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CSTShowMeasures.m
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CSTShowMeasures.m
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function CSTShowMeasures
% Copyright (c) 2013 Rutgers
% Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:
% The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.
% THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
% This function creates a window displaying measures.
global fileDB filterNames filterSelection samplesDef colFtlWell mainPnlW mainPnlH samplesIdx;
samplesIdx = [];
samplesDef = [];
% ============
% CREATE THE INTERFACE
% ============
% ----------
% Main figure and sliders
% ----------
scrsz = get(0,'ScreenSize');
mainW = min(mainPnlW, scrsz(3) - 10);
mainH = min(mainPnlH, scrsz(4) - 70);
mainPanelPosition = [2, mainH-mainPnlH-2, mainPnlW, mainPnlH];
mainFigure = figure('Visible','off','Position',[5,40,mainW,mainH],'Name','CeleST: Statistics sample definition - Define the samples by grouping videos, launch the graph display','numbertitle','off', 'menubar', 'none', 'resizefcn', @resizeMainFigure);
mainPanel = uipanel('parent', mainFigure,'BorderType','none','units','pixels', 'position', mainPanelPosition);
sliderHoriz = uicontrol('parent',mainFigure,'style','slider','position',[0 0 mainW-20 20],'max', 1,'min',0, 'value',0,'callback',@setMainPanelPositionBySliders);
sliderVert = uicontrol('parent',mainFigure,'style','slider','position',[mainW-20 20 20 mainH-20],'max', max(1,-mainPanelPosition(2)),'min',0, 'value',max(1,-mainPanelPosition(2)),'callback',@setMainPanelPositionBySliders);
set(mainFigure, 'color', get(mainPanel,'backgroundcolor'));
set(mainFigure,'colormap',gray);
% ----------
% Filters
% ----------
filterH = 100;
filterW = 150;
hFilters = filterH + 20;
yFilters = mainPnlH - hFilters - 5;
pnlFilters = uipanel('parent', mainPanel,'BorderType','none','units','pixels', 'position', [1 yFilters mainPnlW hFilters]);%,'title','Filters'
for idxtmp = 0:length(filterNames)-1
uicontrol('parent',pnlFilters,'style','text','string',filterNames{idxtmp+1},'position',[idxtmp*filterW filterH filterW 20])
flt.(filterNames{idxtmp+1}) = uicontrol('parent',pnlFilters,'style','listbox','String',{''},'max',2,'min',0,'position',[idxtmp*filterW 0 filterW filterH],'callback',@setFilteredList);
end
% ----------
% List of videos filtered
% ----------
yVideos = yFilters - 3*filterH - 65;
txtListVideosFiltered = uicontrol('parent',mainPanel,'style','text', 'FontWeight', 'bold','HorizontalAlignment', 'left','String','Videos to choose from: (0 filtered)','position',[0 yVideos+3*filterH+30 2*filterW 20]);
listVideosFiltered = uicontrol('parent',mainPanel,'style','listbox','String',{''},'max',2,'min',0,'position',[0 yVideos 2*filterW 3*filterH]); %,'callback', @checkSelectedVideo);
listVideosFilteredIdx = [];
uicontrol('parent',mainPanel,'style','pushbutton', 'string', 'Select all', 'position', [0 yVideos+3*filterH filterW-10 30], 'callback', @(a,b) set(listVideosFiltered, 'value', 1:length(get(listVideosFiltered,'string'))))
uicontrol('parent',mainPanel,'style','pushbutton', 'string', 'Deselect all', 'position', [filterW+10 yVideos+3*filterH filterW-10 30], 'callback', @(a,b) set(listVideosFiltered, 'value', []))
uicontrol('parent',mainPanel,'style','pushbutton', 'string', 'Close', 'position', [20 yVideos-50 filterW 30], 'callback', @closeWindow);
uicontrol('parent',mainPanel,'style','pushbutton', 'string', '>> Add to a new sample >>', 'position', [2*filterW yVideos+3*filterH-40 200 50], 'callback', @addVideosNew);
uicontrol('parent',mainPanel,'style','pushbutton', 'string', '>> Add to the selected sample >>', 'position', [2*filterW yVideos+3*filterH-90 200 50], 'callback', @addVideosExisting);
uicontrol('parent',mainPanel,'style','pushbutton', 'string', '<< Remove the selected videos <<', 'position', [2*filterW yVideos+3*filterH-170 200 50], 'callback', @removeVideos);
uicontrol('parent',mainPanel,'style','pushbutton', 'string', '<< Remove the selected sample <<', 'position', [2*filterW yVideos+3*filterH-220 200 50], 'callback', @removeSample);
showGraphsBtn = uicontrol('parent',mainPanel,'style','pushbutton', 'string', 'Show graphs for these samples', 'position', [2*filterW yVideos+3*filterH-300 200 50], 'enable', 'off', 'callback', @showGraphs);
uicontrol('parent',mainPanel,'style','text', 'HorizontalAlignment', 'left','String','Double-click on a sample name (first line) to change it.','position',[4*filterW+80 yVideos+3*filterH+35 500 20]);
