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hierarchical_decisions_task.m
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hierarchical_decisions_task.m
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function [p]=hierarchical_decisions_task(subject, session, run, rule_hierarchical_decision, coloured_task, language)
% subject = subject code (string)
% session = session number: 1 and 2 outside scanner; 3 and 4 inside scanner
% run = up to 5 runs per session - ~10min per run
% rule_hierarchical_decision = 0 or 1
% coloured_task = 0 (grey samples) or 1 (coloured samples according to source)
% language = 'PT' or 'EN'
% press 'q' on choice trials to quit
% Fixation target used was adapted from:
% Vision Res. 2013 Jan 14;76:31-42.
% doi: 10.1016/j.visres.2012.10.012. Epub 2012 Oct 23.
% What is the best fixation target? The effect of target shape on stability of fixational eye movements
% L Thaler 1 , A C Schütz, M A Goodale, K R Gegenfurtner
% NoEyelink = 0; %is Eyelink wanted?
debug = 0; % debug mode => 1: transparent window enabling viewing the background.
small_window = 0; % Open a small window only
% close ports - scanner
IOPort('CloseAll');
%% >>>>> Set up a lot of stuff
rng('shuffle'); % ensure random is always different
% Load stimulus sequence
load_dir = [pwd '\exp_data' filesep subject];
sequence = load([load_dir filesep 'task_sequences']);
if subject > 0
sequence = sequence.task_sequences{session}{run};
fmri = sequence.fmri; % if false skip waiting for pulses.
end
commandwindow; %focus on the command window, so that output is not written on the editor
% %clear everything
% clear mex global functions;%clear all before we start.
GetSecs;
WaitSecs(0.001);
el = []; % eye-tracker variable
p = []; % parameter structure that contains all info about the experiment.
% -- EYETRACKING
% Do you want to use the Eyelink eyetracking in dummymode (1) or not (2) ?
p.ET_dummymode = menu('Do you want to use the Eyelink eyetracking in dummymode?', 'Yes', 'No');
if p.ET_dummymode==2
p.ET_dummymode = 0;
end
SetParams;%set parameters of the experiment
SetPTB;%set visualization parameters.
% check how many choice stimulus of each type for this run
number_face_stim = length(find(sequence.stim == 0));
number_house_stim = length(find(sequence.stim == 1));
Files = dir(fullfile([p.images_dir '\selected_faces_adults_similar_lum_centered'],'*.jpg'));
file_order_faces = randperm(size(Files, 1));
p.choice_trials.file_order_faces = file_order_faces(1:number_face_stim);
for numb_files=1:number_face_stim
p.choice_trials.file_names_faces{numb_files, 1} = fullfile(Files(file_order_faces(numb_files)).folder, Files(file_order_faces(numb_files)).name);
end
Files = dir(fullfile([p.images_dir '\selected_houses_similar_lum_centered'] ,'*.jpg'));
file_order_houses = randperm(size(Files, 1));
p.choice_trials.file_order_houses = file_order_houses(1:number_house_stim);
for numb_files=1:number_house_stim
p.choice_trials.file_names_houses{numb_files, 1} = fullfile(Files(file_order_faces(numb_files)).folder, Files(file_order_houses(numb_files)).name);
end
p.rule_hierarchical_decision = rule_hierarchical_decision; % to counterbalance across participants which rule in first run, can be 0 or 1
p.session = session; p.run = run;
p.subject = subject;
% calibrated = false;
%% >>>>>>> Experiment starts.
%try
for block = run
fprintf(['Running SUB=' subject, ' Run=' num2str(block) '\n']);
p.block = block;
p.sequence = sequence;
if fmri == 0
KbQueueStop(p.ptb.device);
KbQueueRelease(p.ptb.device);
KbQueueCreate(p.ptb.device);
if strcmp(language, 'PT')
text = ['Durante a tarefa, mantenha o olhar fixo no alvo de fixação,\n'...
'mantenha a cabeça fixa no apoio e não fale.\n\n'...
'Use a tecla Z para resposta à esquerda com o indicador esquerdo.\n'...
'Use a tecla M para resposta à direita com o indicador direito.\n\n'...
'Carregue numa tecla para avançar.\n'];
else
text = ['During the task, keep your eyes fixed on the fixation target,\n'...
'keep your head fixed on the support and do not speak.\n\n'...
'Use the Z key to answer left with your left index finger.\n'...
'Use the M key to answer right with your right index finger.\n\n'...
'Press any key to continue.\n'];
end
else
p.LuminaHandle = IOPort('OpenSerialPort','COM4');
IOPort('Flush',p.LuminaHandle);
if strcmp(language, 'PT')
text = ['Durante a tarefa, mantenha o olhar fixo no alvo de fixação,\n'...
'não mexa a cabeça e não fale.\n\n'...
'Use o botão da esquerda para resposta à esquerda.\n'...
'Use o botão da direita para resposta à direita.\n\n'...
'Carregue num botão para avançar.\n'];
else
text = ['During the task, keep your eyes fixed on the fixation target,\n'...
'do not move your head or speak.\n\n'...
'Use the left button for the left answer.\n'...
'Use the right button for the right answer.\n\n'...
