			classdef MyDaq < handle
			properties
			%Contains GUI handles
			Gui;
			%Contains Reference trace (MyTrace object)
			Ref;
			%Contains Data trace (MyTrace object)
			Data;
			%Contains Background trace (MyTrace object)
			Background;
			%Measurement headers (MyMetadata objects)
			RefHeader;
			DataHeader;
			%List of all the programs with run files
			ProgramList=struct();
			% List of running programs
			RunningPrograms=struct();
			%Struct containing Cursor objects
			Cursors=struct();
			%Struct containing Cursor labels
			CrsLabels=struct();
			%Struct containing MyFit objects
			Fits=struct();
			%Input parser for class constructor
			ConstructionParser;
			%Struct for listeners
			Listeners=struct();


			%Sets the colors of fits, data and reference
			fit_color='k';
			data_color='b';
			ref_color='r';
			bg_color='c';

			%Flag for enabling the GUI
			enable_gui;
			end

			properties (Dependent=true)
			save_dir;
			main_plot;
			open_fits;
			open_crs;
			running_progs;
			%Properties for saving files
			base_dir;
			session_name;
			filename;
			end

			methods (Access=public)
			%% Class functions
			%Constructor function
			function this=MyDaq(varargin)
			p=inputParser;
			addParameter(p,'enable_gui',1);
			addParameter(p,'daq_menu_handle',[])
			this.ConstructionParser=p;
			parse(p, varargin{:});

			%Sets the class variables to the inputs from the inputParser.
			for i=1:length(p.Parameters)
			%Takes the value from the inputParser to the appropriate
			%property.
			if isprop(this, p.Parameters{i})
			this.(p.Parameters{i})= p.Results.(p.Parameters{i});
			end
			end

			this.ProgramList = readRunFiles();

			if ~isempty(p.Results.daq_menu_handle)
			h_daq_menu=p.Results.daq_menu_handle;
			this.Listeners.Collector.NewHeaders=...
			addlistener(h_daq_menu.Collector,'NewMeasHeaders',...
			@(src,~) updateDataHeader(this,src));
			end

			if this.enable_gui
			this.Gui=guihandles(eval('GuiDaq'));
			initGui(this);
			% Initialize the menu based on the available run files
			content = menuFromRunFiles(this.ProgramList,...
			'show_in_daq',true);
			set(this.Gui.InstrMenu,'String',[{'Select the application'};...
			content.titles]);
			% Add a property to the menu for storing the program file
			% names
			if ~isprop(this.Gui.InstrMenu, 'ItemsData')
			addprop(this.Gui.InstrMenu, 'ItemsData');
			end
			set(this.Gui.InstrMenu,'ItemsData',[{''};...
			content.tags]);
			set(this.Gui.BaseDir,'String',this.base_dir);
			hold(this.main_plot,'on');
			end

			%Initializes empty trace objects
			this.Ref=MyTrace();
			this.Data=MyTrace();
			this.Background=MyTrace();

			%Initializes empty metadata object
			this.DataHeader=MyMetadata();
			this.RefHeader=MyMetadata();

			%Initializes saving locations
			this.base_dir=getLocalSettings('measurement_base_dir');
			this.session_name='placeholder';
			this.filename='placeholder';
			end

			function delete(this)
			%Deletes the MyFit objects and their listeners
			cellfun(@(x) deleteListeners(this,x), this.open_fits);
			structfun(@(x) delete(x), this.Fits);

			%Close the programs and delete their listeners
			cellfun(@(x) deleteListeners(this, x), this.running_progs);
			structfun(@(x) delete(x), this.RunningPrograms);

			%Deletes other listeners
			if ~isempty(fieldnames(this.Listeners))
			cellfun(@(x) deleteListeners(this, x),...
			fieldnames(this.Listeners));
			end

			if this.enable_gui
			this.Gui.figure1.CloseRequestFcn='';
			%Deletes the figure
			delete(this.Gui.figure1);
			%Removes the figure handle to prevent memory leaks
			this.Gui=[];
			end
			end
			end

			methods (Access=private)

			%Sets callback functions for the GUI
			initGui(this)

			%Executes when the GUI is closed
			function closeFigure(this,~,~)
			delete(this);
			end

			function updateDataHeader(this, Collector)
			this.DataHeader=Collector.MeasHeaders;
			end

