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pop_taskinfo.m
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pop_taskinfo.m
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% pop_taskinfo() - BIDS task information
%
% Usage:
% EEG = pop_taskinfo(EEG);
%
% Inputs:
% EEG - EEGLAB dataset or group of dataset
%
% Optional input:
% 'default' - generate BIDS event info using default values without
% popping up the GUI
%
% Authors: Arnaud Delorme, Dung Truong SCCN, INC, UCSD, 2020
% Copyright (C) Arnaud Delorme, 2020
%
% This program is free software; you can redistribute it and/or modify
% it under the terms of the GNU General Public License as published by
% the Free Software Foundation; either version 2 of the License, or
% (at your option) any later version.
%
% This program is distributed in the hope that it will be useful,
% but WITHOUT ANY WARRANTY; without even the implied warranty of
% MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
% GNU General Public License for more details.
%
% You should have received a copy of the GNU General Public License
% along with this program; if not, write to the Free Software
% Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
function [EEG,com] = pop_taskinfo(EEG, varargin)
%% Default settings
bg = [0.65 0.76 1];
fg = [0 0 0.4];
fontSize = 11;
tfHeight = 0.035;
f = figure('MenuBar', 'None', 'ToolBar', 'None', 'Name', 'BIDS task information -- pop_taskinfo()', 'Color', bg, 'IntegerHandle','off');
f.Position(3) = 1200;
f.Position(4) = 900;
halfWidth = 0.5;
%% Generic task info
leftMargin = 0.02;
fullWidth = halfWidth - leftMargin - 0.04;
tfWidth = 0.35*fullWidth;
efWidth = 0.63*fullWidth;
efLeftMargin = leftMargin + tfWidth + 0.01;
top = 0.92;
uicontrol('Style', 'text', 'string', 'BIDS task information', 'fontweight', 'bold', 'fontsize',13,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top halfWidth 0.05]);
top = top - 0.03;
uicontrol('Style', 'text', 'string', 'Dataset name*','fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '', 'tag', 'Name','fontsize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight]);
top = top - tfHeight - 0.01;
uicontrol('Style', 'text', 'string', 'Task name (no space)','fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '', 'tag', 'TaskName','fontsize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight]);
top = top - tfHeight - 0.01;
uicontrol('Style', 'text', 'string', 'For several tasks, use bids_export.m from the command line', 'BackgroundColor',bg,'fontsize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight]);
top = top - tfHeight - 0.01;
uicontrol('Style', 'text', 'string', 'README (short introduction to the experiment):','fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top fullWidth tfHeight]);
top = top - tfHeight*2.2;
uicontrol('Style', 'edit', 'string', '', 'tag', 'README','fontsize',fontSize, 'HorizontalAlignment', 'left', 'max', 3,'Units', 'normalized', 'Position', [leftMargin top fullWidth tfHeight*2.5]);
top = top - tfHeight - 0.01;
uicontrol('Style', 'text', 'string', 'Participant task description (description of the experiment):','fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top fullWidth tfHeight]);
top = top - tfHeight*2.7;
uicontrol('Style', 'edit', 'string', '', 'tag', 'TaskDescription','fontsize',fontSize, 'HorizontalAlignment', 'left', 'max', 3,'Units', 'normalized', 'Position', [leftMargin top fullWidth tfHeight*3]);
top = top - tfHeight - 0.01;
uicontrol('Style', 'text', 'string', 'Participant instructions (as exact as possible):','fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top fullWidth tfHeight]);
top = top - tfHeight*2.7;
uicontrol('Style', 'edit', 'string', '', 'tag', 'Instructions', 'HorizontalAlignment', 'left', 'max', 3,'Units', 'normalized', 'Position', [leftMargin top fullWidth tfHeight*3]);
top = top - tfHeight - 0.02;