'Press any button to continue.\n'];
end
end
DrawFormattedText(p.ptb.w, text, 'center', 'center', p.stim.white,[],[],[],2,[]);
Screen('Flip', p.ptb.w);
if fmri == 0
[~, keyCode, ~] = KbStrokeWait(p.ptb.device);
key_pressed = KbName(keyCode); if strcmp(key_pressed, 'q'), break, end
else
IOPort('Read',p.LuminaHandle, 1, 1); %IOPort(‘Read’, handle [, blocking=0] [, amount]);
pr = 1;
while pr
key = IOPort('Read',p.LuminaHandle);
if ~isempty(key) %&& (length(key) == 1)
pr = 0;
end
IOPort('Flush',p.LuminaHandle);
end
end
rule_explained(p, rule_hierarchical_decision) % show image with rule
if fmri == 0
[~, keyCode, ~] = KbStrokeWait(p.ptb.device);
key_pressed = KbName(keyCode); if strcmp(key_pressed, 'q'), break, end
else
pr = 1;
while pr
key = IOPort('Read',p.LuminaHandle);
if ~isempty(key) %&& (length(key) == 1)
pr = 0;
end
IOPort('Flush',p.LuminaHandle);
end
end
% start eye tracker
p = InitEyeLink(p);
CalibrateEL;
if p.syncboxEnabled %Catarina defined waiting MRI
Screen('FillRect', p.ptb.w, p.stim.bg );
DrawFormattedText(p.ptb.w, 'Por favor, aguarde...', 'center', 'center', p.stim.white,[],[],[],2,[]);
Screen('Flip',p.ptb.w);
SynchBox = IOPort('OpenSerialPort', 'COM5', 'BaudRate=57600 DataBits=8 Parity=None StopBits=1 FlowControl=None');
IOPort('Flush',SynchBox);
[TriggerReceived, StartTime]=waitForTrigger(SynchBox,1,1000); %
p.MRItrigger_time = [StartTime, GetSecs];
if ~ TriggerReceived
disp('Did not receive trigger - aborting stim');
sca; return
end
end
draw_fix(p); Screen('Flip',p.ptb.w);
Eyelink('StartRecording');
WaitSecs(.01);
Eyelink('Message', ['SUBJECT ', p.subject]);
p = Log(p, GetSecs, 'SUBJECT', p.subject);
WaitSecs(1);
if fmri == 1
WaitSecs(11);
end
[p, outcomes] = GlazeBlock(p,coloured_task);
WaitSecs(10);
fprintf('\n This block of trials lasted %3.2fs\n', GetSecs()-p.start_trials);
% Need to show feedback here!
p.sum_outcomes = sum(outcomes);
p.accuracy_rate = p.sum_outcomes/length(outcomes);
p = save_data(p);
if strcmp(language, 'PT')
text = sprintf('Nesta sessão acertou %2.0f%% das respostas.\n', 100*p.accuracy_rate);
else
text = sprintf('In this session, your answers were %2.0f%% correct.\n', 100*p.accuracy_rate);
end
Screen('FillRect', p.ptb.w, p.stim.bg);
DrawFormattedText(p.ptb.w, text, 'center', 'center', p.stim.white,[],[],[],2,[]);
Screen('Flip',p.ptb.w);
KbWait(p.ptb.device, 2, GetSecs()+15);
end
%stop the queue
if fmri == 0
p = dump_keys(p);
KbQueueStop(p.ptb.device);
KbQueueRelease(p.ptb.device);
end
cleanup(p);
% lasterr
%% -----------------------------------
% Experiment blocks
% -----------------------------------
function [p, outcomes] = GlazeBlock(p, coloured_task)
% 4.8 Check data save
% abort=false;
p.start_time_task = datestr(now, 'dd-mmm-yyTHHMM'); %p.start_time = datestr(now, 'dd-mmm-yy-HH:MM:SS');
% draw_fix(p);
% Screen('FillRect',p.ptb.w,p.stim.bg);
% Screen('Flip',p.ptb.w);
if fmri == 0
KbQueueStop(p.ptb.device);
KbQueueRelease(p.ptb.device);
KbQueueCreate(p.ptb.device);
KbQueueStart(p.ptb.device);
KbQueueFlush(p.ptb.device);
else
IOPort('Flush',p.LuminaHandle);
end
% Screen('Flip', p.ptb.w);
% Eyelink('StartRecording');
% WaitSecs(.01);
% Eyelink('Message', ['SUBJECT ', p.subject]);
% p = Log(p, GetSecs, 'START_GLAZE', nan);
% p = Log(p, GetSecs, 'SUBJECT', p.subject);
% draw_fix(p);
% WaitSecs(1);
% StartGlazeEyelinkRecording(p.block, p.phase_variable);
outcomes = []; % response accuracy
p.start_trials = GetSecs();
% start = start_trials+0.4;
ActSampleOnset = GetSecs;
count_faces = 0; count_houses = 0; % to determine which image to show
for trial = 1:size(p.sequence.stim, 2)
%Get the variables that Trial function needs.