			%Updates fits
			function updateFits(this)
			%Pushes data into fits in the form of MyTrace objects, so that
			%units etc follow. Also updates user supplied parameters.
			for i=1:length(this.open_fits)
			switch this.open_fits{i}
			case {'Linear','Quadratic','Gaussian',...
			'Exponential','Beta'}
			this.Fits.(this.open_fits{i}).Data=...
			getFitData(this,'VertData');
			case {'Lorentzian','DoubleLorentzian'}
			this.Fits.(this.open_fits{i}).Data=...
			getFitData(this,'VertData');
			if isfield(this.Cursors,'VertRef')
			ind=findCursorData(this,'Data','VertRef');
			this.Fits.(this.open_fits{i}).CalVals.line_spacing=...
			range(this.Data.x(ind));
			end
			case {'G0'}
			this.Fits.G0.MechTrace=getFitData(this,'VertData');
			this.Fits.G0.CalTrace=getFitData(this,'VertRef');
			end
			end
			end

			% If vertical cursors are on, takes only data
			%within cursors.
			%If the cursor is not open, it takes all the data from the selected
			%trace in the analysis trace selection dropdown
			function Trace=getFitData(this,varargin)
			%Parses varargin input
			p=inputParser;
			addOptional(p,'name','',@ischar);
			parse(p,varargin{:})
			name=p.Results.name;

			%Finds out which trace the user wants to fit.
			trc_opts=this.Gui.SelTrace.String;
			trc_str=trc_opts{this.Gui.SelTrace.Value};
			% Note the use of copy here! This is a handle
			%class, so if normal assignment is used, this.Fits.Data and
			%this.(trace_str) will refer to the same object, causing roblems.
			%Name input is the name of the cursor to be used to extract data.
			Trace=copy(this.(trc_str));
			if isfield(this.Cursors,name)
			ind=findCursorData(this, trc_str, name);
			Trace.x=this.(trc_str).x(ind);
			Trace.y=this.(trc_str).y(ind);
			end
			end

			%Finds data between named cursors in the given trace
			function ind=findCursorData(this, trc_str, name)
			crs_pos=sort([this.Cursors.(name){1}.Location,...
			this.Cursors.(name){2}.Location]);
			ind=(this.(trc_str).x>crs_pos(1) & this.(trc_str).x<crs_pos(2));
			end

			%Creates either horizontal or vertical cursors
			function createCursors(this,name,type)
			%Checks that the cursors are of valid type
			assert(strcmp(type,'Horz') \|\| strcmp(type,'Vert'),...
			'Cursorbars must be vertical or horizontal.');

			%Sets the correct color for the cursor
			switch name
			case 'HorzData'
			color=[0,0,1];
			crs_type='Horizontal';
			case 'VertData'
			color=[1,0,0];
			crs_type='Vertical';
			case 'VertRef'
			color=[0.5,0,0.5];
			crs_type='Vertical';
			end

			%Creates first cursor
			this.Cursors.(name){1}=cursorbar(this.main_plot,...
			'TargetMarkerStyle','none',...
			'ShowText','off','CursorLineWidth',0.5,...
			'Orientation',crs_type,'Tag',sprintf('%s1',name));
			%Creates second cursor
			this.Cursors.(name){2}=this.Cursors.(name){1}.duplicate;
			set(this.Cursors.(name){2},'Tag',sprintf('%s2',name))
			%Sets the cursor colors
			cellfun(@(x) setCursorColor(x, color),this.Cursors.(name));
			%Makes labels for the cursors
			labelCursors(this,name,type,color);
			addCursorListeners(this,name,type);
			cellfun(@(x) notify(x, 'UpdateCursorBar'), this.Cursors.(name));
			end

			%Labels cursors of a certain type and color
			function labelCursors(this, name, type, color)
			switch name
			case {'VertData', 'HorzData'}
			lbl_str=name(1);
			case {'VertRef'}
			lbl_str='R';
			end
			%Creates text boxes in a placeholder position
			this.CrsLabels.(name)=cellfun(@(x) text(0,0,...
			[lbl_str,x.Tag(end)]),this.Cursors.(name),...
			'UniformOutput',0);
			%Sets colors and properties on the labels.
			cellfun(@(x) set(x,'Color',color,'EdgeColor',color,...
			'FontWeight','bold','FontSize',10,...
			'HorizontalAlignment','center',...
			'VerticalAlignment','middle'), this.CrsLabels.(name));
			positionCursorLabels(this, name, type);
			end