uicontrol('Style', 'text', 'string', 'Authors','fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '', 'tag', 'Authors','fontsize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight]);
top = top - tfHeight - 0.005;
uicontrol('Style', 'text', 'string', 'References and links','fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '', 'tag', 'ReferencesAndLinks','fontsize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight]);
top = top - tfHeight - 0.005;
cm = uicontextmenu(f);
m1 = uimenu(cm,'Text','Lookup CognitiveAtlas TermURL','MenuSelectedFcn',{@btnCB,'http://www.cognitiveatlas.org/tasks/a/'});
tooltip = sprintf('URL of the corresponding Cognitive Atlas term that describes the task.\nRight click to lookup.');
uicontrol('Style', 'text', 'string', 'Task-relevant Cognitive Atlas term', 'Tooltip',tooltip,'UIContextMenu', cm,'fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top-0.005 tfWidth tfHeight+0.01]);
uicontrol('Style', 'edit', 'string', '', 'tag', 'CogAtlasID','fontsize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight]);
top = top - tfHeight - 0.005;
cm = uicontextmenu(f);
m1 = uimenu(cm,'Text','Lookup CogPO TermURL','MenuSelectedFcn',{@btnCB,'http://wiki.cogpo.org/index.php?title=Main_Page'});
tooltip = sprintf('URL of the corresponding CogPO term that describes the task.\nRight click to lookup.');
uicontrol('Style', 'text', 'string', 'Task-relevant CogPO term', 'Tooltip',tooltip,'UIContextMenu', cm,'fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top 0.35*fullWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '', 'tag', 'CogPOID','fontsize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight]);
top = top - tfHeight - 0.005;
uicontrol('Style', 'text', 'string', 'Institution','fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '', 'tag', 'InstitutionName','fontsize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight]);
top = top - tfHeight - 0.005;
uicontrol('Style', 'text', 'string', 'Department','fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '', 'tag', 'InstitutionalDepartmentName','fontsize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight]);
top = top - tfHeight - 0.005;
uicontrol('Style', 'text', 'string', 'Institution location','fontsize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg, 'HorizontalAlignment','left','Units', 'normalized', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '', 'tag', 'InstitutionAddress','fontsize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight]);
uicontrol(f, 'Style', 'pushbutton', 'String', 'Help', 'FontSize',fontSize, 'Units', 'normalized', 'Position', [0.05 0.01 0.15 0.04], 'Callback', @helpCB);
uicontrol(f, 'Style', 'pushbutton', 'String', 'Ok', 'FontSize',fontSize, 'Units', 'normalized', 'Position', [0.80 0.01 0.15 0.04], 'Callback', @okCB);
uicontrol(f, 'Style', 'pushbutton', 'String', 'Cancel', 'FontSize',fontSize, 'Units', 'normalized', 'Position', [0.64 0.01 0.15 0.04], 'Callback', @cancelCB);
%% EEG specific info
leftMargin = halfWidth;
fullWidth = halfWidth - 0.03;
tfWidth = 0.4*fullWidth;
efWidth = 0.6*fullWidth;
efLeftMargin = leftMargin + tfWidth + 0.01;
top = 0.92;
uicontrol('Style', 'text', 'string', 'BIDS EEG acquisition information', 'Units', 'normalized','FontSize',13,'FontWeight','bold','BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top 0.4 0.05]);
top = top-0.03;