stim_id = p.sequence.stim(trial); % nan = sample trial; car - stim_id = 0; house - stim_id = 1
type = p.sequence.type(trial); % 0 = sample trial; 1 = choice trial
location = p.sequence.sample(trial); % location negative = up; location positive = down
gener_side = p.sequence.generating_side(trial);% negative = upper source; positive = lower source
% OnsetTime = start+p.sequence.stimulus_onset(trial);
OnsetTime = ActSampleOnset + 0.4; % ISI = 400 ms
% if location < 0
% fprintf('-');
% else
% fprintf('+');
% end
Eyelink('Message', 'trial_id %i', trial);
p = Log(p, GetSecs, 'GL_TRIAL_START', trial);
if ~isnan(stim_id)
p = Log(p, GetSecs, 'GL_TRIAL_STIM_ID', stim_id);
Eyelink('Message', 'stim_id %i', stim_id);
end
if ~isnan(gener_side)
p = Log(p, GetSecs, 'GL_TRIAL_GENSIDE', gener_side);
Eyelink('Message', 'gener_side %i', round(100*gener_side));
end
if ~isnan(location)
Eyelink('Message', 'location %d', round(1000*location));
p = Log(p, GetSecs, 'GL_TRIAL_LOCATION', location);
end
p = Log(p, GetSecs, 'GL_TRIAL_TYPE', type);
Eyelink('Message', 'type %i', type);
if type == 0
% Show a single sample
[ActSampleOnset, p] = show_one_sample(p, OnsetTime, location, gener_side, coloured_task);
elseif type == 1
% Choice trial.
if stim_id == 0
count_faces = count_faces+1;
theImageLocation = p.choice_trials.file_names_faces{count_faces};
elseif stim_id == 1
count_houses = count_houses+1;
theImageLocation = p.choice_trials.file_names_houses{count_houses};
end
fprintf('\nCHOICE TRIAL; stim_id:%i, gener_side:%02.2f ', stim_id, gener_side>0);
[p, RT, keycodes, response_times, abort] = choice_trial(p, OnsetTime, stim_id, theImageLocation);
if abort==1, return, end
% analysis accuracy of responses
correct = 0;
if ~isempty(keycodes)
for iii = 1:length(keycodes)
ReactionTime = RT(iii);
if fmri == 0
keys = KbName(keycodes(iii));
else
keys = num2str(keycodes(iii));
end
p = Log(p, ReactionTime, 'BUTTON_PRESS', keys); % save info for all responses so we know if it was corrected
p = Log(p, response_times(iii), 'RESPONSE_TIME', keys); % save info for all responses so we know if it was corrected
% in scanner left responses = 49 or 50; right responses 51 or 52
if iii == length(keycodes) % what counts for accuracy is last response
if gener_side > 0 && stim_id == 0 % bottom and cars
if p.rule_hierarchical_decision == 0 && (strcmp(keys, 'm') || strcmp(keys, '51') || strcmp(keys, '52'))
correct = 1;
elseif p.rule_hierarchical_decision == 1 && (strcmp(keys, 'z') || strcmp(keys, '49') || strcmp(keys, '50'))
correct = 1;
end
elseif gener_side >0 && stim_id ==1 % bottom and houses
if p.rule_hierarchical_decision == 0 && (strcmp(keys, 'z') || strcmp(keys, '49') || strcmp(keys, '50'))
correct = 1;
elseif p.rule_hierarchical_decision == 1 && (strcmp(keys, 'm') || strcmp(keys, '51') || strcmp(keys, '52'))
correct = 1;
end
elseif gener_side <0 && stim_id == 0 % top and faces
if p.rule_hierarchical_decision == 0 && (strcmp(keys, 'z') || strcmp(keys, '49') || strcmp(keys, '50'))
correct = 1;
elseif p.rule_hierarchical_decision == 1 && (strcmp(keys, 'm') || strcmp(keys, '51') || strcmp(keys, '52'))
correct = 1;
end
elseif gener_side < 0 && stim_id == 1 % top and houses
if p.rule_hierarchical_decision == 0 && (strcmp(keys, 'm') || strcmp(keys, '51') || strcmp(keys, '52'))
correct = 1;
elseif p.rule_hierarchical_decision == 1 && (strcmp(keys, 'z') || strcmp(keys, '49') || strcmp(keys, '50'))
correct = 1;
end
end
end
end
else
p = Log(p, stim_id, 'NO_RESPONSE', NaN);
end
p = Log(p, stim_id, 'CHOICE_TRIAL_ACCURACY', correct);
fprintf('ACCURACY: %i, ', correct);
if correct == 1
outcomes = [outcomes 1]; %#ok<AGROW>
fprintf('REWARD!\n');
else
outcomes = [outcomes 0]; %#ok<AGROW>
fprintf('NO REWARD!\n')
end
ActSampleOnset = GetSecs-0.4; % so that next sample starts on time!