			%Resets the position of the labels
			function positionCursorLabels(this, name, type)
			switch type
			case {'Horz','horizontal'}
			%To set the offset off the side of the axes
			xlim=get(this.main_plot,'XLim');
			%Empirically determined nice point for labels
			scale=1.03;
			if this.Gui.LogX.Value
			scale_log=((10^scale)/10)^(log10(xlim(2)/xlim(1)));
			xloc=scale_logxlim(2)-(scale_log-1)xlim(1);
			else
			xloc=scalexlim(2)-(scale-1)xlim(1);
			end
			%Sets the position of the cursor labels
			cellfun(@(x,y) set(x, 'Position',...
			[xloc,y.Location,0]),...
			this.CrsLabels.(name),this.Cursors.(name));

			case {'Vert','vertical'}
			%To set the offset off the top of the axes
			ylim=get(this.main_plot,'YLim');
			%Empirically determined nice point for labels
			scale=1.05;
			if this.Gui.LogY.Value
			scale_log=((10^scale)/10)^(log10(ylim(2)/ylim(1)));
			yloc=scale_logylim(2)-(scale_log-1)ylim(1);
			else
			yloc=scaleylim(2)-(scale-1)ylim(1);
			end
			%Sets the position of the cursor labels
			cellfun(@(x,y) set(x, 'Position',...
			[y.Location,yloc,0]),...
			this.CrsLabels.(name),this.Cursors.(name));
			end
			%Setting the position causes the line to update
			cellfun(@(x) set(x, 'Location', x.Location),...
			this.Cursors.(name));
			end

			%Adds listeners for cursors
			function addCursorListeners(this,name,type)
			switch type
			case {'Horz','horizontal'}
			%Sets the update function of the cursor to move the
			%text.
			this.Listeners.(name).Update=cellfun(@(x) ...
			addlistener(x,'UpdateCursorBar',...
			@(src, ~) horzCursorUpdate(this, src)),...
			this.Cursors.(name),'UniformOutput',0);
			case {'Vert','vertical'}
			%Sets the update function of the cursors to move the
			%text
			this.Listeners.(name).Update=cellfun(@(x) ...
			addlistener(x,'UpdateCursorBar',...
			@(src, ~) vertCursorUpdate(this, src)),...
			this.Cursors.(name),'UniformOutput',0);
			%Sets the update function for end drag to update fits
			this.Listeners.(name).EndDrag=cellfun(@(x) ...
			addlistener(x,'EndDrag',...
			@(~,~) updateFits(this)),this.Cursors.(name),...
			'UniformOutput',0);
			end
			end

			%Updates the cursors to fill the axes
			function updateCursors(this)
			for i=1:length(this.open_crs)
			type=this.Cursors.(this.open_crs{i}){1}.Orientation;
			name=this.open_crs{i};
			switch type
			case 'vertical'
			cellfun(@(x) set(x.TopHandle, 'YData',...
			this.main_plot.YLim(2)), this.Cursors.(name));
			cellfun(@(x) set(x.BottomHandle, 'YData',...
			this.main_plot.YLim(1)), this.Cursors.(name));
			case 'horizontal'
			cellfun(@(x) set(x.TopHandle, 'XData',...
			this.main_plot.XLim(2)), this.Cursors.(name));
			cellfun(@(x) set(x.BottomHandle, 'XData',...
			this.main_plot.XLim(1)), this.Cursors.(name));
			end
			positionCursorLabels(this,name,type);
			end

