewaltig, 2004-01-27
Referenced by nest::Time::range().
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Cast enum value to underlying integer type.
std::to_underlying() Suggested by Claude Haiku 4.5.
| bool nest::update_value_param | ( | Dictionary const & | d, |
| const std::string & | key, | ||
| T & | value, | ||
| nest::Node * | node | ||
| ) |
Obtain value from parameter dictionary including evaluation of random or spatial parameters.
This function should be used instead of update_value() everywhere where the user may pass random or spatial parameters.
References nest::Node::get_node_id(), get_vp_specific_rng(), kernel(), nest::VPManager::node_id_to_vp(), nest::KernelManager::vp_manager, and nest::VPManager::vp_to_thread().
Referenced by nest::multimeter::Parameters_::set(), nest::correlation_detector::Parameters_::set(), nest::correlomatrix_detector::Parameters_::set(), nest::correlospinmatrix_detector::Parameters_::set(), nest::noise_generator::Parameters_::set(), nest::iaf_psc_alpha_multisynapse::State_::set(), nest::iaf_psc_exp::State_::set(), nest::iaf_psc_exp_multisynapse::State_::set(), nest::iaf_tum_2000::State_::set(), nest::iaf_psc_exp_htum::State_::set(), nest::iaf_psc_exp_ps_lossless::State_::set(), nest::amat2_psc_exp::State_::set(), nest::eprop_iaf::State_::set(), nest::eprop_iaf_adapt::State_::set(), nest::eprop_iaf_adapt_bsshslm_2020::State_::set(), nest::eprop_iaf_bsshslm_2020::State_::set(), nest::eprop_iaf_psc_delta::State_::set(), nest::eprop_iaf_psc_delta_adapt::State_::set(), nest::eprop_readout::State_::set(), nest::eprop_readout_bsshslm_2020::State_::set(), nest::glif_psc::State_::set(), nest::glif_psc_double_alpha::State_::set(), nest::iaf_psc_alpha_ps::State_::set(), nest::iaf_psc_delta::State_::set(), nest::iaf_psc_delta_ps::State_::set(), nest::iaf_psc_exp_ps::State_::set(), nest::mat2_psc_exp::State_::set(), nest::iaf_psc_alpha::State_::set(), nest::gif_psc_exp::State_::set(), nest::gif_psc_exp_multisynapse::State_::set(), nest::izhikevich::State_::set(), nest::pp_psc_delta::State_::set(), nest::sinusoidal_poisson_generator::Parameters_::set(), nest::eprop_iaf::Parameters_::set(), nest::eprop_iaf_adapt::Parameters_::set(), nest::eprop_iaf_adapt_bsshslm_2020::Parameters_::set(), nest::eprop_iaf_bsshslm_2020::Parameters_::set(), nest::eprop_iaf_psc_delta::Parameters_::set(), nest::eprop_iaf_psc_delta_adapt::Parameters_::set(), nest::eprop_readout::Parameters_::set(), nest::eprop_readout_bsshslm_2020::Parameters_::set(), nest::nonlinearities_gauss_rate::set(), nest::glif_psc::Parameters_::set(), nest::glif_psc_double_alpha::Parameters_::set(), nest::iaf_psc_alpha_ps::Parameters_::set(), nest::iaf_psc_delta_ps::Parameters_::set(), nest::ac_generator::Parameters_::set(), nest::amat2_psc_exp::Parameters_::set(), nest::binary_neuron< TGainfunction >::Parameters_::set(), nest::dc_generator::Parameters_::set(), nest::gainfunction_erfc::set(), nest::gamma_sup_generator::Parameters_::set(), nest::gif_psc_exp::Parameters_::set(), nest::gif_psc_exp_multisynapse::Parameters_::set(), nest::gainfunction_ginzburg::set(), nest::iaf_psc_alpha::Parameters_::set(), nest::iaf_psc_alpha_multisynapse::Parameters_::set(), nest::iaf_psc_delta::Parameters_::set(), nest::iaf_psc_exp::Parameters_::set(), nest::iaf_psc_exp_htum::Parameters_::set(), nest::iaf_psc_exp_multisynapse::Parameters_::set(), nest::iaf_psc_exp_ps::Parameters_::set(), nest::iaf_psc_exp_ps_lossless::Parameters_::set(), nest::iaf_tum_2000::Parameters_::set(), nest::ignore_and_fire::Parameters_::set(), nest::izhikevich::Parameters_::set(), nest::nonlinearities_lin_rate::set(), nest::mat2_psc_exp::Parameters_::set(), nest::gainfunction_mcculloch_pitts::set(), nest::mip_generator::Parameters_::set(), nest::poisson_generator::Parameters_::set(), nest::poisson_generator_ps::Parameters_::set(), nest::pp_psc_delta::Parameters_::set(), nest::ppd_sup_generator::Parameters_::set(), nest::rate_neuron_ipn< TNonlinearities >::Parameters_::set(), nest::rate_neuron_ipn< TNonlinearities >::State_::set(), nest::rate_neuron_opn< TNonlinearities >::Parameters_::set(), nest::rate_neuron_opn< TNonlinearities >::State_::set(), nest::rate_transformer_node< TNonlinearities >::Parameters_::set(), nest::rate_transformer_node< TNonlinearities >::State_::set(), nest::nonlinearities_sigmoid_rate::set(), nest::nonlinearities_sigmoid_rate_gg_1998::set(), nest::spike_dilutor::Parameters_::set(), nest::nonlinearities_tanh_rate::set(), nest::nonlinearities_threshold_lin_rate::set(), nest::volume_transmitter::Parameters_::set(), nest::pulsepacket_generator::Parameters_::set(), nest::spike_generator::Parameters_::set(), nest::spike_train_injector::Parameters_::set(), nest::iaf_chs_2007::Parameters_::set(), nest::iaf_chs_2007::State_::set(), nest::EpropArchivingNodeReadout< hist_shift_required >::set_status(), nest::EpropArchivingNodeRecurrent< hist_shift_required >::set_status(), nest::IgnoreAndSpikeMechanism::set_status(), and nest::FlushEventMechanism::set_status().
| void nest::write_to_comm_buffer | ( | T | d, |
| std::vector< unsigned int >::iterator & | pos | ||
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This template function writes data of type T to a given position of a std::vector< unsigned int >.