end
end
end
%% -----------------------------------
% Trial functions
% -----------------------------------
function [p, RT, keycodes, response_times, abort] = choice_trial(p, ChoiceStimOnset, stim_id, theImageLocation)
abort = 0;
% load image of face or house - face - stim_id = 0; house - stim_id = 1
% Here we load in an image from file
theImage = imread(theImageLocation);
% Make the image into a texture
imageTexture = Screen('MakeTexture', p.ptb.w, theImage);
% Draw the gaussian apertures into our full screen aperture mask
Screen('DrawTextures', p.gaussian_aperture.fullWindowMask, p.gaussian_aperture.masktex, [], p.gaussian_aperture.dstRects);
% Draw the image to the screen
% left, top, right, bottom - size of image in pixels [0,0] = top left corner
NewImageRect = [0 0 300 300];
NewImageRect_centered = CenterRectOnPointd(NewImageRect, p.ptb.width / 2, p.ptb.height / 2);
Screen('DrawTexture', p.ptb.w, imageTexture, [], NewImageRect_centered, 0);
Screen('DrawTexture', p.ptb.w, p.gaussian_aperture.fullWindowMask);
% Flush key events
if fmri == 0
p = dump_keys(p);
KbQueueFlush(p.ptb.device);
elseif fmri == 1
IOPort('Flush',p.LuminaHandle);
end
% Flip to the screen
% STIMULUS ONSET
TimeStimOnset = Screen('Flip', p.ptb.w, ChoiceStimOnset - p.ptb.slack, 0);
% start_rt_counter = TimeStimOnset;
p = Log(p,TimeStimOnset, 'CHOICE_TRIAL_ONSET', stim_id);
Eyelink('Message', sprintf('CHOICE_TRIAL_ONSET %i', stim_id));
draw_fix(p);
% record responses
keycodes = []; RT = []; response_times = [];
if fmri == 1
while GetSecs < TimeStimOnset + 0.5 - p.ptb.slack
% listen to button presses
[key,timestamp,~] = IOPort('Read',p.LuminaHandle);
if ~isempty(key)
IOPort('Flush',p.LuminaHandle);
% Save responses
keycodes = [keycodes, key];
reaction_time = timestamp - TimeStimOnset;
RT = [RT; reaction_time];
response_times = [response_times; timestamp];
end
end
end
TimeStimOffset = Screen('Flip', p.ptb.w, TimeStimOnset + .5 - p.ptb.slack, 0); %<----- FLIP image duration 500 ms
p = Log(p, TimeStimOffset, 'CHOICE_TRIAL_STIMOFF', nan);
Eyelink('Message', 'CHOICE_TRIAL_STIMOFF');
if fmri == 1
while GetSecs < TimeStimOffset + 1.5
% listen to button presses
[key,timestamp,~] = IOPort('Read',p.LuminaHandle);
if ~isempty(key)
IOPort('Flush',p.LuminaHandle);
% Save responses
keycodes = [keycodes, key];
reaction_time = timestamp - TimeStimOnset;
RT = [RT; reaction_time];
response_times = [response_times; timestamp];
end
end
else
WaitSecs(1.5);
% Now record response
[keycodes, response_times] = KbQueueDump(p);
RT = response_times - TimeStimOnset;
key_pressed = KbName(keycodes); if strcmp(key_pressed, 'q'), abort = 1; end
end
end
function [ActSampleOnset, p] = show_one_sample(p, SampleOnset, location, gener_side, coloured_task)
% Show one sample, such that black and white parts cancel.
r_inner = p.stim.r_inner;
o = p.stim.lumdiff;
p.sample_duration = p.stim.sample_duration;
x_outer = r_inner*(2^.5 -1);
r_outer = (r_inner + x_outer)*p.display.ppd;
r_inner = r_inner*p.display.ppd;
cx = p.ptb.CrossPosition_x;
cy = p.ptb.CrossPosition_y;
% left, top, right, bottom
location = location*p.display.ppd; % location negative = up; location positive = down
rin = [cx-r_inner, location-r_inner+cy, cx+r_inner, location+r_inner+cy];
rout = [cx-r_outer, location-r_outer+cy, cx+r_outer, location+r_outer+cy];
draw_fix(p);
if coloured_task == 1
% sample generated by lower source coloured blue
% sample generated by upper source coloured orange
if gener_side<0
colour=[0 70 0]; %green
else
colour=[0 37 255]; %blue
end
else
colour = p.stim.bg;
end
Screen('FillOval', p.ptb.w, colour-o, rout);
Screen('FillOval', p.ptb.w, colour+o, rin);
ActSampleOnset = Screen('Flip',p.ptb.w, SampleOnset - p.ptb.slack, 0); %<----- FLIP
Eyelink('message', sprintf('sample_onset %f', location));
p = Log(p,ActSampleOnset, 'SAMPLE_ONSET', location);
draw_fix(p);
TimeSampleOffset = Screen('Flip',p.ptb.w, ActSampleOnset + p.sample_duration - p.ptb.slack, 0); %<----- FLIP
draw_fix(p);
end
%% -----------------------------------
% Helper functions
% -----------------------------------
function p = dump_keys(p)
%dump the final events
[keycode, secs] = KbQueueDump(p);%this contains both the pulses and keypresses.
end
function draw_fix(p)
% fixation target as suggested in Vision Research. Volume 76, 14 January 2013, Pages 31-42
% What is the best fixation target? The effect of target shape on stability of fixational eye movements.
% L.Thalerab, A.C.SchützcM.A.GoodalebdK.R.Gegenfurtnerc
colorOval = p.stim.fix_target; % color of the two circles [R G B]
colorCross = p.stim.bg; % color of the Cross [R G B]
d1 = 0.6; % diameter of outer circle (degrees)
d2 = 0.14; % 0.2; % diameter of inner circle (degrees)
Screen('FillOval', p.ptb.w, colorOval, [p.ptb.CrossPosition_x-d1/2 * p.display.ppd, p.ptb.CrossPosition_y-d1/2 * p.display.ppd, p.ptb.CrossPosition_x+d1/2 * p.display.ppd, p.ptb.CrossPosition_y+d1/2 * p.display.ppd], d1 * p.display.ppd);
Screen('DrawLine', p.ptb.w, colorCross, p.ptb.CrossPosition_x-d1/2 * p.display.ppd, p.ptb.CrossPosition_y, p.ptb.CrossPosition_x+d1/2 * p.display.ppd, p.ptb.CrossPosition_y, d2 * p.display.ppd);
Screen('DrawLine', p.ptb.w, colorCross, p.ptb.CrossPosition_x, p.ptb.CrossPosition_y-d1/2 * p.display.ppd, p.ptb.CrossPosition_x, p.ptb.CrossPosition_y+d1/2 * p.display.ppd, d2 * p.display.ppd);
Screen('FillOval', p.ptb.w, colorOval, [p.ptb.CrossPosition_x-d2/2 * p.display.ppd, p.ptb.CrossPosition_y-d2/2 * p.display.ppd, p.ptb.CrossPosition_x+d2/2 * p.display.ppd, p.ptb.CrossPosition_y+d2/2 * p.display.ppd], d2 * p.display.ppd);
% Screen(p.ptb.w, 'Flip');
end
function SetParams
% %mrt business
% p.mrt.dummy_scan = 5; %this will wait until the 6th image is acquired.