			end

			%Deletes the cursors, their listeners and their labels.
			function deleteCursors(this, name)
			if contains(name,'Data')
			%Resets the edit boxes which contain cursor positions
			this.Gui.(sprintf('Edit%s1',name(1))).String='';
			this.Gui.(sprintf('Edit%s2',name(1))).String='';
			this.Gui.(sprintf('Edit%s2%s1',name(1),name(1))).String='';
			end
			%Deletes cursor listeners
			cellfun(@(x) deleteListeners(this,x.Tag), this.Cursors.(name));
			%Deletes the cursors themselves
			cellfun(@(x) delete(x), this.Cursors.(name));
			this.Cursors=rmfield(this.Cursors,name);
			%Deletes cursor labels
			cellfun(@(x) delete(x), this.CrsLabels.(name));
			this.CrsLabels=rmfield(this.CrsLabels,name);
			end

			function copyPlot(this)
			%Conditions sizes
			posn=this.main_plot.OuterPosition;
			posn=posn.*[1,1,0.82,1.1];
			%Creates a new figure, this is to avoid copying all the buttons
			%etc to the clipboard.
			newFig = figure('visible','off','Units',this.main_plot.Units,...
			'Position',posn);
			%Copies the current axes into the new figure.
			newHandle = copyobj(this.main_plot,newFig); %#ok<NASGU>
			%Prints the figure to the clipboard
			print(newFig,'-clipboard','-dbitmap');
			%Deletes the figure
			delete(newFig);
			end

			function updateAxis(this)
			axis(this.main_plot,'tight');
			end
			end

			methods (Access=public)
			%% Callbacks

			%Callback for copying the plot to clipboard
			function copyPlotCallback(this,~,~)
			copyPlot(this);
			end

			%Callback for centering cursors
			function centerCursorsCallback(this, ~, ~)
			if ~this.Gui.LogX.Value
			x_pos=mean(this.main_plot.XLim);
			else
			x_pos=10^(mean(log10(this.main_plot.XLim)));
			end

			if ~this.Gui.LogY.Value
			y_pos=mean(this.main_plot.YLim);
			else
			y_pos=10^(mean(log10(this.main_plot.YLim)));
			end

			for i=1:length(this.open_crs)
			switch this.Cursors.(this.open_crs{i}){1}.Orientation
			case 'horizontal'
			pos=y_pos;
			case 'vertical'
			pos=x_pos;
			end

			%Centers the position
			cellfun(@(x) set(x,'Location',pos), ...
			this.Cursors.(this.open_crs{i}));
			%Triggers the UpdateCursorBar event, which triggers
			%listener callback to reposition text
			cellfun(@(x) notify(x,'UpdateCursorBar'),...
			this.Cursors.(this.open_crs{i}));
			cellfun(@(x) notify(x,'EndDrag'),...
			this.Cursors.(this.open_crs{i}));
			end
			end

			%Callback for creating vertical data cursors
			function cursorButtonCallback(this, hObject, ~)
			name=erase(hObject.Tag,'Button');
			%Gets the first four characters of the tag (Vert or Horz)
			type=name(1:4);

			if hObject.Value
			hObject.BackgroundColor=[0,1,0.2];
			createCursors(this,name,type);
			else
			hObject.BackgroundColor=[0.941,0.941,0.941];
			deleteCursors(this,name);
			end
			end

			%Callback for the instrument menu
			function instrMenuCallback(this,hObject,~)
			val=hObject.Value;
			if val==1
			%Returns if we are on the dummy option ('Select instrument')
			return
			else
			tag = hObject.ItemsData{val};
			end

			% Run-files themselves are supposed to prevent duplicated
			% instances, but let DAQ handle it as well for safety
			if ismember(tag, this.running_progs) && ...
			isvalid(this.RunningPrograms.(tag))
			% Change focus to the instrument control window
			fig_handle = findfigure(this.RunningPrograms.(tag));
			% If unable, try the same for .Gui object inside
			if isempty(fig_handle) && ...
			isprop(this.RunningPrograms.(tag),'Gui')
			fig_handle =...
			findfigure(this.RunningPrograms.(tag).Gui);
			end

			if ~isempty(fig_handle)
			fig_handle.Visible='off';
			fig_handle.Visible='on';
			return
			else
			warning('%s shows as open, but no open GUI was found',...
			tag);
			return
			end

			end

			try
			[~, fname, ~] = fileparts(this.ProgramList.(tag).fullname);
			prog = feval(fname);
			this.RunningPrograms.(tag) = evalin('base', prog);
			catch
			error('Cannot run %s', this.ProgramList.(tag).fullname)
			end

