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behavioural_data_onset_duration.m
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behavioural_data_onset_duration.m
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function [ev] = behavioural_data_onset_duration(filename,response_button)
% Updated Dec 2018
% Based on script by Adam McNamara, edited by Philip Dean
% READS BEHAVIOURAL FILE TO GET TIMING OF BLOCKS
% (NB: This is for block design fMRI study. Event related needs this for
% each individual stimuli)
% First level analysis needs block start and block duration (or event start/duration) relative to start of fMRI scan.
% Also find timing of other factors, especially rest screen (and intro
% screen, feedback, stimuli and response)
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Define variables to be used in script
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
ev = {}; % This is the ev variable that is reported out by the script
%%%% These subvariable arrays are made when going through the logfile below
ev.blockstartend = []; % This is a sub-variable in ev which notes start and end of block: [Block, Block_Type, StartEnd, Time]
ev.stimulus = []; % Stimuli in Block: [Block, Block_Type, Actual_Number, Is_Target, Time]
ev.stimulus_other = []; % Other Stimuli (outside block): [Block, Block_Type, Stimuli_Type, Time]
ev.response = []; % Response in Block: [Block, Exp_Block, Block_Type, Response_Code, Is_Target, Time]
ev.response_other = []; % Response outside block: [Block, Block_Type, Response_Code, Time]
ev.pulse_timing = []; % Timing of MRI Pulse: [Block, Block_Type, Time]
%%%% These are variables used in making the arrays above
Block = 0; % Counts up number of blocks
Exp_Block = 0; % Counts up number of task (non-rest) blocks.
BlockType = 0; % 1=Rest; 2=0-Back; 3=2-Back; 4=4-Back; 0=Beginning of experiment
startend = 2; % 0=In Block; 1=End of Block & Between Block; 2=Beginning of Experiment
first_time_only = 0; % Make sure that only counts first MRI pulse as start of session
stim_other_type = 0; % 1=nBack Intro Screen, 2=Rest Intro Screen, 3=Intro Rest, 4=Intro 0-Back, 5=Intro 2-Back, 6=Intro 4-Back
response_on = 0; % Determines whether to record response and prevents a double response to one stimuli 0=record response; 1=don't record response (response outside Block, and prevents a double response to one stimuli)
is_target = 0; % Whether stimuli is "target" or not: 0=non-target; 1=target
%%%% These subvariable arrays created from above arrays after going through logfile
ev.blockstartduration = []; % This is in the format onset/duration as needed by 1st level analysis [Block, Block_Type, StartEnd, Time, Duration]
ev.blockstartduration_rest = []; % [Block, Block_Type, StartEnd, Time, Duration]
ev.blockstartduration_task = []; % [Block, Block_Type, StartEnd, Time, Duration]
ev.blockstartduration_task_adjusted = [];% Adjusted for start of block (time_adjust_2 below)
ev.percent_correct = []; % USED IN FIRST LEVEL PARAMETRIC ANALYSIS [Block, Block_Type, Total % Correct, Target % Correct, Non-Target % Correct]
singleblock = []; % used in percent correct calculation
%%%% These are variables used in making the arrays above
num_correct_T = 0; % Number Correct: Target
num_correct_N = 0; % Number Correct: Non-Target
num_correct = 0; % Total Number Correct
%%%% Constants for your experiment type. used in percent correct calculation
trial_per_block = 15;
target_stimuli_block = 5;
nontarget_stimuli_block = 10;
time_adjust_1 = 60000; % seconds between intro screen and start of block in first experiment
time_adjust_2 = 21500; % seconds between Pulse MR screen and start of block in main experiment
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Main Script
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
fid = fopen(filename); % opens the logfile
begin = 0; %identifies first trial and switches to collecting data
%%%%%%%%%%%% Code works out if at end of logfile by finding 20 consecutive "gaps"
%%%%%%%%%%%% in logfile
keeplooking = 0; % ignores the occasional gap in the file but notices the end of the file
while keeplooking < 20; % i.e more than 20 empty returns signals end of file
a = fscanf(fid,'%s',1); %this just looks for the next bit of info and reads as string.
