neuron 7.5-1 / usr / share / nrn / lib / hoc / electrod.hoc

/*
?0 UserClasses Electrode

An current injection electrode inserted in the middle of the
current section which can be switched between current and voltage
clamp modes and can do simple voltage clamp families.

usage: section e = new Electrode([xplacement, yplacement])
e.stim and e.vc can used to set parameters programatically.

Electrode can be saved in a .session file and is best used
anonymously so that it is dismissed and point processes deleted
when the graphic is dismissed.

?1 IClamp
Switches the Electrode to single pulse current injection. Uses IClamp
point process.

? del
Time (ms) of the onset of the current stimulus relative to t = 0.
? dur
Duration (ms) of the current stimulus
? amp
Amplitude (nA) of the current stimulus

?1 VClamp
Switches the Electrode to two electrode voltage clamp. Uses VClamp point
process that allows up to three level changes. The clamp is set to be ideal.

?2 dur0 dur1 dur2
Duration in milliseconds of each level change starting at t=0. Each level
is concatenated. At t = dur0+dur1+dur2 the clamp is switched off and
no longer injects current.

?2 amp0 amp1 amp2
Amplitude in millivolts of each level.

? VClampigraph
Creates a currentgraph displaying the voltage clamp current. This button
exists because, with the present implementation, it is generally not
possible to reference the Electrode object from hoc because the only reference
is held by a vbox which in turn is only referenced by this Electrode. In
this way, when the Electrode window is dismissed, the Electrode is
destroyed and the point processes are removed from the neuron.

?1 VClampFamily
Several common families for voltage clamp experiments. One should bring
up a current graph (VClampigraph button in VClamp card) and select KeepLines
in the graph popup menu. Only one clamp parameter is changed and the other
duration and amplitude levels are given by the values set in the VClamp panel
See User HocCode Electrode varyamp for the how the levels are varied.

? Conditioning
varies amp0 in 10 steps. Initialization is carried out at the value of amp0
so it is equivalent to the holding potential.

? Testlevel
varies amp1 in 10 steps

? Returnlevel
varies amp2 in 10 steps.


?1 Location
Shows a Shape scene of the neuron with the Electrode location marked as
a blue dot. The electrode location can be changed by making sure the
Section item in the selection menu is selected (right mouse button) and
pressing the left mouse button at any point on the picture of the neuron.
The position of the electrode is also reflected in the varlabel in the panel
just above the Shape.

?0 User HocCode Electrode
*/

help ?0

begintemplate Electrode
public stim, vc, unmap, map, v1, installIclamp
external run, set_v_init, stoppedrun, addplot

objectvar stim, vc, v1, d1, this, shape, g
strdef durstr, ampstr, tempstr, grname, string1,string2,string3
double vdur[3]
double vamp[3]

proc set_vclamp() {
	setstring()
        for i=0,2 {vc.dur[i] = vdur[i]   vc.amp[i] = vamp[i]}
}
proc store_vclamp() {
        for i=0,2 {vdur[i] = vc.dur[i]  vamp[i] = vc.amp[i]}
}

proc installVclamp() {local i
	set_vclamp()
	if (is_cl == 0) {
		samp=stim.amp  stim.amp=0
		is_cl = 1
	}
	d1.flip_to(0)
}
proc installIclamp() {local i
	if (is_cl == 1) {
	        stim.amp = samp
	        for i=0,2 {vc.dur[i] = -1}
		is_cl = 0
	}
	d1.flip_to(1)
}
proc installFamily() {
	installVclamp()
	d1.flip_to(2)
	sprint(durstr, "dur %g %g %g", vdur[0], vdur[1], vdur[2])
	sprint(ampstr, "amp %g %g %g", vamp[0], vamp[1], vamp[2])
}

strdef sec
strdef location

proc init() {local i
	can_locate = 1
	sectionname(sec)
	xloc=.5
	sprint(location, "%s(%g)", sec, xloc)
	stim = new IClamp(.5)
	stim.del=.1 stim.dur=.1 stim.amp=0
	vc = new VClamp(.5)
	sprint(grname, "%s Graph", vc)
	vc.dur[0]=.1  vc.amp[0]=-65  vc.dur[1] = 2.5 vc.amp[1]=10
	vc.dur[2]=100 vc.amp[2]=-65
	vcincrement=10		//jwm added 7/24/97
	vcsteps=5		//jwm added 7/24/97
	if (numarg() == 1) {
		if ($1 == 0) {
			return
		}
	}
	map()
}

proc locate() {
	if ($1 == 1 && can_locate == 1) {
		d1.flip_to(3)
		return
	}else{
		push_section(sec)
		hoc_ac_ = xloc
		move()
		pop_section()
	}
}