			% Add listeners to the NewData and ObjectBeingDestroyed events
			if contains('NewData',events(this.RunningPrograms.(tag)))
			this.Listeners.(tag).NewData=...
			addlistener(this.RunningPrograms.(tag),'NewData',...
			@(src, eventdata) acquireNewData(this, src, eventdata));
			% Compatibility with apps, which have .Instr property
			elseif isprop(this.RunningPrograms.(tag),'Instr') && ...
			contains('NewData',events(this.RunningPrograms.(tag).Instr))
			this.Listeners.(tag).NewData=...
			addlistener(this.RunningPrograms.(tag).Instr,'NewData',...
			@(src, eventdata) acquireNewData(this, src, eventdata));
			else
			warning(['No NewData event found, %s cannot transfer',...
			' data to the DAQ'],tag);
			end

			this.Listeners.(tag).Deletion=...
			addlistener(this.RunningPrograms.(tag),...
			'ObjectBeingDestroyed',...
			@(src, eventdata) removeProgram(this, src, eventdata));
			end

			%Select trace callback
			function selTraceCallback(this, ~, ~)
			updateFits(this)
			end

			%Saves the data if the save data button is pressed.
			function saveCallback(this, src, ~)
			switch src.Tag
			case 'SaveData'
			saveTrace(this,'Data');
			case 'SaveRef'
			saveTrace(this,'Ref');
			end
			end

			function saveTrace(this, trace_tag)
			header_tag=sprintf('%sHeader',trace_tag);
			fullfilename=fullfile(this.save_dir,[this.filename,'.txt']);
			if ~this.(trace_tag).validatePlot
			errordlg(sprintf('%s trace was empty, could not save',trace_tag));
			return
			end

			if strcmp(this.(trace_tag).uid,this.(header_tag).uid)
			header_flag=true;
			else
			quest_str=sprintf(['UID of Header is %s, while the ',...
			'UID of Trace is %s'],...
			this.(trace_tag).uid,this.(header_tag).uid);
			choice= questdlg(quest_str,...
			'UID of header does not match data',...
			'Yes, write headers anyway',...
			'No, continue without headers',...
			'Cancel write','Cancel write');
			switch choice
			case 'Yes, write headers anyway'
			header_flag=true;
			fprintf('Writing %s with headers \n',fullfilename);
			case 'No, continue without headers'
			header_flag=false;
			fprintf('Writing %s without headers \n',fullfilename);
			case {'Cancel write',''}
			warning(['No file written to %s as headers did ',...
			'not match trace'],fullfilename)
			return
			end
			end

			%Creates the file without overwriting as a default
			write_flag=createFile(this.save_dir,fullfilename,false);

			%Returns if the file was not created
			if ~write_flag; return; end

			if header_flag
			writeAllHeaders(this.(header_tag),fullfilename);
			end

			writeData(this.(trace_tag),fullfilename)
			end

			%Toggle button callback for showing the data trace.
			function showDataCallback(this, hObject, ~)
			if hObject.Value
			hObject.BackgroundColor=[0,1,0.2];
			setVisible(this.Data,this.main_plot,1);
			updateAxis(this);
			else
			hObject.BackgroundColor=[0.941,0.941,0.941];
			setVisible(this.Data,this.main_plot,0);
			updateAxis(this);
			end
			end

			%Toggle button callback for showing the ref trace
			function showRefCallback(this, hObject, ~)
			if hObject.Value
			hObject.BackgroundColor=[0,1,0.2];
			setVisible(this.Ref,this.main_plot,1);
			updateAxis(this);
			else
			hObject.BackgroundColor=[0.941,0.941,0.941];
			setVisible(this.Ref,this.main_plot,0);
			updateAxis(this);
			end
			end

			%Callback for moving the data to reference.
			function dataToRefCallback(this, ~, ~)
			if this.Data.validatePlot
			this.Ref.x=this.Data.x;
			this.Ref.y=this.Data.y;
			this.Ref.plotTrace(this.main_plot,'Color',this.ref_color,...
			'make_labels',true);
			this.Ref.setVisible(this.main_plot,1);
			updateFits(this);
			this.Gui.ShowRef.Value=1;
			this.Gui.ShowRef.BackgroundColor=[0,1,0.2];
			this.RefHeader=this.DataHeader;
			else
			warning('Data trace was empty, could not move to reference')
			end
			end

