function gephus

%% STARTUP BOILERPLATE 
%Set up a wait bar to show the progress.
wb = waitbarWithCancel(0, 'Starting ephus...', 'Name', 'Loading software...');
pos = get(wb, 'Position');
pos(2) = pos(2) - pos(4);
set(wb, 'Position', pos);

%% DEVICE/CHANNEL CONFIGURATION

%Amplifier objects for ephys
patch{1} = multi_clamp('text_file_location', 'C:\MATLAB6p1\work\Physiology\MClamp700BChannel1.txt', 'scaledOutputBoardID', 1, 'scaledOutputChannelID', 0, ...
    'vComBoardID', 1, 'vComChannelID', 0, 'channel', 1, 'name', '700B-1');

patch{2} = multi_clamp('text_file_location', 'C:\MATLAB6p1\work\Physiology\MClamp700BChannel2.txt', 'scaledOutputBoardID', 1, 'scaledOutputChannelID', 4, ...
    'vComBoardID', 1, 'vComChannelID', 1, 'channel', 2, 'name', '700B-2');

%Acquirer channels 
acqChannelNames = {'photodiode1'};
acqBoardIDs =   [2];
acqChanIDs =    [0];

%Stimulator channels 
stimChannelNames = {'pockelsCell' 'shutter0' 'xMirror' 'yMirror' 'shutter1' 'ao5' 'ao6' 'ao7'};
stimBoardIDs = [3 3 3 3 3 3 3 3];
stimChanIDs =  [0 1 2 3 4 5 6 7];

%% CONFIGURATION VARIABLES
triggerOrigin = '/dev1/port0/line0'; %Specifies the digital line terminal on which the trigger pulse is output at the start of each acquisition
triggerDest = 'PFI0'; %Specifies the digital line terminal on which the trigger pulse is received. On /every/ board, this must be connected to the triggerOriginal terminal

xsgStartDirectory = 'C:\Data\'; %Default directory in which to save data files

pockelsOn=1; %Logical value specifying whether Pockels Cell is in fact attached/active on 

%Size, in microns, of the camera FOV (a camera application is required by the mapper program)
xVideoScaleFactor =  2625;
yVideoScaleFactor = 1980;

%% *************************END OF CONFIGURATION***************************************

%% TIMING/CLOCK SETUP 
%Set up the triggering.   
acqJob = daqjob('acquisition');
scopeJob = daqjob('scope');
setTriggerOrigin(acqJob, triggerOrigin);
setTriggerOrigin(scopeJob, triggerOrigin);
setTriggerDestination(acqJob, triggerDest);
setTriggerDestination(scopeJob, triggerDest);

%% PROGRAM STARTUP 
if waitbarUpdate(0.0, wb, 'Starting experimentSavingGui...'); return; end
xsg = openprogram(progmanager,{'xsg', 'experimentSavingGui'});
setLocal(progmanager, xsg, 'directory',xsgStartDirectory);

if waitbarUpdate(0.1, wb, 'Starting ephys...'); return; end
ep = openprogram(progmanager,'ephys',patch);

if waitbarUpdate(0.16, wb,  'Starting ephysScopeAccessory...'); return; end
openprogram(progmanager,'ephysScopeAccessory',patch);

if waitbarUpdate(0.24, wb,  'Starting stimulator...'); return; end
stim = openprogram(progmanager, 'stimulator');
stim_addChannels(stim,stimChannelNames,stimBoardIDs,stimChanIDs);

if waitbarUpdate(0.32, wb, 'Starting acquirer...');return;end
acq = openprogram(progmanager,'acquirer');
acq_addChannels(acq,acqChannelNames,acqBoardIDs,acqChanIDs);

if waitbarUpdate(0.48, wb, 'Starting pulseJacker...');return;end
openprogram(progmanager, 'pulseJacker',{ep,stim});

if waitbarUpdate(0.52, wb, 'Starting userFcns...');return;end
openprogram(progmanager, 'userFcns');

if waitbarUpdate(0.56, wb, 'Starting autonotes...');return;end
openprogram(progmanager, 'autonotes');

if waitbarUpdate(0.60, wb, 'Starting headerGui...');return;end
openprogram(progmanager, 'headerGUI');

if waitbarUpdate(0.64, wb, 'Starting HotSwitch...');return;end
openprogram(progmanager,{'hotswitch', 'hotswitch', 'hotswitch', 'hs_config', 'hs_config'});

if waitbarUpdate(.68, wb, 'Starting photodiode configuration...');return;end
    pdiodeConfig = openprogram(progmanager, {'photodiode' 'photodiodeConfiguration'},'photodiode1');
end

if waitbarUpdate(0.76, wb, 'Starting mapper...');return;end
if pockelsOn
    mapper = openprogram(progmanager, 'mapper','xMirror','yMirror','pockelsCell','shutter0',pdiodeConfig);
else %Don't associate either Pockels or Photodiode channel with mapper, if Pockels is not used
    mapper = openprogram(progmanager, 'mapper','xMirror','yMirror','','shutter0');
end    
setLocalBatch(progmanager, mapper, 'xVideoScaleFactor', xVideoScaleFactor, 'yVideoScaleFactor', xVideoScaleFactor);

%% USERFCN BINDINGS

if waitbarUpdate(0.84, wb, 'Setting up default (built-in) userFcns...');return;end

userFcnCBM = getUserFcnCBM;

fprintf(1, 'Default UserFcn mappings:\n');

%userFcns for LSPS/mapping customization
addCallback(userFcnCBM, 'xsg:NewCell', @mapper_newCell_userFcn, 'userFcns_mapper_newCell_userFcn','verbose');
if acqAvailable
    addCallback(userFcnCBM, 'ephys:SamplesAcquired', @mapper_userFcn_ephysSamplesAcquired_display, 'userFcns_mapper_userFcn_ephysSamplesAcquired_display','verbose');
    addCallback(userFcnCBM, 'ephys:SamplesAcquired', @mapper_userFcn_ephysSamplesAcquired_updateMirrorPosition, 'userFcns_mapper_userFcn_ephysSamplesAcquired_updateMirrorPosition','verbose');
end
addCallback(userFcnCBM, 'mapper:MapStart', @mapper_userFcn_mapStart_display, 'userFcns_mapper_userFcn_mapStart_display','verbose');
addCallback(userFcnCBM, 'mapper:MapStop', @mapper_userFcn_mapStop_display, 'userFcns_mapper_userFcn_mapStop_display','verbose');
addCallback(userFcnCBM, 'mapper:MouseStart', @mapper_userFcn_mouseStart_updateMirrorPosition, 'userFcns_mapper_userFcn_mouseStart_updateMirrorPosition','verbose');
addCallback(userFcnCBM, 'mapper:PreGrabVideo', @loadImage4Mapper, 'userFcns_loadImage4Mapper','verbose');
addCallback(userFcnCBM, 'mapper:PostGrabVideo', @unloadImage4Mapper, 'userFcns_unloadImage4Mapper','verbose');

fprintf(1, '----------------------------\n');

%% ENDING BOILERPLATE
%Load a configuration (if requested).
if waitbarUpdate(0.88, wb, 'Loading configuration...');return;end
loadConfigurations(progmanager);
fprintf(1, '\nLoading Completed.\n\n');

delete(wb); %Kill the waitbar.
fprintf(1, '\n\n-----------------------------------\n-----------------------------------\n\n\n\n\n\n\n\n');