% p.mrt.LastScans = 5; %number of scans after the offset of the last stimulus
% p.mrt.tr = 2; %in seconds.
%will count the number of events to be logged
p.out.event_count = 0;
%% relative path to stim and experiments
%Path Business.
[~, hostname] = system('hostname');
p.hostname = deblank(hostname);
if strcmp(p.hostname, 'czc0211hsd') %gab 72
% p.display.resolution = [1680 1050];
p.display.dimension = [47 29.5];
p.display.distance = [52, 64];
p.stim.bg = [128, 128, 128];
p.stim.fix_target = [144 144 144];
p.stim.lumdiff = 12; % luminance difference within sample fill and outline
elseif strcmp(p.hostname, 'cnd0151937') % laptop hp elitebook
% p.display.resolution = [1600 900];
p.display.dimension = [34.5 19.5];
p.display.distance = [52, 64];
p.stim.bg = [128, 128, 128];
p.stim.fix_target = [144 144 144];
p.stim.lumdiff = 12; % luminance difference within sample fill and outline
elseif strcmp(p.hostname, 'DESKTOP-MKKOQUF') % Coimbra lab 94 = ['DESKTOP-MKKOQUF']
% p.display.resolution = [1600 900]; %[1440 1080]; %[1920 1080]; Maria set to laptop 14Sep2019
p.display.dimension = [52.5, 39.5];
p.display.distance = [88, 88];
p.stim.bg = [48 48 48];%[128, 128, 128];
p.stim.fix_target = [64 64 64];
p.stim.lumdiff = 12; % luminance difference within sample fill and outline
elseif strcmp(p.hostname, 'DESKTOP-TKTCOK0') % MRI SCANNER - CHECK CODE
p.display.dimension = [87.8 48.5];
p.display.distance = [175, 182.5];
p.stim.bg = [92 92 92];
p.stim.fix_target = [105 105 105];
p.stim.lumdiff = 10; % luminance difference within sample fill and outline
else % other displays
% p.display.resolution = [1600 900]; %[1440 1080]; %[1920 1080]; Maria set to laptop 14Sep2019
p.display.dimension = [34.5 19.5];
p.display.distance = [55, 55];
p.stim.bg = [128, 128, 128];
p.stim.fix_target = [144 144 144];
p.stim.lumdiff = 12; % luminance difference within sample fill and outline
end
p.images_dir = [pwd '\Stanford Vision & Perception Neuroscience Lab'];
p.path.baselocation = [pwd '\exp_data\' subject filesep 'session' num2str(session) filesep 'run' num2str(run)];
%create the base folder if not yet there.
if exist(p.path.baselocation) == 0 %#ok<EXIST>
mkdir(p.path.baselocation);
end
p.timestamp = datestr(now, 30); %the time_stamp of the current experiment.
p.stim.r_inner = .1;
p.stim.sample_duration = .1;
%% %%%%%%%%%%%%%%%%%%%%%%%%%
p.stim.white = get_color('white');
p.text.fontname = 'Arial';%'Courier';
p.text.fontsize = 20;
p.text.fixsize = 60;
% Set response device:
%if outside scanner = keyboard;
% inside scanner = lumina
switch fmri
case 0
p.responseDevice = 'keyboard';
p.syncboxEnabled = 0;
%% keys to be used during the experiment:
KbName('UnifyKeyNames');
p.keys.confirm = '4$';%
p.keys.answer_left = 'z';
p.keys.answer_right = 'm';
p.keys.el_calib = 'v';
p.keys.el_valid = 'c';
p.keys.escape = 'ESCAPE';
p.keys.enter = 'return';
p.keys.quit = 'q';
p.keys.list = {p.keys.confirm,...
p.keys.answer_left,...
p.keys.answer_right,...
p.keys.el_calib, p.keys.el_valid, p.keys.enter};
case 1
p.responseDevice = 'lumina';
p.syncboxEnabled=1;
% p.LuminaHandle = IOPort('OpenSerialPort','COM3', 'ReadTimeout', 30);
% IOPort('Flush',p.LuminaHandle);
end
%% %%%%%%%%%%%%%%%%%%%%%%%%%
% %Communication business
% %parallel port
% p.com.lpt.address = 888;%parallel port of the computer.
% %codes for different events that are sent for logging in the
% %physiological computer.
% p.com.lpt.resp0 = 128;
% p.com.lpt.resp1 = 64;
% p.com.lpt.stim = 32;
% p.com.lpt.sample = 16;
% %Record which phase_variable are we going to run in this run.
% p.stim.phase_variable = phase_variable;
p.out.log = cell(1000000,1);%Experimental LOG.
%%
% p.var.current_bg = p.stim.bg;%current background to be used.
%save(p.path.path_param,'p');
end
function SetPTB
%Sets the parameters related to the PTB toolbox. Including
%fontsizes, font names.