if strcmp(a,''); keeplooking = keeplooking+1; else keeplooking = 0; end; %counts number of times there is nothing returned
%%%%%%%%%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Code for responses and stimuli in logfile
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Pulses (MRI Pulse, for EEG-MRI only)
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
if strcmp(a,'Pulse')
Code = fscanf(fid,'%s',1); % Next column with entry is the "code" column (100 for Pulse)
Time = fscanf(fid,'%s',1); % Next column with entry is "Time" column
CodePulse = str2num(Code);
if first_time_only == 0;
if CodePulse == 100;
sess_start=str2num(Time); % Works out when session started from first MRI Pulse
first_time_only = 1; % Makes sure only
end
else
if CodePulse == 100;
ev.pulse_timing = [ev.pulse_timing;[Block BlockType [str2num(Time)-sess_start]]];
end
end
end
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Responses
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
if strcmp(a,'Response')
Code = fscanf(fid,'%s',1);
Time = fscanf(fid,'%s',1);
CodeNum = str2num(Code);
% if CodeNum == 5; % This is the mouse button press that usually starts the experiment
% sess_start=str2num(Time); % Works out when session started from first press of mouse button (CodeNum 5)
% sess= sess + 1;
% end
if exist('sess_start');
if startend == 0; % Responses during blocks
if response_on == 0; % Response only recorded if response_on = 0 (prevents recording double hit of button)
ev.response = [ev.response;[Block Exp_Block BlockType CodeNum is_target [str2num(Time)-sess_start]]];
response_on = 1; % means next response will not be counted unless response_on reset to 0 (prevents recording double hit of button)
elseif response_on == 1;
end
else % startend=2 (beginning of block); startend=1 (responses between blocks)
if response_on == 0;
ev.response_other = [ev.response_other;[Block BlockType CodeNum [str2num(Time)-sess_start]]];
response_on = 1;
elseif response_on == 1;
end
end
end
end;
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Stimuli
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
if strcmp(a,'Picture')
Code = fscanf(fid,'%s',1);
Code2 = fscanf(fid,'%s',1);
switch Code2 % used to look at each instance of what is in this position in the logfile in turn
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Start Block Screens %%%%%%%%%%%%%%%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
case 'Block' %%%% Rest Block
TrialCode = fscanf(fid,'%s',1);
TrialCode2 = fscanf(fid,'%s',1);
Time = fscanf(fid,'%s',1);
Block = Block + 1;
BlockType = 1;
startend = 0; % Start of Block = 0
response_on = 1; % to prevent first button press being registered in % correct
ev.blockstartend = [ev.blockstartend;[Block BlockType startend [str2num(Time)-sess_start]]];
case 'MR' %%%% Post MR Pulse 0-Back; Post MR Pulse 2-Back; Post MR Pulse 4-Back;
Code3 = fscanf(fid,'%s',1);
Code4 = fscanf(fid,'%s',1);
TrialCode = fscanf(fid,'%s',1);
TrialCode2 = fscanf(fid,'%s',1);
TrialCode3 = fscanf(fid,'%s',1);
TrialCode4 = fscanf(fid,'%s',1);
Time = fscanf(fid,'%s',1);
%Time_Adjust = Time + 21660; % Adjust as the info screen lasts 2.15s (2.166 in logfile)
if strcmp(Code4,'0-Back') == 1 %%%% Post MR Pulse 0-Back
Block = Block + 1;
Exp_Block = Exp_Block + 1;
BlockType = 2;
startend = 0; % Start of Block = 0
response_on = 1; % to prevent first button press being registered in % correct
ev.blockstartend = [ev.blockstartend;[Block BlockType startend [str2num(Time)-sess_start]]];
elseif strcmp(Code4,'2-Back') == 1 %%%% Post MR Pulse 2-Back
Block = Block + 1;
Exp_Block = Exp_Block + 1;
BlockType = 3;
startend = 0; % Start of Block = 0
response_on = 1; % to prevent first button press being registered in % correct
ev.blockstartend = [ev.blockstartend;[Block BlockType startend [str2num(Time)-sess_start]]];
elseif strcmp(Code4,'4-Back') == 1 %%%% Post MR Pulse 0-Back THIS NEVER OCCURS IN LOGFILE!