uicontrol('Style', 'text', 'string', 'Cap manufacturer', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '','tag', 'CapManufacturer', 'FontSize',fontSize, 'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style', 'text', 'string', 'Cap model', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '','tag', 'CapManufacturersModelName', 'FontSize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style', 'text', 'string', 'EEG reference location*', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '','tag', 'EEGReference', 'FontSize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style', 'text', 'string', 'EEG ground electrode location', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '','tag', 'EEGGround', 'FontSize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style', 'text', 'string', 'EEG montage system (10-20, 10-10, custom)', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '','tag', 'EEGPlacementScheme', 'FontSize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style', 'text', 'string', 'EEG amplifier maker', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '','tag', 'Manufacturer', 'FontSize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style', 'text', 'string', 'EEG amplifier model', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight], 'Callback', @editedCB);
uicontrol('Style', 'edit', 'string', '','tag', 'ManufacturersModelName', 'FontSize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style', 'text', 'string', 'EEG amplifier serial #', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '','tag', 'DeviceSerialNumber', 'FontSize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style', 'text', 'string', 'EEG acquisition software version', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight]);
uicontrol('Style', 'edit', 'string', '','tag', 'SoftwareVersions', 'FontSize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style', 'text', 'string', 'Hardware filters', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight+0.002]);
uicontrol('Style', 'edit', 'string', '','tag', 'HardwareFilters','FontSize',fontSize, 'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style', 'text', 'string', 'Software filters*', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight+0.002]);
uicontrol('Style', 'edit', 'string', '','tag', 'SoftwareFilters', 'FontSize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth tfHeight], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style', 'text', 'string', 'Line frequency (Hz)*', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth 0.05]);
uicontrol('Style', 'popupmenu', 'string', {'Select','50','60'},'tag', 'PowerLineFrequency', 'FontSize',fontSize,'Units', 'normalized', 'Position', [efLeftMargin top efWidth 0.05], 'Callback', @editedCB);
top = top-0.06;
uicontrol('Style','text','string','* Required field', 'Units', 'normalized','FontSize',fontSize,'BackgroundColor',bg,'ForegroundColor',fg,'HorizontalAlignment','left', 'Position', [leftMargin top tfWidth tfHeight]);
% prefill data
preFill();
if nargin < 2
%% wait
waitfor(f);
elseif nargin < 3 && ischar(varargin{1}) && strcmp(varargin{1}, 'default')
okCB('','');
end
%% history
com = sprintf('EEG = pop_taskinfo(EEG);');
%% Helper functions
function btnCB(src,event, url)
web(url);
end
function helpCB(src,event)
pophelp('pop_taskinfo');
end
function okCB(src,event)
for a=1:numel(EEG)
bids = [];
tInfo = [];
gInfo = [];
% preserve current BIDS info if have
if isfield(EEG(a), 'BIDS')
bids = EEG(a).BIDS;
if isfield(bids, 'tInfo')
tInfo = bids.tInfo;
end
if isfield(bids, 'gInfo')
gInfo = bids.gInfo;
end
end
% update tInfo and gInfo from input fields
objs = findall(f);
for i=1:numel(objs)
if ~isempty(objs(i).Tag)
if ~isempty(objs(i).String)
switch objs(i).Tag
case {'README', 'TaskDescription', 'Instructions'}
tmp = objs(i).String;
if ndims(tmp) > 1 && size(tmp,1) > 1
tmp = reformatchartostring(tmp);
end
gInfo.(objs(i).Tag) = tmp;
case 'TaskName' % no space allowed for task name
gInfo.(objs(i).Tag) = strrep(objs(i).String,' ','');
case {'Authors', 'ReferencesAndLinks'}
gInfo.(objs(i).Tag) = split(objs(i).String, ', ');
case 'PowerLineFrequency'
tInfo.(objs(i).Tag) = str2double(objs(i).String{objs(i).Value});
case {'SoftwareFilters', 'HardwareFilters'}
tInfo.(objs(i).Tag) = [];
tInfo.(objs(i).Tag).FilterDescription.Description = objs(i).String;
otherwise
tInfo.(objs(i).Tag) = objs(i).String;
end