%Default parameters
Screen('Preference', 'SkipSyncTests', 1);
Screen('Preference', 'DefaultFontSize', p.text.fontsize);
Screen('Preference', 'DefaultFontName', p.text.fontname);
Screen('Preference', 'TextAntiAliasing',2);%enable textantialiasing high quality
Screen('Preference', 'VisualDebuglevel', 0);
Screen('Preference', 'SuppressAllWarnings', 1);
%%Find the number of the screen to be opened
screens = Screen('Screens');
p.ptb.screenNumber = max(screens);%the maximum is the second monitor
[idx, names, ~] = GetKeyboardIndices;
p.ptb.device = idx;
% gamma = load('nne_uke_scanner.mat');
% gamma = [0 0 0; gamma.gammaTable];
% p.ptb.gamma = gamma;
% end
%Make everything transparent for debugging purposes.
if debug
commandwindow;
PsychDebugWindowConfiguration;
end
%set the resolution correctly
res = Screen('resolution', p.ptb.screenNumber);
p.display.resolution = [res.width res.height];
p.display.ppd = ppd(mean(p.display.distance), p.display.resolution(1),...
p.display.dimension(1));
%spit out the resolution,
fprintf('Resolution of the screen is %dx%d...\n',res.width,res.height);
HideCursor(p.ptb.screenNumber);%make sure that the mouse is not
% shown at the participant's monitor
%Open a graphics window using PTB
if ~small_window
[p.ptb.w, p.ptb.rect] = Screen('OpenWindow', p.ptb.screenNumber, p.stim.bg);
else
[p.ptb.w, p.ptb.rect] = Screen('OpenWindow', p.ptb.screenNumber, p.stim.bg, [0, 0, 900, 700]);
end
% Set up alpha-blending for smooth (anti-aliased) lines
Screen('BlendFunction', p.ptb.w, 'GL_SRC_ALPHA', 'GL_ONE_MINUS_SRC_ALPHA');
p.ptb.gamma_loaded=false;
Screen('Flip',p.ptb.w);%make the bg
p.ptb.slack = Screen('GetFlipInterval',p.ptb.w)./2;
[p.ptb.width, p.ptb.height] = Screen('WindowSize', p.ptb.screenNumber);
%find the mid position on the screen.
x = p.ptb.rect(1) + (p.ptb.rect(3)/2);
y = p.ptb.rect(2) + (p.ptb.rect(4)/2);
p.ptb.midpoint = [x, y]; % p.ptb.width./2 p.ptb.height./2];
%NOTE about RECT:
%RectLeft=1, RectTop=2, RectRight=3, RectBottom=4.
p.ptb.CrossPosition_x = p.ptb.midpoint(1);
p.ptb.CrossPosition_y = p.ptb.midpoint(2);
%cross position for the eyetracker screen.
p.ptb.fc_size = 10;
Priority(MaxPriority(p.ptb.w));
if IsWindows
LoadPsychHID;
end
%%%%%%%%%%%%%%%%%%%%%%%%%%%Prepare the keypress queue listening.
% %get all the required keys in a vector
% p.ptb.keysOfInterest = [];
% for i = fields(p.keys)'
% p.ptb.keysOfInterest = [p.ptb.keysOfInterest KbName(p.keys.(i{1}))];
% end
% % RestrictKeysForKbCheck(p.ptb.keysOfInterest);
% KbQueueCreate(p.ptb.device);%, p.ptb.keysOfInterest);%default device.
Screen('TextSize', p.ptb.w, 20);
Screen('TextFont', p.ptb.w, 'Arial');
Screen('TextStyle', p.ptb.w, 1);
%% Make a gaussian aperture with the "alpha" channel
% to show images of faces and houses
gaussDim = 150;
gaussSigma = gaussDim / 3;
[xm, ym] = meshgrid(-gaussDim:gaussDim, -gaussDim:gaussDim);
gauss = exp(-(((xm .^2) + (ym .^2)) ./ (2 * gaussSigma^2)));
[s1, s2] = size(gauss);
mask = ones(s1, s2, 2) * p.stim.bg(1);
mask(:, :, 2) = 255 * (1 - gauss);
p.gaussian_aperture.masktex = Screen('MakeTexture', p.ptb.w, mask);
% Make a grey texture to cover the full window
p.gaussian_aperture.fullWindowMask = Screen('MakeTexture', p.ptb.w,...