Please note that this function does not increase the size of the vector, it just writes the data to the position given by the iterator. The function is used to write data from SecondaryEvents to the NEST communication buffer. The pos iterator is advanced during execution. For a discussion on the functionality of this function see github issue #181 and pull request #184.
Referenced by nest::DataSecondaryEvent< DataType, Subclass >::operator>>().
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Values for min and max delay.
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Marker for invalid LCID values.
Referenced by nest::EventDeliveryManager::deliver_events_(), and nest::SourceTable::fill_compressed_spike_data().
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Value for invalid connection port number.
Referenced by nest::cont_delay_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse_hom_w< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::cont_delay_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse_hom_w< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::cont_delay_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse_hom_w< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::cont_delay_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse_hom_w< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::cont_delay_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse_hom_w< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::eprop_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::eprop_synapse_bsshslm_2020< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::cont_delay_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse_hom_w< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::Node::handles_test_event(), nest::cont_delay_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse_hom_w< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::eprop_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::eprop_synapse_bsshslm_2020< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::bernoulli_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::clopath_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::cont_delay_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::ht_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::jonke_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::quantal_stp_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::static_synapse_hom_w< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::stdp_dopamine_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::stdp_facetshw_synapse_hom< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::stdp_nn_pre_centered_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::stdp_nn_restr_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::stdp_nn_symm_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::stdp_pl_synapse_hom< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::stdp_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::stdp_synapse_hom< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::stdp_triplet_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::tsodyks2_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::tsodyks_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::tsodyks_synapse_hom< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::urbanczik_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::vogels_sprekeler_synapse< targetidentifierT >::ConnTestDummyNode::handles_test_event(), nest::gamma_sup_generator::send_test_event(), nest::multimeter::send_test_event(), nest::noise_generator::send_test_event(), nest::poisson_generator_ps::send_test_event(), and nest::ppd_sup_generator::send_test_event().
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Referenced by nest::GenericConnectorModel< ConnectionT >::add_connection_(), nest::ModelManager::copy_connection_model_(), nest::ConnectionManager::disconnect(), nest::StimulationDevice::enforce_single_syn_type(), nest::SourceTable::fill_compressed_spike_data(), nest::SourceTable::pack_source_node_id_and_syn_id(), and nest::ModelManager::register_specific_connection_model_().
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Value for invalid connection thread id.
Referenced by nest::SymmetricBernoulliBuilder::connect_(), and nest::Node::is_model_prototype().
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Referenced by nest::Source::Source().
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Referenced by nest::Target::set_rank().
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| const struct nest::PrimitiveSortOp nest::primitive_sort_op |
| const Time nest::TimeZero |
Referenced by nest::SimulationManager::set_status().
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Connections are unlabeled by default.
Unlabeled connections cannot be specified as a search criterion in the GetConnections function.
Referenced by nest::Connector< ConnectionT >::get_connection(), nest::Connector< ConnectionT >::get_connection_with_specified_targets(), nest::ConnectionManager::get_connections(), nest::Connection< targetidentifierT >::get_label(), and nest::TargetTableDevices::is_device_connected().
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1.9.8