Layer with free positioning of neurons, positions specified by user. More...

#include <free_layer.h>

Inheritance diagram for nest::FreeLayer< D >:

Classes
class	NodePositionData
	This class is used when communicating positions across MPI procs. More...

Public Member Functions
Position< D >	get_position (index sind) const
	Get position of node. More...

void	set_status (const DictionaryDatum &)

void	get_status (DictionaryDatum &) const

Public Member Functions inherited from nest::Layer< D >
	Layer ()
	Creates an empty layer. More...

	Layer (const Layer &l)
	Copy constructor. More...

	~Layer ()
	Virtual destructor. More...

void	set_status (const DictionaryDatum &)
	Change properties of the layer according to the entries in the dictionary. More...

void	get_status (DictionaryDatum &) const
	Export properties of the layer by setting entries in the status dictionary. More...

const Position< D > &	get_lower_left () const

const Position< D > &	get_extent () const

Position< D >	get_center () const

std::bitset< D >	get_periodic_mask () const

std::vector< double_t >	get_position_vector (const index sind) const

virtual Position< D >	compute_displacement (const Position< D > &from_pos, const Position< D > &to_pos) const
	Returns displacement of a position from another position. More...

Position< D >	compute_displacement (const Position< D > &from_pos, const index to) const
	Returns displacement of node from given position. More...

std::vector< double_t >	compute_displacement (const std::vector< double_t > &from_pos, const index to) const
	Returns displacement of node from given position. More...

double_t	compute_distance (const Position< D > &from_pos, const index to) const
	Returns distance to node from given position. More...

double_t	compute_distance (const std::vector< double_t > &from_pos, const index to) const
	Returns distance to node from given position. More...

lockPTR< Ntree< D, index > >	get_local_positions_ntree (Selector filter=Selector())
	Get positions for local nodes in layer. More...

lockPTR< Ntree< D, index > >	get_global_positions_ntree (Selector filter=Selector())
	Get positions for all nodes in layer, including nodes on other MPI processes. More...

lockPTR< Ntree< D, index > >	get_global_positions_ntree (Selector filter, std::bitset< D > periodic, Position< D > lower_left, Position< D > extent)
	Get positions globally, overriding the dimensions of the layer and the periodic flags. More...

std::vector< std::pair < Position< D >, index > > *	get_global_positions_vector (Selector filter=Selector())

virtual std::vector< std::pair < Position< D >, index > >	get_global_positions_vector (Selector filter, const MaskDatum &mask, const Position< D > &anchor, bool allow_oversized)

std::vector< index >	get_global_nodes (const MaskDatum &mask, const std::vector< double_t > &anchor, bool allow_oversized)
	Return a vector with the GIDs of the nodes inside the mask. More...

void	connect (AbstractLayer &target, ConnectionCreator &connector)
	Connect this layer to the given target layer. More...

void	dump_nodes (std::ostream &os) const
	Write layer data to stream. More...

void	dump_connections (std::ostream &out, const Token &syn_model)
	Dumps information about all connections of the given type having their source in the given layer to the given output stream. More...

bool	is_subnet () const
	Layers do not allow entry to the ChangeSubnet command, nodes can not be added by the user. More...

Public Member Functions inherited from nest::AbstractLayer
	AbstractLayer ()
	Constructor. More...

virtual	~AbstractLayer ()
	Virtual destructor. More...

std::vector< Node * >::iterator	local_begin (int_t depth)
	Start of local children at given depth. More...

std::vector< Node * >::iterator	local_end (int_t depth)
	End of local children at given depth. More...

std::vector< Node * > ::const_iterator	local_begin (int_t depth) const
	Start of local children at given depth. More...

std::vector< Node * > ::const_iterator	local_end (int_t depth) const
	End of local children at given depth. More...

Public Member Functions inherited from nest::Subnet
	Subnet ()

	Subnet (const Subnet &)

virtual	~Subnet ()

void	set_status (const DictionaryDatum &)

void	get_status (DictionaryDatum &) const

bool	has_proxies () const
	Returns true if the node has proxies on remote threads. More...

size_t	global_size () const
	Returns total number of children. More...

size_t	local_size () const
	Returns number of childern in local process. More...

bool	global_empty () const
	returns true if subnet is empty globally More...

bool	local_empty () const
	returns true if subnet has no local nodes More...

void	reserve (size_t)

index	add_node (Node *)
	Add a local node to the subnet. More...

index	add_remote_node (index gid, index mid)
	Add a remote node to the subnet. More...

vector< Node * >::iterator	local_begin ()
	Return iterator to the first local child node. More...

vector< Node * >::iterator	local_end ()
	Return iterator to the end of the local child-list. More...

vector< Node * >::const_iterator	local_begin () const
	Return const iterator to the first local child node. More...

vector< Node * >::const_iterator	local_end () const
	Return const iterator to the end of the local child-list. More...