			%Callback for ref to bg button. Sends the reference to background
			function refToBgCallback(this, ~, ~)
			if this.Ref.validatePlot
			this.Background.x=this.Ref.x;
			this.Background.y=this.Ref.y;
			this.Background.plotTrace(this.main_plot,...
			'Color',this.bg_color,'make_labels',true);
			this.Background.setVisible(this.main_plot,1);
			else
			warning('Reference trace was empty, could not move to background')
			end
			end

			%Callback for data to bg button. Sends the data to background
			function dataToBgCallback(this, ~, ~)
			if this.Data.validatePlot
			this.Background.x=this.Data.x;
			this.Background.y=this.Data.y;
			this.Background.plotTrace(this.main_plot,...
			'Color',this.bg_color,'make_labels',true);
			this.Background.setVisible(this.main_plot,1);
			else
			warning('Data trace was empty, could not move to background')
			end
			end

			%Callback for clear background button. Clears the background
			function clearBgCallback(this, ~, ~)
			this.Background.x=[];
			this.Background.y=[];
			this.Background.setVisible(this.main_plot,0);
			end

			%Callback for LogY button. Sets the YScale to log/lin
			function logYCallback(this, hObject, ~)
			if hObject.Value
			this.main_plot.YScale='Log';
			hObject.BackgroundColor=[0,1,0.2];
			else
			this.main_plot.YScale='Linear';
			hObject.BackgroundColor=[0.941,0.941,0.941];
			end
			updateAxis(this);
			updateCursors(this);
			end

			%Callback for LogX button. Sets the XScale to log/lin. Updates the
			%axis and cursors afterwards.
			function logXCallback(this, hObject, ~)
			if get(hObject,'Value')
			set(this.main_plot,'XScale','Log');
			set(hObject, 'BackgroundColor',[0,1,0.2]);
			else
			set(this.main_plot,'XScale','Linear');
			set(hObject, 'BackgroundColor',[0.941,0.941,0.941]);
			end
			updateAxis(this);
			updateCursors(this);
			end

			%Base directory callback. Sets the base directory. Also
			%updates fit objects with the new save directory.
			function baseDirCallback(this, ~, ~)
			for i=1:length(this.open_fits)
			this.Fits.(this.open_fits{i}).base_dir=this.base_dir;
			end
			end

			%Callback for session name edit box. Sets the session name. Also
			%updates fit objects with the new save directory.
			function sessionNameCallback(this, ~, ~)
			for i=1:length(this.open_fits)
			this.Fits.(this.open_fits{i}).session_name=this.session_name;
			end
			end

			%Callback for filename edit box. Sets the file name. Also
			%updates fit objects with the new file name.
			function fileNameCallback(this, ~,~)
			for i=1:length(this.open_fits)
			this.Fits.(this.open_fits{i}).filename=this.filename;
			end
			end

			%Callback for the analyze menu (popup menu for selecting fits).
			%Opens the correct MyFit object.
			function analyzeMenuCallback(this, hObject, ~)
			analyze_ind=hObject.Value;
			%Finds the correct fit name by erasing spaces and other
			%superfluous strings
			analyze_name=hObject.String{analyze_ind};
			analyze_name=erase(analyze_name,'Fit');
			analyze_name=erase(analyze_name,'Calibration');
			analyze_name=erase(analyze_name,' ');

			%Sets the correct tooltip
			hObject.TooltipString=sprintf(this.Gui.AnalyzeTip{analyze_ind}) ;

			switch analyze_name
			case {'Linear','Quadratic','Exponential',...
			'Lorentzian','Gaussian',...
			'DoubleLorentzian'}
			openMyFit(this,analyze_name);
			case 'g0'
			openMyG(this);
			case 'Beta'
			openMyBeta(this);
			end
			end