ones(p.ptb.height, p.ptb.width) .* p.stim.bg(1)); %grey
% Make coordinates in which to draw the apertures into our full screen mask
% [xg, yg] = meshgrid(-3:1:3, -3:1:3);
xg = 0; yg = 0; % centre of aperture = centre of screen
spacing = gaussDim * 2;
xg = xg .* spacing + p.ptb.width / 2;
yg = yg .* spacing + p.ptb.height / 2;
xg = reshape(xg, 1, numel(xg));
yg = reshape(yg, 1, numel(yg));
% Make the destination rectangles for the gaussian apertures
p.gaussian_aperture.dstRects = nan(4, numel(xg));
for i = 1:numel(xg)
p.gaussian_aperture.dstRects(:, i) = CenterRectOnPointd([0 0 size(mask, 1), size(mask, 2)], xg(i), yg(i));
end
% Trick suggested by the PTB authors to avoid synchronization/calibration
% problems
figure(1)
plot(sin(0:0.1:3.14));
% Close figure with sin plot (PTB authors trick for synchronization)
close Figure 1
end
function p=InitEyeLink(p)
% Initialization of the connection with the Eyelink Gazetracker
% if we are not in dummy mode
if ~EyelinkInit(p.ET_dummymode, 1)
fprintf('Eyelink Init aborted.\n');
cleanup; % cleanup function
return
end
% if EyelinkInit(NoEyelink)%use 0 to init normaly
% fprintf('=================\nEyelink initialized correctly...\n')
% else
% fprintf('=================\nThere is problem in Eyelink initialization\n')
% keyboard;
% end
%
WaitSecs(0.5);
[~, vs] = Eyelink('GetTrackerVersion');
fprintf('=================\nRunning experiment on a ''%s'' tracker.\n', vs );
%
el = EyelinkInitDefaults(p.ptb.w);
%update the defaults of the eyelink tracker
el.backgroundcolour = p.stim.bg;
el.msgfontcolour = WhiteIndex(el.window);
el.imgtitlecolour = WhiteIndex(el.window);
el.targetbeep = 0;
el.calibrationtargetcolour = WhiteIndex(el.window);
el.calibrationtargetsize = 1.5;
el.calibrationtargetwidth = 0.5;
el.displayCalResults = 1;
el.eyeimgsize = 50;
el.waitformodereadytime = 25;%ms
el.msgfont = 'Arial';%'Times New Roman';
el.cal_target_beep = [0 0 0];%[1250 0.6 0.05];
%shut all sounds off
el.drift_correction_targetp.ptb.wid_beep = [0 0 0];
el.calibration_failed_beep = [0 0 0];
el.calibration_success_beep = [0 0 0];
el.drift_correction_failed_beep = [0 0 0];
el.drift_correction_success_beep= [0 0 0];
EyelinkUpdateDefaults(el);
PsychEyelinkDispatchCallback(el);
% open file.
% if p.subject <= -100
% p.edffile = 'samptest.edf';
% else
% p.edffile = sprintf('%d%d.edf', p.subject, p.block);
% end
% name of edf file to be created with eye tracking data - max
% number of characters = 8
if length(p.subject) < 7
p.edffile = [p.subject(3:end), 'S', num2str(p.session), 'R', num2str(p.run), '.edf']; %sprintf('S%d_B%d.edf', p.subject, p.block); % Maria
else
p.edffile = ['S', num2str(p.session), 'R', num2str(p.run), '.edf'];
end
res = Eyelink('Openfile', p.edffile); %#ok<NASGU>
% Eyelink('command', 'screen_pixel_coords = %ld %ld %ld %ld', 0, 0, p.ptb.width-1, p.ptb.height-1);
Eyelink('command', 'screen_pixel_coords = %ld %ld %ld %ld', 0, 0, p.ptb.width/2-1, p.ptb.height/2-1);
Eyelink('message', 'DISPLAY_COORDS %ld %ld %ld %ld', 0, 0, p.ptb.width-1, p.ptb.height-1);
pw = p.display.dimension(1);
ph = p.display.dimension(2);
phys_coord = sprintf('screen_phys_coords = %ld, %ld, %ld, %ld'...
, -floor(10*pw/2)... %half width
, floor(10*ph/2)... %half height
, floor(10*pw/2)... %half width
, -floor(10*ph/2)); %half height %rv 2
Eyelink('command', phys_coord);
Eyelink('command', 'screen_distance = %ld %ld', ...
10*p.display.distance(2), 10*p.display.distance(2)); %rv 3
% set calibration type.
Eyelink('command','auto_calibration_messages = YES');
% set calibration type.
Eyelink('command', 'calibration_type = HV9');
% you must send this command with value NO for custom calibration
% you must also reset it to YES for subsequent experiments
Eyelink('command', 'generate_default_targets = NO');
% STEP 5.1 modify calibration and validation target locations
calfact = .3;
Eyelink('command','calibration_samples = 10');
Eyelink('command','calibration_sequence = 0,1,2,3,4,5,6,7,8,9');
Eyelink('command','calibration_targets = %d,%d %d,%d %d,%d %d,%d %d,%d %d,%d %d,%d %d,%d %d,%d',...
p.ptb.width/2,p.ptb.height/2, p.ptb.width/2,p.ptb.height*calfact,...
p.ptb.width/2,p.ptb.height-p.ptb.height*calfact, p.ptb.width*calfact,p.ptb.height/2,...
p.ptb.width-p.ptb.width*calfact,p.ptb.height/2, ...
p.ptb.width*calfact,p.ptb.height*calfact, p.ptb.width-p.ptb.width*calfact,p.ptb.height-p.ptb.height*calfact,...
p.ptb.width-p.ptb.width*calfact,p.ptb.height*calfact, p.ptb.width*calfact,p.ptb.height-p.ptb.height*calfact);
Eyelink('command','validation_samples = 10');
Eyelink('command','validation_sequence = 0,1,2,3,4,5,6,7,8,9');
Eyelink('command','validation_targets = %d,%d %d,%d %d,%d %d,%d %d,%d %d,%d %d,%d %d,%d %d,%d',...
p.ptb.width/2,p.ptb.height/2, p.ptb.width/2,p.ptb.height*calfact,...
p.ptb.width/2,p.ptb.height-p.ptb.height*calfact, p.ptb.width*calfact,p.ptb.height/2,...
p.ptb.width-p.ptb.width*calfact,p.ptb.height/2, ...
p.ptb.width*calfact,p.ptb.height*calfact, p.ptb.width-p.ptb.width*calfact,p.ptb.height-p.ptb.height*calfact,...
