Implements a voltage clamp for one neuron and records the clamp current. More...

#include <VoltageClampMonitor.h>

Inheritance diagram for auryn::VoltageClampMonitor:

Collaboration diagram for auryn::VoltageClampMonitor:

Public Member Functions
	VoltageClampMonitor (NeuronGroup *source, NeuronID id, string filename)
	Default constructor. More...

virtual	~VoltageClampMonitor ()
	The default destructor. More...

void	execute ()

Public Member Functions inherited from auryn::VoltageMonitor
	VoltageMonitor (NeuronGroup *source, NeuronID id, string filename, AurynDouble stepsize=auryn_timestep)

virtual	~VoltageMonitor ()

void	execute ()

Public Member Functions inherited from auryn::StateMonitor
	StateMonitor (SpikingGroup *source, NeuronID id, string statename, string filename, AurynDouble sampling_interval=auryn_timestep)
	Standard constructor. More...

	StateMonitor (AurynStateVector *state, NeuronID id, string filename, AurynDouble sampling_interval=auryn_timestep)
	Alternative constructor. More...

	StateMonitor (AurynSynStateVector *state, NeuronID id, string filename, AurynDouble sampling_interval=auryn_timestep)
	Alternative constructor for synaptic states. More...

	StateMonitor (Trace *trace, NeuronID id, string filename, AurynDouble sampling_interval=auryn_timestep)
	Trace constructor. More...

void	record_for (AurynDouble time=10.0)
	Sets relative time at which to stop recording. More...

void	set_stop_time (AurynDouble time=10.0)
	Set an absolute time when to stop recording. More...

void	set_step_size (int step=1)
	Sets the step size. More...

virtual	~StateMonitor ()

Public Member Functions inherited from auryn::Monitor
virtual void	flush ()
	Flush to file. More...

	Monitor (std::string filename, std::string default_extension="dat")
	Standard constructor with file name. More...

	Monitor ()
	Constructor which does not open a text file for output. More...

std::string	generate_filename (std::string name_hint="")
	Generates a default filename from the device ID. More...

virtual	~Monitor ()
	Standard destructor. More...

Public Member Functions inherited from auryn::Device
	Device ()
	Standard constructor. More...

void	set_name (std::string s)
	Set device name. More...

std::string	get_name ()
	Get device name. More...

int	get_id ()
	Get numeric device id. More...

virtual	~Device ()
	Standard destructor. More...

virtual void	evolve ()

Public Attributes
bool	clamp_enabled
	Clamp active. More...

AurynState	clamping_voltage
	The clamping voltage. More...

Public Attributes inherited from auryn::VoltageMonitor
AurynTime	paste_spikes
	Paste spikes switch (default = true) More...

Public Attributes inherited from auryn::StateMonitor
bool	enable_compression
	Switch to enable/disable output compression. More...

Public Attributes inherited from auryn::Monitor
bool	active
	Standard active switch. More...

Public Attributes inherited from auryn::Device
bool	active
	Standard active switch. More...

Additional Inherited Members
Protected Member Functions inherited from auryn::VoltageMonitor
void	init ()
	Standard initialization. More...

Protected Member Functions inherited from auryn::StateMonitor
void	init (string filename, AurynDouble stepsize)
	Standard initialization. More...

Protected Member Functions inherited from auryn::Monitor
virtual void	open_output_file (std::string filename)

virtual void	virtual_serialize (boost::archive::binary_oarchive &ar, const unsigned int version)

virtual void	virtual_serialize (boost::archive::binary_iarchive &ar, const unsigned int version)

Protected Member Functions inherited from auryn::Device
void	init ()
	Standard initializer to be called by the constructor. More...

Protected Attributes inherited from auryn::StateMonitor
SpikingGroup *	src
	The source SpikingGroup to record from. More...

AurynState *	target_variable
	Target variable. More...

AurynState	lastval
	Last value (used for compression) More...

AurynState	lastder

NeuronID	nid
	The source neuron id to record from. More...

AurynTime	ssize
	The step size (sampling interval) in units of auryn_timestep. More...

AurynTime	t_stop
	Defines the maximum recording time in AurynTime to save space. More...

Protected Attributes inherited from auryn::Monitor
std::ofstream	outfile

std::string	fname

std::string	default_file_extension

Protected Attributes inherited from auryn::Device
std::string	device_name
	Identifying name for device. More...

Detailed Description

Implements a voltage clamp for one neuron and records the clamp current.

The Monitor puts a single cell in voltage clamp and records the membrane current required ot keep the clamp.

Constructor & Destructor Documentation

◆ VoltageClampMonitor()

VoltageClampMonitor::VoltageClampMonitor	(	NeuronGroup *	source,
		NeuronID	id,
		std::string	filename
	)

Default constructor.

Parameters

source	The group to record and clamp
id	The neuron id to operate on
filename	The filename to write the clamp current to

                                                                                               : VoltageMonitor(source, id, filename)
 {
         clamping_voltage = -70e-3;
         clamp_enabled = true;
 }

◆ ~VoltageClampMonitor()

VoltageClampMonitor::~VoltageClampMonitor ( )

virtual

The default destructor.

37 {

38 }

Member Function Documentation

◆ execute()

void VoltageClampMonitor::execute ( )

virtual

Virtual execute function to be called at the end of central simulation loop in System

Reimplemented from auryn::StateMonitor.

 {
         if ( clamp_enabled && auryn::sys->get_clock() < t_stop ) {
                 AurynState * voltage = target_variable;
                 AurynState pseudo_current = clamping_voltage-*voltage;
                 // TODO a unitful quantity would be nice here ... 
                 *voltage += pseudo_current;
                 outfile << (auryn::sys->get_time()) << " " << pseudo_current << "\n";
         }
 }

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Member Data Documentation

◆ clamp_enabled

bool auryn::VoltageClampMonitor::clamp_enabled

Clamp active.

◆ clamping_voltage

AurynState auryn::VoltageClampMonitor::clamping_voltage

The clamping voltage.

The documentation for this class was generated from the following files:

/home/zenke/auryn/src/auryn/VoltageClampMonitor.h
/home/zenke/auryn/src/auryn/VoltageClampMonitor.cpp

Public Member Functions

Public Attributes

Additional Inherited Members