			function openMyFit(this,fit_name)
			%Sees if the MyFit object is already open, if it is, changes the
			%focus to it, if not, opens it.
			if ismember(fit_name,fieldnames(this.Fits))
			%Changes focus to the relevant fit window
			figure(this.Fits.(fit_name).Gui.Window);
			else
			%Gets the data for the fit using the getFitData function
			%with the vertical cursors
			DataTrace=getFitData(this,'VertData');
			%Makes an instance of MyFit with correct parameters.
			this.Fits.(fit_name)=MyFit(...
			'fit_name',fit_name,...
			'enable_plot',1,...
			'plot_handle',this.main_plot,...
			'Data',DataTrace,...
			'base_dir',this.base_dir,...
			'session_name',this.session_name,...
			'filename',this.filename);

			updateFits(this);
			%Sets up a listener for the Deletion event, which
			%removes the MyFit object from the Fits structure if it is
			%deleted.
			this.Listeners.(fit_name).Deletion=...
			addlistener(this.Fits.(fit_name),'ObjectBeingDestroyed',...
			@(src, eventdata) deleteFit(this, src, eventdata));

			%Sets up a listener for the NewFit. Callback plots the fit
			%on the main plot.
			this.Listeners.(fit_name).NewFit=...
			addlistener(this.Fits.(fit_name),'NewFit',...
			@(src, eventdata) plotNewFit(this, src, eventdata));

			%Sets up a listener for NewInitVal
			this.Listeners.(fit_name).NewInitVal=...
			addlistener(this.Fits.(fit_name),'NewInitVal',...
			@(~,~) updateCursors(this));
			end
			end

			%Opens MyG class if it is not open.
			function openMyG(this)
			if ismember('G0',this.open_fits)
			figure(this.Fits.G0.Gui.figure1);
			else
			MechTrace=getFitData(this,'VertData');
			CalTrace=getFitData(this,'VertRef');
			this.Fits.G0=MyG('MechTrace',MechTrace,'CalTrace',CalTrace,...
			'name','G0');

			%Adds listener for object being destroyed
			this.Listeners.G0.Deletion=addlistener(this.Fits.G0,...
			'ObjectBeingDestroyed',...
			@(~,~) deleteObj(this,'G0'));
			end
			end

			%Opens MyBeta class if it is not open.
			function openMyBeta(this)
			if ismember('Beta', this.open_fits)
			figure(this.Fits.Beta.Gui.figure1);
			else
			DataTrace=getFitData(this);
			this.Fits.Beta=MyBeta('Data',DataTrace);

			%Adds listener for object being destroyed, to perform cleanup
			this.Listeners.Beta.Deletion=addlistener(this.Fits.Beta,...
			'ObjectBeingDestroyed',...
			@(~,~) deleteObj(this,'Beta'));
			end
			end

			%Callback for load data button
			function loadDataCallback(this, ~, ~)
			if isempty(this.base_dir)
			warning('Please input a valid folder name for loading a trace');
			this.base_dir=pwd;
			end
			try
			[load_name,path_name]=uigetfile('.txt','Select the trace',...
			this.base_dir);
			load_path=[path_name,load_name];
			dest_trc=this.Gui.DestTrc.String{this.Gui.DestTrc.Value};
			loadTrace(this.(dest_trc),load_path);
			this.(dest_trc).plotTrace(this.main_plot,...
			'Color',this.(sprintf('%s_color',lower(dest_trc))),...
			'make_labels',true);
			updateAxis(this);
			updateCursors(this);
			catch
			error('Please select a valid file');
			end
			end
			end

			methods (Access=public)
			%% Listener functions
			%Callback function for NewFit listener. Plots the fit in the
			%window using the plotFit function of the MyFit object
			function plotNewFit(this, src, ~)
			src.plotFit('Color',this.fit_color);
			updateAxis(this);
			updateCursors(this);
			end

			%Callback function for the NewData listener
			function acquireNewData(this, src, ~)
			hline=getLineHandle(this.Data,this.main_plot);
			this.Data=copy(src.Trace);
			if ~isempty(hline); this.Data.hlines{1}=hline; end
			this.Data.plotTrace(this.main_plot,'Color',this.data_color,...
			'make_labels',true)
			updateAxis(this);
			updateCursors(this);
			updateFits(this);
			end

			%Deletes the object from the RunningPrograms struct
			function removeProgram(this, src, ~)
			% Find the object that is being deleted
			ind=cellfun(@(x) isequal(this.RunningPrograms.(x), src),...
			this.running_progs);
			tag=this.running_progs{ind};
			this.RunningPrograms=rmfield(this.RunningPrograms,tag);
			%Deletes the listeners from the Listeners struct
			deleteListeners(this, tag);
			end