Block = Block + 1;
Exp_Block = Exp_Block + 1;
BlockType = 4;
startend = 0; % Start of Block = 0
response_on = 1; % to prevent first button press being registered in % correct
ev.blockstartend = [ev.blockstartend;[Block BlockType startend [str2num(Time)-sess_start]]];
end
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% End Block Screens %%%%%%%%%%%%%%%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
case 'Rest' %%%% Intro Rest; EndBl Rest
TrialCode = fscanf(fid,'%s',1);
TrialCode2 = fscanf(fid,'%s',1);
Time = fscanf(fid,'%s',1);
if strcmp(TrialCode,'EndBl') == 1 %%%% EndBl Rest
startend = 1; % End of Block = 1
response_on = 0;
ev.blockstartend = [ev.blockstartend;[Block BlockType startend [str2num(Time)-sess_start]]];
elseif strcmp(TrialCode,'Intro') == 1
stim_other_type = 3;
response_on = 1; % means next response is not recorded
ev.stimulus_other = [ev.stimulus_other;[Block BlockType stim_other_type [str2num(Time)-sess_start]]];
end
case '0-Back' %%%% EndBl 0-Back
TrialCode = fscanf(fid,'%s',1);
TrialCode2 = fscanf(fid,'%s',1);
Time = fscanf(fid,'%s',1);
startend = 1; % End of Block = 1
response_on = 0;
ev.blockstartend = [ev.blockstartend;[Block BlockType startend [str2num(Time)-sess_start]]];
case '2-Back' %%%% EndBl 2-Back
TrialCode = fscanf(fid,'%s',1);
TrialCode2 = fscanf(fid,'%s',1);
Time = fscanf(fid,'%s',1);
startend = 1; % End of Block = 1
response_on = 0;
ev.blockstartend = [ev.blockstartend;[Block BlockType startend [str2num(Time)-sess_start]]];
case '4-Back' %%%% EndBl 4-Back
TrialCode = fscanf(fid,'%s',1);
TrialCode2 = fscanf(fid,'%s',1);
Time = fscanf(fid,'%s',1);
startend = 1; % End of Block = 1
response_on = 0;
ev.blockstartend = [ev.blockstartend;[Block BlockType startend [str2num(Time)-sess_start]]];
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Before Experiment Stimuli (and before block for n-Back) %%%%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
case 'Intro' %%%% nBack Intro Screen; Rest Intro Screen
Code3 = fscanf(fid,'%s',1);
TrialCode = fscanf(fid,'%s',1); %%%% nBack or Rest
TrialCode2 = fscanf(fid,'%s',1); %%%% Intro
TrialCode3 = fscanf(fid,'%s',1); %%%% Screen
if strcmp(TrialCode,'nBack') == 1
Time = fscanf(fid,'%s',1);
stim_other_type = 1;
response_on = 1; % means next response is not recorded
ev.stimulus_other = [ev.stimulus_other;[Block BlockType stim_other_type [str2num(Time)-sess_start]]];
elseif strcmp(TrialCode,'Rest') == 1
Time = fscanf(fid,'%s',1);
stim_other_type = 2;
response_on = 1; % means next response is not recorded