proc move() {
	xloc = hoc_ac_
	if (object_id(shape)) {
		shape.select()
	}
	stim.loc(xloc)
	vc.loc(xloc)
	sectionname(sec)
	sprint(location, "%s(%g)", sec, xloc)
}
// setstring procedure added to provide text info for Vclamp Family Panel
proc setstring(){
	sprint(string1, " Starting at %g mV for %g ms",vamp[0],vdur[0])
	sprint(string3, " starting at %g mV for %g ms",vamp[2],vdur[2])
	sprint(string2, " starting at %g mV for %g ms",vamp[1],vdur[1])
}
proc glyph() {
	// v1 is the main box and contains a panel and deck
	v1 = new VBox()
	v1.priority(990)
	v1.ref(this)
	v1.save("save()")
	v1.intercept(1)
	xpanel("Electrode")
		xradiobutton("IClamp", "installIclamp()")
		xradiobutton("VClamp", "installVclamp()")
		xradiobutton("VClamp Family", "installFamily()")
		if (can_locate) {
			xradiobutton("Location", "locate(1)")
		}
		xvarlabel(location)
	xpanel()
	v1.intercept(0)
	d1 = new Deck()
	d1.intercept(1)
		xpanel("VClamp")
			sprint(tempstr, "%s pulses", vc)
			xlabel(tempstr)
			xlabel("Conditioning Level")
			sprint(tempstr, "duration , ms", 0)
			xpvalue(tempstr, &vdur[0], 1, "set_vclamp()")
			sprint(tempstr, "amplitude %d, mV ", 0)
			xpvalue(tempstr, &vamp[0], 1, "set_vclamp()")
			xlabel("Testing Level")
			sprint(tempstr, "duration , ms", 1)
			xpvalue(tempstr, &vdur[1], 1, "set_vclamp()")
			sprint(tempstr, "amplitude , mV ", 1)
			xpvalue(tempstr, &vamp[1], 1, "set_vclamp()")
			xlabel("Return Level")
			sprint(tempstr, "duration , ms", 2)
			xpvalue(tempstr, &vdur[2], 1, "set_vclamp()")
			sprint(tempstr, "amplitude , mV ", 1)
			xpvalue(tempstr, &vamp[2], 1, "set_vclamp()")
			xbutton("VClamp.i graph", "mkgraph()")
		xpanel()
		xpanel("IClamp")
			sprint(tempstr, "%s pulse", stim)
			xlabel(tempstr)
			xpvalue("delay in ms", &stim.del, 1)
			xpvalue("duration, ms", &stim.dur, 1)
			xpvalue("amplitude, nA", &stim.amp, 1)
		xpanel()
		xpanel("VClampFamily")
			sprint(tempstr, "%s Families", vc)
			xlabel(tempstr)
			sprint(tempstr, "Set initial values in 'VClamp'", vc)
			xlabel(tempstr)
			xbutton("Vary Conditioning level","varyamp(0)")	
			xvarlabel(string1)
			xbutton("Vary Test level", "varyamp(1)")			
			xvarlabel(string2)
			xbutton("Vary Return level","varyamp(2)")			
			xvarlabel(string3)
			sprint(tempstr, " ")
			xlabel(tempstr)
			sprint(tempstr, "Family parameters", vc)
			xlabel(tempstr)
			xpvalue("# of steps ",&vcsteps,1)
			xpvalue("# mV/step ",&vcincrement,1)
		xpanel()
		if (can_locate) {
			shape = new Shape()
			shape.point_mark(stim, 3)
			shape.action("move()")
			locate(0)
		}
	d1.intercept(0)
	v1.intercept(1)
	d1.map()
	v1.intercept(0)
	installVclamp()
	installIclamp()
	if (can_locate) {
		d1.flip_to(3)
	}
}

objectvar grbox
proc mkgraph() {
	grbox = new VBox()
	grbox.save("")
	grbox.intercept(1)
	g = new Graph()
	g.addvar("vc.i")
	grbox.intercept(0)
	grbox.map(grname)
	addplot(g, 0)
}

proc varyamp() {local i, x, x1, x2, dx, old
	dx=vcincrement
	i = $1
	set_vclamp()
	old = set_v_init()
	if (i == 0) {
		x1 = vamp[0]     //jwm 10/10/97     -100
	}else if (i == 1) {
		x1 = vamp[1]     //jwm 10/10/97      -50 
	}else{
		x1=vamp[2]        //jwm 10/10/97     -100 
	}
	for j=0,vcsteps {
		x=x1+j*dx
		vc.amp[i] = x
		if (i == 0) {
			set_v_init(x)
		}
		run()
		if (stoppedrun()) {
			break
		}
		set_v_init(old)
	}
}

proc varydur() {
	set_vclamp()
}

proc map() {
	samp = stim.amp
	store_vclamp()
	glyph()
	if (numarg() == 2) {
		v1.map("I/V Clamp Electrode", $1, $2, 100, 100)
	}else{
		v1.map("I/V Clamp Electrode")
	}
}

proc unmap() {
	v1.unmap()
}

proc save() {local i
	v1.save("load_file(\"electrod.hoc\")\n}\n{") //has to be executed first
	v1.save("ocbox_=new Electrode(0)")
	sprint(tempstr, "can_locate=%d sec=\\\"%s\\\" xloc=%g locate(0)",\
		can_locate, sec, xloc)
	v1.save(tempstr, "ocbox_")	//execute in scope of the object
	installVclamp()
	for i=0,2 {
		sprint(tempstr, "vc.dur[%d]=%g vc.amp[%d]=%g",\
			 i, vc.dur[i], i, vc.amp[i])
		v1.save(tempstr, "ocbox_")
	}
	installIclamp()
	sprint(tempstr, "stim.del=%g stim.dur=%g stim.amp=%g",\
		stim.del, stim.dur, stim.amp)
	v1.save(tempstr, "ocbox_")
	sprint(tempstr, "vcincrement=%g", vcincrement)
	sprint(tempstr, "vcsteps=%g", vcsteps)
	v1.save(tempstr, "ocbox_")
	v1.save("samp=stim.amp  store_vclamp() glyph()", "ocbox_")
	v1.save("ocbox_ = ocbox_.v1")
}

endtemplate Electrode

objectvar tempobj
proc makeelectrode() {
	if(!execute1("v", 0)) {
		continue_dialog("No accessed section: Can't start an Electrode")
		return
	}
	tempobj = new Electrode()
	objectvar tempobj
}