elseif isfield(tInfo,objs(i).Tag) % remove field if no longer has value
tInfo = rmfield(tInfo, objs(i).Tag);
end
end
end
% make sure it's struct datatype when empty
if isempty(gInfo)
gInfo = struct([]);
end
if isempty(tInfo)
tInfo = struct([]);
end
% update BIDS structure
bids.tInfo = tInfo;
bids.gInfo = gInfo;
EEG(a).BIDS = bids;
EEG(a).saved = 'no';
end
close(f);
end
function cancelCB(src, event)
close(f);
end
function preFill()
prevtInfo = gettInfo(EEG);
if ~isempty(prevtInfo)
objs = findall(f);
for i=1:numel(objs)
if ~isempty(objs(i).Tag) && isfield(prevtInfo, objs(i).Tag)
if strcmp(objs(i).Style, 'popupmenu') % dropdown
objs(i).Value = find(strcmp(objs(i).String, num2str(prevtInfo.(objs(i).Tag)))); % set position of dropdown menu to the appropriate string
elseif strcmp(objs(i).Tag, 'HardwareFilters') || strcmp(objs(i).Tag, 'SoftwareFilters')
if ischar(prevtInfo.(objs(i).Tag)) % accommodate previous code
objs(i).String = prevtInfo.(objs(i).Tag);
else
objs(i).String = prevtInfo.(objs(i).Tag).FilterDescription.Description;
end
else
objs(i).String = char(prevtInfo.(objs(i).Tag));
end
end
end
end
prevgInfo = getgInfo(EEG);
if ~isempty(prevgInfo)
objs = findall(f);
for i=1:numel(objs)
if ~isempty(objs(i).Tag) && isfield(prevgInfo, objs(i).Tag)
if strcmp(objs(i).Style, 'popupmenu') % dropdown
objs(i).Value = find(strcmp(objs(i).String, prevgInfo.(objs(i).Tag))); % set position of dropdown menu to the appropriate string
else
if iscell(prevgInfo.(objs(i).Tag)) %e.g., Authors & ReferencesAndLinks
tmp = sprintf('%s, ', prevgInfo.(objs(i).Tag){:}); % unpack multiple entries
objs(i).String = tmp(1:end-2); % remove trailing comma and space
else
objs(i).String = prevgInfo.(objs(i).Tag);
end
end
end
end
end
end
function tInfo = gettInfo(EEG)
hasBIDS = arrayfun(@(x) isfield(x,'BIDS') && ~isempty(x.BIDS),EEG);
if sum(hasBIDS) == 0 %if no BIDS found for any EEG
tInfo = struct([]);
else % at least one EEG has BIDS
if sum(hasBIDS) < numel(EEG) % not all have BIDS
warning('Not all EEG contains BIDS information.');
end
hastInfo = arrayfun(@(x) isfield(x,'BIDS') && isfield(x.BIDS,'tInfo') && ~isempty(x.BIDS.tInfo),EEG);
if sum(hastInfo) == 0
tInfo = struct([]);
else % at least one EEG has BIDS.tInfo
try
bids = [EEG(hastInfo).BIDS];
alltInfo = [bids.tInfo];
if numel(alltInfo) < numel(EEG)
tInfo = EEG(find(hastInfo,1)).BIDS.tInfo;
warning('Not all EEG contains tInfo structure. Using first available tInfo of EEG(%d)...',find(hastInfo,1));
else
tInfo = alltInfo(1);
fprintf('Using task info of the first dataset for all datasets...\n');
end
catch % field inconsistent
tInfo = EEG(find(hastInfo,1)).BIDS.tInfo;
warning('tInfo structures are inconsistent across datasets. Using first available tInfo of EEG(%d)...',find(hastInfo,1));
end
end
end
end
function gInfo = getgInfo(EEG)
hasBIDS = arrayfun(@(x) isfield(x,'BIDS') && ~isempty(x.BIDS),EEG);
if sum(hasBIDS) == 0 %if no BIDS found for any EEG
gInfo = struct([]);
else % at least one EEG has BIDS
if sum(hasBIDS) < numel(EEG) % not all have BIDS
warning('Not all EEG contains BIDS information.');
end
hasgInfo = arrayfun(@(x) isfield(x,'BIDS') && isfield(x.BIDS,'gInfo') && ~isempty(x.BIDS.gInfo),EEG);
if sum(hasgInfo) == 0
gInfo = struct([]);
else % at least one EEG has BIDS.gInfo
try
bids = [EEG(hasgInfo).BIDS];
allgInfo = [bids.gInfo];
if numel(allgInfo) < numel(EEG)
gInfo = EEG(find(hasgInfo,1)).BIDS.gInfo;
warning('Not all EEG contains gInfo structure. Using gInfo of EEG(%d)...',find(hasgInfo,1));
else
gInfo = allgInfo(1);
fprintf('Using tInfo of EEG(1)...\n');
end
catch % field inconsistent
gInfo = EEG(find(hasgInfo,1)).BIDS.gInfo;
warning('Inconsistence found in gInfo structures. Using gInfo of EEG(%d)...',find(hasgInfo,1));
end
end
end
end
function editedCB(src,event)
end
function string_out = reformatchartostring(char_in)
char_in(1:end-1,end+1) = newline;
char_in = char_in';
string_out = char_in(:)';
end
end