ev.stimulus_other = [ev.stimulus_other;[Block BlockType stim_other_type [str2num(Time)-sess_start]]];
end
case '0' %%%% Intro 0 n-Back
Code3 = fscanf(fid,'%s',1);
TrialCode = fscanf(fid,'%s',1);
TrialCode2 = fscanf(fid,'%s',1);
TrialCode3 = fscanf(fid,'%s',1);
Time = fscanf(fid,'%s',1);
stim_other_type = 4;
response_on = 1; % means next response is not recorded
ev.stimulus_other = [ev.stimulus_other;[Block BlockType stim_other_type [str2num(Time)-sess_start]]];
%%%%%%% Code used for those logfiles without "Post MR Pulse n-Back"
%Block = Block + 1;
%BlockType = 2;
%startend = 0; % Start of Block = 0
%ev.blockstartend = [ev.blockstartend;[Block BlockType startend [str2num(Time)-sess_start]]];
case '2' %%%% Intro 2 n-Back
Code3 = fscanf(fid,'%s',1);
TrialCode = fscanf(fid,'%s',1);
TrialCode2 = fscanf(fid,'%s',1);
TrialCode3 = fscanf(fid,'%s',1);
Time = fscanf(fid,'%s',1);
stim_other_type = 5;
response_on = 1; % means next response is not recorded
ev.stimulus_other = [ev.stimulus_other;[Block BlockType stim_other_type [str2num(Time)-sess_start]]];
%%%%%%% Code used for those logfiles without "Post MR Pulse n-Back"
%Block = Block + 1;
%BlockType = 3;
%startend = 0; % Start of Block = 0
%ev.blockstartend = [ev.blockstartend;[Block BlockType startend [str2num(Time)-sess_start]]];
case '4' %%%% Intro 4 n-Back
Code3 = fscanf(fid,'%s',1);
TrialCode = fscanf(fid,'%s',1);
TrialCode2 = fscanf(fid,'%s',1);
TrialCode3 = fscanf(fid,'%s',1);
Time = fscanf(fid,'%s',1);
stim_other_type = 6;
response_on = 1; % means next response is not recorded
ev.stimulus_other = [ev.stimulus_other;[Block BlockType stim_other_type [str2num(Time)-sess_start]]];
%%%%%%% Code used for those logfiles without "Post MR Pulse n-Back"
%Block = Block + 1;
%BlockType = 4;
%startend = 0; % Start of Block = 0
%ev.blockstartend = [ev.blockstartend;[Block BlockType startend [str2num(Time)-sess_start]]];
%%%%%%%%%% All Stimuli in the block (all the numbers 1-9)
otherwise %%%% All Stimuli in the Block
TrialCode = fscanf(fid,'%s',1);
TrialCode2 = fscanf(fid,'%s',1);
Number = fscanf(fid,'%s',1);
Target = fscanf(fid,'%s',1);
Time = fscanf(fid,'%s',1);
NumberNum = str2num(Number);
switch Target
case 'Yes' %%%% Number is a Target
is_target = 1;
response_on = 0; % Next response counted
ev.stimulus = [ev.stimulus;[Block BlockType NumberNum is_target [str2num(Time)-sess_start]]];
case 'No' %%%% Number is Non-Target
is_target = 0;
response_on = 0; % Next response counted
ev.stimulus = [ev.stimulus;[Block BlockType NumberNum is_target [str2num(Time)-sess_start]]];
otherwise %%%% Is Not a Yes (Target) or No (Non-Target) Stimuli - Ignores it.
