// Action Bar description file :Kalensbar
//Added OJ prefs 12/2/14 KB
//Moved code out into sub functions 7-11-17


run("Action Bar","/plugins/ActionBar/_Kalensbar.txt");
exit();
<startupAction>
run("Action Bar","/plugins/ActionBar/_Kalensbar.txt");
</startupAction>

<sticky>
<line>
<button>
label=Close this bar
icon=noicon
arg=<close>
</line>

<line>
<button>
label= Initialize ObjectJ Columns
	icon=noicon
	arg=<macro>
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Initialize objectJ Column.ijm");
</macro>
</line>
<line>
<button>
label=Toggle Track Changes
	icon=noicon
	arg=<macro>
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Toggle Track Changes.ijm");
</macro>
</line>


<line>
<button>
	label=Export OJ Data
	icon=noicon
	arg=<macro>
	
	runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Export OJ Data.ijm");
</macro>
</line>

<line>
<button>
	label=Overlay Markers
	icon=noicon
	arg=<macro>	
	runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/OverlayMarkers.ijm");
</macro>
</line>

<line>
<button>
	label=Normalize Post Synaptic Labels to cell fill
	icon=noicon
	arg=<macro>
	
	runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Normalize synaptic labe.ijm");
</macro>
</line>

<line>
<button>
	label=Normalize Pre Synaptic Labels to cell fill
	icon=noicon
	arg=<macro>	
	runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/presynapticNormalization.ijm");
</macro>
</line>


<line>
<button>
	label=Prev Object
	icon=noicon
	arg=<macro>
	
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Change Object.ijm","Prev");
</macro>
</line>


<line>
<button>
	label=Center Current Object
	icon=noicon
	arg=<macro>
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Change Object.ijm","Center");
</macro>
</line>


<line>
<button>
	label= Next Obj
	icon=noicon
	arg=<macro>
	
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Change Object.ijm","Next");
</macro>

</line>

<line>
<button>
	label= Prev Image
	icon=noicon
	arg=<macro>
		
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Change Image.ijm","Prev");
</macro>
</line>

<line>
<button>
	label= Next image
	icon=noicon
	arg=<macro>
	print('Next');
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Change Image.ijm","Next");
</macro>
</line>


<line>
<button>
	label= Delete Current Object
	icon=noicon
	arg=<macro>		
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Delete Current Object.ijm");	
</macro>
</line>

<line>
<button>
	label= Ch1
	icon=noicon
	arg=<macro>	
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Change Channel.ijm",1);	
</macro>
</line>

<line>
<button>
	label= Ch2
	icon=noicon
	arg=<macro>	
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Change Channel.ijm",2);	
</macro>
</line>

<line>
<button>
	label= Ch3
	icon=noicon
	arg=<macro>	
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Change Channel.ijm",3);	
</macro>
</line>
<line>

<line>
<button>
	label= Ch4
	icon=noicon
	arg=<macro>	
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Change Channel.ijm",4);	
</macro>
</line>
<line>

<line>
<button>
	label= Ch5
	icon=noicon
	arg=<macro>	
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Change Channel.ijm",5);	
</macro>
</line>
<line>


<line>
<button>
	label=Bring OJ Tools menu forward
	icon=noicon
	arg=<macro>	
	ojShowTools()
</macro>
</line>

<line>
<button>

	label= Add Note
	icon=noicon
	arg=<macro>
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Add Note.ijm");	
</macro>
</line>

<line>
<button>
	label= Toggle Bookmark / Unsure
	icon=noicon
	arg=<macro>	
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Toggle Bookmark or Unsure.ijm");	
</macro>
</line>



<line>
<button>
	label=Apply Current Zoom
 To All Images
	icon=noicon
	arg=<macro>	
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Apply Zoom.ijm");	
</macro>
</line>

<line>
<button>
	label=Save Project
	icon=noicon
	arg=<macro>	
		ojSaveProject();
		showMessage("Project Saved");
		
</macro>
</line>


<line>
<button>
	label=Turn on Synapse History View
	icon=noicon
	arg=<macro>	
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Synapse History View.ijm");	
</macro>
</line>



<line>
<button>
	label=Highlight dynamic synapses
	icon=noicon
	arg=<macro>		
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Highlight Dynamic Synapses.ijm");	
</macro>
</line>


<line>
<button>
	label=Highlight edited synapses
	icon=noicon
	arg=<macro>		
		runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Highlight Edited Synapse.ijm");	
</macro>
</line>

<line>
<button>
	label=Highlight All Synapses
	icon=noicon
	arg=<macro>	

		for (i=0; i<ojNObjects(); i++){
			ojQualify(i, true);
		}
		
</macro>
</line>

<line>
<button>
	label=Insert Landmarks
	icon=noicon
	arg=run("Action Bar","/plugins/ActionBar/Insert_New_Landmarks.txt");	
</line>

<line>
<button>
	label=Copy marks from one session to another
	icon=noicon
	arg=run("Action Bar","/plugins/ActionBar/Copy_Paste_Between_ojj_files.txt");	

</macro>
</line>

<line>
<button>
	label=Edit ObjectJ Settings
	icon=noicon
	arg=<macro>	
	runMacro( getDirectory("plugins") + "/ActionBar/kalensbar_subfunctions/Edit OJ Prefs.ijm");	
	
</macro>
</line>
</sticky>


<codeLibrary>

function ojQualifyApply(rowArray,flag){	
			for (i=0; i<lengthOf(rowArray); i++){
				if(rowArray[i]>0){
					ojQualify(rowArray[i], flag);
				}
			}
		}


function markernamesFromColumnnames() {

	markers = newArray(ojNColumns());
	index=0;
	for (i=1;i<=ojNColumns();i++){
		if(endsWith(ojGetColumnTitle(i),"xpos")){
			markers[index]=substring(ojGetColumnTitle(i), 0, indexOf(ojGetColumnTitle(i), "_"));//find the name before the _
			index++;
		}
	}
	markers=Array.trim(markers,index);
	return markers;

}


function goToOjnumAll(ojnum){

        currentimage=ojImageLink();
		firstoncurrentimage=ojFirstObject(currentimage);
		zoom=getZoom();
		
		totalimages=ojNImages();
		for (n=1; n<=totalimages; n++){
			if(n != currentimage){
				if(ojGetImageValue(n, "ID")!=0){
					ojShowImage(n);
					firstonimage=ojFirstObject(n);
					ojToShow=ojnum+firstonimage-1;
					
					if (ojToShow<=ojLastObject(n)&& ojToShow>0) {
						ojShowObject(ojToShow);
						yoj=ojYPos(1);
						xoj=ojXPos(1);
						ojZoom(zoom,xoj,yoj);
					}
				}
			
			}
		// To return the view to the start
		}
			
		ojShowImage(currentimage);
		ojToShow=ojnum+firstoncurrentimage-1;
		if(ojToShow>0)
			ojShowObject(ojToShow);
		yoj=ojYPos(1);
		xoj=ojXPos(1);
		ojZoom(zoom,xoj,yoj);
			
}

</codeLibrary>