Node *	at_lid (index) const
	Return pointer to Node at given LID if it is local. More...

std::string	get_label () const
	Return the subnets's user label. More...

void	set_label (std::string const)
	Set the subnet's user label. More...

DictionaryDatum	get_customdict () const
	Set the subnet's custom dictionary. More...

void	set_customdict (DictionaryDatum const dict)
	Return pointer to the subnet's custom dictionary. More...

std::string	print_network (int, int, std::string="")
	Prints out one line of the tree view of the network. More...

bool	is_homogeneous () const

Public Member Functions inherited from nest::Node
	Node ()

	Node (Node const &)

virtual	~Node ()

virtual Node *	clone () const
	Virtual copy constructor. More...

virtual bool	potential_global_receiver () const
	Returns true for potential global receivers (e.g. More...

virtual void	set_has_proxies (const bool)
	Sets has_proxies_ member variable (to switch to global spike detection mode) More...

virtual void	set_local_receiver (const bool)
	Sets local_receiver_ member variable (to switch to global spike detection mode) More...

virtual bool	local_receiver () const
	Returns true if the node only receives events from nodes/devices on the same thread. More...

virtual bool	one_node_per_process () const
	Returns true if the node exists only once per process, but does not have proxies on remote threads. More...

virtual bool	is_off_grid () const
	Returns true if the node if it sends/receives -grid events This is used to discriminate between different types of nodes, when adding new nodes to the network. More...

virtual bool	is_proxy () const
	Returns true if the node is a proxy node. More...

std::string	get_name () const
	Return class name. More...

index	get_gid () const
	Return global Network ID. More...

index	get_lid () const
	Return local node ID. More...

index	get_subnet_index () const
	Return the index to the node in the node array of the parent subnet. More...

int	get_model_id () const
	Return model ID of the node. More...

Subnet *	get_parent () const
	Return pointer to parent subnet. More...

bool	is_frozen () const
	Returns true if node is frozen, i.e., shall not be updated. More...

bool	is_local () const
	Returns true if the node is allocated in the local process. More...

void	init_state ()
	Set state variables to the default values for the model. More...

void	init_buffers ()
	Initialize buffers of a node. More...

virtual void	finalize ()
	Finalize node. More...

virtual void	set_status (const DictionaryDatum &)=0
	Change properties of the node according to the entries in the dictionary. More...

virtual void	get_status (DictionaryDatum &) const =0
	Export properties of the node by setting entries in the status dictionary. More...

virtual port	send_test_event (Node &receiving_node, rport receptor_type, synindex syn_id, bool dummy_target)
	Send an event to the receiving_node passed as an argument. More...

virtual port	handles_test_event (SpikeEvent &, rport receptor_type)
	Check if the node can handle a particular event and receptor type. More...

virtual port	handles_test_event (RateEvent &, rport receptor_type)

virtual port	handles_test_event (DataLoggingRequest &, rport receptor_type)

virtual port	handles_test_event (CurrentEvent &, rport receptor_type)

virtual port	handles_test_event (ConductanceEvent &, rport receptor_type)

virtual port	handles_test_event (DoubleDataEvent &, rport receptor_type)

virtual port	handles_test_event (DSSpikeEvent &, rport receptor_type)

virtual port	handles_test_event (DSCurrentEvent &, rport receptor_type)

virtual void	register_stdp_connection (double_t)
	Register a STDP connection. More...

virtual void	unregister_stdp_connection (double_t)
	Unregister a STDP connection. More...

virtual void	handle (SpikeEvent &e)
	Handle incoming spike events. More...

virtual void	handle (RateEvent &e)
	Handler for rate events. More...

virtual void	handle (DataLoggingRequest &e)
	Handler for universal data logging request. More...

virtual void	handle (DataLoggingReply &e)
	Handler for universal data logging request. More...

virtual void	handle (CurrentEvent &e)
	Handler for current events. More...

virtual void	handle (ConductanceEvent &e)
	Handler for conductance events. More...

virtual void	handle (DoubleDataEvent &e)
	Handler for DoubleData events. More...

virtual double_t	get_K_value (double_t t)
	return the Kminus value at t (in ms). More...

virtual void	get_K_values (double_t t, double_t &Kminus, double_t &triplet_Kminus)
	write the Kminus and triplet_Kminus values at t (in ms) to the provided locations. More...

virtual void	get_history (double_t t1, double_t t2, std::deque< histentry >::iterator start, std::deque< histentry >::iterator finish)
	return the spike history for (t1,t2]. More...

virtual void	event_hook (DSSpikeEvent &)
	Modify Event object parameters during event delivery. More...

virtual void	event_hook (DSCurrentEvent &)

void	set_thread (thread)
	Store the number of the thread to which the node is assigned. More...

thread	get_thread () const
	Retrieve the number of the thread to which the node is assigned. More...

void	set_vp (thread)
	Store the number of the virtual process to which the node is assigned. More...

thread	get_vp () const
	Retrieve the number of the virtual process to which the node is assigned. More...

void	set_model_id (int)
	Set the model id. More...