			%Callback function for MyFit ObjectBeingDestroyed listener.
			%Removes the relevant field from the Fits struct and deletes the
			%listeners from the object.
			function deleteFit(this, src, ~)
			%Deletes the object from the Fits struct and deletes listeners
			deleteObj(this,src.fit_name);

			%Clears the fits
			src.clearFit;

			%Updates cursors since the fits are removed from the plot
			updateCursors(this);
			end

			%Callback function for other analysis method deletion listeners.
			%Does the same as above.
			function deleteObj(this,name)
			if ismember(name,this.open_fits)
			this.Fits=rmfield(this.Fits,name);
			end
			deleteListeners(this, name);
			end

			%Listener update function for vertical cursor
			function vertCursorUpdate(this, src)
			%Finds the index of the cursor. All cursors are tagged
			%(name)1, (name)2, e.g. VertData2, ind is the number.
			ind=str2double(src.Tag(end));
			tag=src.Tag(1:(end-1));
			%Moves the cursor labels
			set(this.CrsLabels.(tag){ind},'Position',[src.Location,...
			this.CrsLabels.(tag){ind}.Position(2),0]);
			if strcmp(tag,'VertData')
			%Sets the edit box displaying the location of the cursor
			this.Gui.(sprintf('EditV%d',ind)).String=...
			num2str(src.Location);
			%Sets the edit box displaying the difference in locations
			this.Gui.EditV2V1.String=...
			num2str(this.Cursors.VertData{2}.Location-...
			this.Cursors.VertData{1}.Location);
			end
			end

			%Listener update function for horizontal cursor
			function horzCursorUpdate(this, src)
			%Finds the index of the cursor. All cursors are tagged
			%(name)1, (name)2, e.g. VertData2, ind is the number.
			ind=str2double(src.Tag(end));
			tag=src.Tag(1:(end-1));
			%Moves the cursor labels
			set(this.CrsLabels.(tag){ind},'Position',...
			[this.CrsLabels.(tag){ind}.Position(1),...
			src.Location,0]);
			if strcmp(tag,'HorzData')
			%Sets the edit box displaying the location of the cursor
			this.Gui.(sprintf('EditH%d',ind)).String=...
			num2str(src.Location);
			%Sets the edit box displaying the difference in locations
			this.Gui.EditH2H1.String=...
			num2str(this.Cursors.HorzData{2}.Location-...
			this.Cursors.HorzData{1}.Location);
			end
			end

			%Function that deletes listeners from the listeners struct,
			%corresponding to an object of name obj_name
			deleteListeners(this, obj_name);
			end

			methods
			%% Get functions

			%Get function from save directory
			function save_dir=get.save_dir(this)
			save_dir=createSessionPath(this.base_dir,this.session_name);
			end

			%Get function for the plot handles
			function main_plot=get.main_plot(this)
			if this.enable_gui
			main_plot=this.Gui.figure1.CurrentAxes;
			else
			main_plot=[];
			end
			end

			%Get function for open fits
			function open_fits=get.open_fits(this)
			open_fits=fieldnames(this.Fits);
			end

			function running_progs=get.running_progs(this)
			running_progs=fieldnames(this.RunningPrograms);
			end

			%Get function that displays names of open cursors
			function open_crs=get.open_crs(this)
			open_crs=fieldnames(this.Cursors);
			end

			function base_dir=get.base_dir(this)
			try
			base_dir=this.Gui.BaseDir.String;
			catch
			base_dir=pwd;
			end
			end

			function set.base_dir(this,base_dir)
			this.Gui.BaseDir.String=base_dir;
			end

			function session_name=get.session_name(this)
			try
			session_name=this.Gui.SessionName.String;
			catch
			session_name='';
			end
			end

			function set.session_name(this,session_name)
			this.Gui.SessionName.String=session_name;
			end

			function filename=get.filename(this)
			try
			filename=this.Gui.FileName.String;
			catch
			filename='placeholder';
			end
			end

			function set.filename(this,filename)
			this.Gui.FileName.String=filename;
			end


			end
			end

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