end;
end;
end; % END Looking for Event Type "Picture"
end; % END "while keep looking<20", i.e. end looking at logfile
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%%% End of Looking through Logfile
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%%%%% AND NOW
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Modification of existing arrays
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Create Block Start Duration array %%%%%%%%%%%%%%%%%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
ev.blockstartduration=ev.blockstartend(find(ev.blockstartend(:,3) == 0),:); % find start of each block
ev.blockstartduration=[ev.blockstartduration ev.blockstartend(find(ev.blockstartend(:,3) == 1),end)-ev.blockstartduration(:,end)]; % add duration at end of array
%%%% [Block, Block_Type, StartEnd, Time, Duration]
ev.blockstartduration(4,2) = 4; % Change "block_type" to 4 (from 3) for 4-Back
ev.blockstartduration(6,2) = 4;
ev.blockstartduration(12,2) = 4;
ev.blockstartduration(13,2) = 4;
ev.blockstartduration(19,2) = 4;
ev.blockstartduration(22,2) = 4;
ev.blockstartduration(29,2) = 4;
ev.blockstartduration(33,2) = 4;
ev.blockstartduration(34,2) = 4;
ev.blockstartduration(38,2) = 4;
ev.blockstartduration_rest = ev.blockstartduration(find(ev.blockstartduration(:,2) == 1),:);
ev.blockstartduration_task = ev.blockstartduration(find(ev.blockstartduration(:,2) == 2 | ev.blockstartduration(:,2) == 3 | ev.blockstartduration(:,2) == 4),:);
ev.blockstartduration_task_adjusted = ev.blockstartduration_task;
ev.blockstartduration_task_adjusted(:,4) = (ev.blockstartduration_task_adjusted(:,4)+ time_adjust_2);
ev.blockstartduration_task_adjusted(:,5) = (ev.blockstartduration_task_adjusted(:,5)- time_adjust_2);
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%% Create Percent Correct Array %%%%%%%%%%%%%%%%%%%%%%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
if response_button == 1;
if isempty(ev.response) == 1; %if no responses at all
else
for ii = 1:size(ev.blockstartduration_task_adjusted, 1)
ev.singleblock = ev.response((find(ev.response(:,2) == ii)), :); % find only block ii (block 1-Block)
num_correct_T = size(find(ev.singleblock(:,4) == 1 & ev.singleblock(:,5) == 1)); % Num correct target: response = 2 and is_target = 1
num_correct_N = size(find(ev.singleblock(:,4) == 2 & ev.singleblock(:,5) == 0)); % Num correct non-target: response = 1 and is_target = 0
num_correct = num_correct_T(1,1) + num_correct_N(1,1); % add these two together
ev.percent_correct = [ev.percent_correct;[ii ev.singleblock(1,3) ((num_correct/trial_per_block)*100) ((num_correct_T(1,1)/target_stimuli_block)*100) ((num_correct_N(1,1)/nontarget_stimuli_block)*100)]];
%%%% [ExpBlock, Block_Type, Total % Correct, Target % Correct, Non-Target % Correct]
end;
end
elseif response_button == 2;
if isempty(ev.response) == 1; %if no responses at all
else
for ii = 1:size(ev.blockstartduration_task_adjusted, 1) % For each of the Blocks
ev.singleblock = ev.response((find(ev.response(:,2) == ii)), :); % find only block ii (block 1-Block)
num_correct_T = size(find(ev.singleblock(:,4) == 2 & ev.singleblock(:,5) == 1)); % Num correct target: response = 2 and is_target = 1
num_correct_N = size(find(ev.singleblock(:,4) == 1 & ev.singleblock(:,5) == 0)); % Num correct non-target: response = 1 and is_target = 0
num_correct = num_correct_T(1,1) + num_correct_N(1,1); % add these two together
ev.percent_correct = [ev.percent_correct;[ii ev.singleblock(1,3) ((num_correct/trial_per_block)*100) ((num_correct_T(1,1)/target_stimuli_block)*100) ((num_correct_N(1,1)/nontarget_stimuli_block)*100)]];
%%%% [ExpBlock, Block_Type, Total % Correct, Target % Correct, Non-Target % Correct]
end;
end
end
ev.percent_correct(3,2) = 4; % Change "block_type" to 4 (from 3) for 4-Back
ev.percent_correct(5,2) = 4;
ev.percent_correct(10,2) = 4;
ev.percent_correct(11,2) = 4;
ev.percent_correct(15,2) = 4;
ev.percent_correct(18,2) = 4;
ev.percent_correct(22,2) = 4;
ev.percent_correct(26,2) = 4;
ev.percent_correct(27,2) = 4;
ev.percent_correct(29,2) = 4;