DictionaryDatum	get_status_base ()
	Return a dictionary with the node's properties. More...

void	set_status_base (const DictionaryDatum &)
	Set status dictionary of a node. More...

bool	is_model_prototype () const
	Returns true if node is model prototype. More...

void	set_thread_lid (const index)
	set thread local index More...

index	get_thread_lid () const
	get thread local index More...

bool	buffers_initialized () const
	True if buffers have been initialized. More...

void	set_buffers_initialized (bool initialized)

Protected Member Functions
template<class Ins >
void	communicate_positions_ (Ins iter, const Selector &filter)
	Communicate positions across MPI processes. More...

void	insert_global_positions_ntree_ (Ntree< D, index > &tree, const Selector &filter)
	Insert global position info into ntree. More...

void	insert_global_positions_vector_ (std::vector< std::pair< Position< D >, index > > &vec, const Selector &filter)
	Insert global position info into vector. More...

void	insert_local_positions_ntree_ (Ntree< D, index > &tree, const Selector &filter)
	Insert local position info into ntree. More...

Protected Member Functions inherited from nest::Layer< D >
void	clear_ntree_cache_ () const
	Clear the cache for global position information. More...

void	clear_vector_cache_ () const
	Clear the cache for global position information. More...

lockPTR< Ntree< D, index > >	do_get_global_positions_ntree_ (const Selector &filter)

Protected Member Functions inherited from nest::Subnet
void	init_node_ (const Node &)

void	init_state_ (const Node &)
	Private function to initialize the state of a node to model defaults. More...

void	init_buffers_ ()
	Private function to initialize the buffers of a node. More...

void	calibrate ()
	Re-calculate dependent parameters of the node. More...

void	update (Time const &, const long_t, const long_t)
	Bring the node from state $t$ to $t+n*dt$. More...

Protected Member Functions inherited from nest::Node
virtual size_t	num_thread_siblings_ () const
	Return the number of thread siblings in SiblingContainer. More...

virtual Node *	get_thread_sibling_ (index) const
	Return the specified member of a SiblingContainer. More...

virtual Node *	get_thread_sibling_safe_ (index) const
	Return specified member of a SiblingContainer, with access control. More...

Model &	get_model_ () const

void	set_frozen_ (bool frozen)
	Mark node as frozen. More...

template<typename ConcreteNode >
const ConcreteNode &	downcast (const Node &)
	Auxiliary function to downcast a Node to a concrete class derived from Node. More...

Protected Attributes
std::vector< Position< D > >	positions_
	Vector of positions. Should match node vector in Subnet. More...

Protected Attributes inherited from nest::Layer< D >
Position< D >	lower_left_
	lower left corner (minimum coordinates) of layer More...

Position< D >	extent_
	size of layer More...

std::bitset< D >	periodic_
	periodic b.c. More...

Protected Attributes inherited from nest::AbstractLayer
int_t	depth_
	number of neurons at each position More...

Protected Attributes inherited from nest::Subnet
vector< Node * >	nodes_
	Pointer to child nodes. More...

Multirange	gids_
	GIDs of global child nodes. More...

Additional Inherited Members
Static Public Member Functions inherited from nest::AbstractLayer
static index	create_layer (const DictionaryDatum &)
	Factory function for layers. More...

Static Public Member Functions inherited from nest::Node
static Network *	network ()
	Return pointer to network driver class. More...

Static Protected Attributes inherited from nest::Layer< D >
static lockPTR< Ntree< D, index > >	cached_ntree_
	Global position information for a single layer. More...

static std::vector< std::pair < Position< D >, index > > *	cached_vector_ = 0

static Selector	cached_selector_

Static Protected Attributes inherited from nest::AbstractLayer
static index	cached_ntree_layer_ = -1
	GID for the single layer for which we cache global position information. More...

static index	cached_vector_layer_ = -1
	GID for the single layer for which we cache global position information. More...

Static Protected Attributes inherited from nest::Node
static Network *	net_ =NULL
	Pointer to global network driver. More...