p.ptb.width-p.ptb.width*calfact,p.ptb.height*calfact, p.ptb.width*calfact,p.ptb.height-p.ptb.height*calfact);
Eyelink('command', 'select_parser_configuration = 1');
%what do we want to record
Eyelink('command', 'file_sample_data = LEFT,RIGHT,GAZE,HREF,AREA,GAZERES,STATUS,INPUT,HTARGET');
Eyelink('command', 'file_event_filter = LEFT,RIGHT,FIXATION,SACCADE,BLINK,MESSAGE,BUTTON,INPUT');
Eyelink('command', 'use_ellipse_fitter = no');
% set sample rate in camera setup screen
% Eyelink('command', 'sample_rate = %d',1000);
Eyelink('command', 'sample_rate = %d',500);
end
function StopEyelink(filename, path_edf)
if p.ET_dummymode == 0
try
% RESET custom calibration back
Eyelink('command', 'generate_default_targets = YES');
fprintf('Trying to stop the Eyelink system with StopEyelink\n');
Eyelink('StopRecording');
WaitSecs(0.5);
Eyelink('Closefile');
% display('receiving the EDF file...');
Eyelink('ReceiveFile', filename, path_edf);
% display('...finished!')
% Shutdown Eyelink:
Eyelink('Shutdown');
disp('EyeLink stopped')
catch
disp('StopEyeLink routine didn''t really run well')
end
end
end
function cleanup(p)
% Close window:
RestoreCluts()
%Screen('flip', p.ptb.w)
sca;
%set back the old resolution
if strcmp(p.hostname,'triostim1')
% Screen('Resolution',p.ptb.screenNumber, p.ptb.oldres.width, p.ptb.oldres.height );
%show the cursor
ShowCursor(p.ptb.screenNumber);
end
commandwindow;
% KbQueueStop(p.ptb.device);
% KbQueueRelease(p.ptb.device);
end
function CalibrateEL
fprintf('=================\n=================\nEntering Eyelink Calibration\n')
p.var.Expphase_variable = 0;
EyelinkDoTrackerSetup(el);
%Returns 'messageString' text associated with result of last calibration
[~, messageString] = Eyelink('CalMessage');
Eyelink('Message','%s', messageString);%
WaitSecs(0.05);
fprintf('=================\n=================\nNow we are done with the calibration\n')
% if numel(p.ptb.gamma, 2) > 0
% [old_table] = Screen('LoadNormalizedGammaTable', p.ptb.w, p.ptb.gamma);
% p.ptb.gamma_loaded = true;
% p.ptb.old_gamma = old_table;
% p.ptb.gamma_loaded = false;
% else
p.ptb.gamma_loaded=false;
% end
end
function p = Log(p, ptb_time, event_type, event_info)
% for iii = 1:length(ptb_time)
p.out.event_count = p.out.event_count + 1;
p.out.log{p.out.event_count} = {ptb_time event_type event_info};
% p.out.log{p.out.event_count} = {ptb_time(iii) event_type event_info(iii)};
%fprintf('LOG: %2.2f, %i, %s, %s, %i \n', ptb_time, event_type, event_info, phase_variable, block)
% end
end
function [keycode, secs] = KbQueueDump(p)
%[keycode, secs] = KbQueueDump
% Will dump all the events accumulated in the queue.
keycode = [];
secs = [];
pressed = [];
while KbEventAvail(p.ptb.device)
[evt, n] = KbEventGet(p.ptb.device);
n = n + 1;
keycode(n) = evt.Keycode; %#ok<AGROW>
pressed(n) = evt.Pressed; %#ok<AGROW>
secs(n) = evt.Time; %#ok<AGROW>
end
i = pressed == 1;
keycode(~i) = [];
secs(~i) = [];
end
function [keyIsDown, firstPress] = check_kbqueues(devices) %#ok<DEFNU>
firstPress = boolean(zeros(1, 256));
keyIsDown = false;
for device = devices
[kD, fP] = PsychHID('KbQueueCheck', device);
keyIsDown = keyIsDown | kD;
firstPress = firstPress | boolean(fP);
end
end
function p = save_data(p)
% p.save_time = datestr(now, 'dd-mmm-yyyy HH:MM:SS');
p.save_time = datestr(now, 'yyyymmddTHHMMSS');
rst = randstr(5);
p.random_string = rst;
% if length(p.subject) < 7
% p.edffile = [p.subject(3:end), 'S', num2str(p.session), 'R', num2str(p.run)]; %sprintf('S%d_B%d.edf', p.subject, p.block); % Maria
% else
% p.edffile = ['S', num2str(p.session), 'R', num2str(p.run)];
% end
% path_edf = fullfile(p.path.baselocation, sprintf(p.subject, p.block));
path_edf = fullfile(p.path.baselocation, p.edffile);
path_data = [p.path.baselocation, filesep p.subject, rst];
%get the eyelink file back to this computer
StopEyelink(p.edffile, path_edf);
%trim the log file and save
p.out.log = p.out.log(1:p.out.event_count);
%shift the time so that the first timestamp is equal to zero
%p.out.log(:,1) = p.out.log(:,1) - p.out.log(1);
%p.out.log = p.out.log;%copy it to the output variable.
save(path_data, 'p');
end
function r = randstr(n)
symbols = ['a':'z' 'A':'Z' '0':'9'];
stLength = randi(n);
nums = randi(numel(symbols),[1 stLength]);
r = symbols (nums);