tableSamples = uitable('parent',mainPanel,'position',[4*filterW-100 50 mainPnlW-4*filterW yVideos+3*filterH-10],'RearrangeableColumn','on','ColumnEditable',[],'CellEditCallback', @tableEdit, 'CellSelectionCallback', @tableSelect,'rowstriping','off');
selectedCellsData = struct;
if isempty(samplesDef)
samplesDef = {};
end
set(tableSamples, 'data', samplesDef)
setRowNames
% ============
% SHOW THE INTERFACE
% ============
populateFilters
set(mainFigure,'visible','on')
setMainPanelPositionBySliders
pause(0.1)
% ------------
% Waiting for closure
% ------------
waitfor(mainFigure,'BeingDeleted','on');
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%
% SUBFUNCTIONS
%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
function closeWindow(hObject,eventdata)
set(mainFigure,'Visible','off');
delete(mainFigure);
end
function showGraphs(hObject,eventdata)
try
CSTShowGraphs;
catch exception
generateReport(exception)
end
end
function addVideosNew(hObject,eventdata)
try
listOfFiltered = get(listVideosFiltered,'string');
listOfSelection = get(listVideosFiltered,'value');
samplesDef = get(tableSamples, 'data');
newCol = 1 + size(samplesDef,2);
samplesIdx{newCol} = num2cell(listVideosFilteredIdx(listOfSelection));
totWorms = 0;
for sel = 1:length(samplesIdx{newCol})
totWorms = totWorms + fileDB(samplesIdx{newCol}{sel}).worms;
end
selectedNames = [['Sample ',num2str(newCol)];[num2str(totWorms),' worms'];listOfFiltered(listOfSelection)];
samplesDef(1:length(selectedNames),newCol) = selectedNames;
set(tableSamples, 'data', samplesDef);
setRowNames
set(showGraphsBtn,'Enable','on');
catch exception
generateReport(exception)
end
end
% ------------
% Workaround implemented using strcmp for below if statements because isField can no longer be used on
% user defined classes
% ------------
function addVideosExisting(hObject,eventdata)
try
if (any(strcmp(fieldnames(selectedCellsData), 'Indices')) && ~isempty(selectedCellsData.Indices))
colToAdd = selectedCellsData.Indices(1,2);
listOfFiltered = get(listVideosFiltered,'string');
listOfSelection = get(listVideosFiltered,'value');
samplesDef = get(tableSamples, 'data');
namesToAdd = listOfFiltered(listOfSelection);
idxToAdd = 1;
while (idxToAdd <= size(samplesDef,1)) && ~isempty(samplesDef{idxToAdd,colToAdd})
idxToAdd = idxToAdd + 1;
end
for name = 1:length(namesToAdd)
if ~any(strcmp(namesToAdd{name}, samplesDef(:,colToAdd)))
samplesDef{idxToAdd, colToAdd} = namesToAdd{name};
samplesIdx{colToAdd}{idxToAdd-2} = listVideosFilteredIdx(listOfSelection(name));
idxToAdd = idxToAdd + 1;
end
end
set(tableSamples, 'data', samplesDef);
setRowNames
end
catch exception
generateReport(exception)
end
end
function removeVideos(hObject,eventdata)
try
if any(strcmp(fieldnames(selectedCellsData), 'Indices')) && ~isempty(selectedCellsData.Indices)
samplesDef = get(tableSamples, 'data');
for item = size(selectedCellsData.Indices,1):-1:1
row = selectedCellsData.Indices(item,1);
if row >= 3
col = selectedCellsData.Indices(item,2);
samplesDef(row:end-1, col) = samplesDef(row+1:end, col);
samplesDef{end, col} = [];
samplesIdx{col}(row-2) = [];
end
end
set(tableSamples, 'data', samplesDef);
trimEmptyLines
end
catch exception
generateReport(exception)
end
end
function removeSample(hObject,eventdata)
try
if any(strcmp(fieldnames(selectedCellsData), 'Indices')) && ~isempty(selectedCellsData.Indices)
samplesDef = get(tableSamples, 'data');
colToDelete = selectedCellsData.Indices(1,2);
button = questdlg(['Are you sure you want to delete sample ', samplesDef{1,colToDelete}, '?'],'CeleST','Delete','Cancel','Cancel');
if strcmp(button, 'Delete')
samplesDef(:, colToDelete) = [];
set(tableSamples, 'data', samplesDef);
samplesIdx(colToDelete) = [];
trimEmptyLines
end
if isempty(samplesIdx)
set(showGraphsBtn,'Enable','off');
end
end
catch exception
generateReport(exception)
end
end
function trimEmptyLines
samplesDef = get(tableSamples, 'data');
for row = size(samplesDef,1):-1:3
flagRemove = true;
for col = 1:size(samplesDef,2)
flagRemove = flagRemove && isempty(samplesDef{row,col});
end
if flagRemove
samplesDef(row,:) = [];
else
break
end
end
set(tableSamples, 'data', samplesDef);
setRowNames
end
function setRowNames
samplesDef = get(tableSamples, 'data');
rowNames = cell(size(samplesDef,1),1);
rowNames{1} = 'Sample name';
rowNames{2} = '# worms';
if ~isempty(samplesDef)
for row = 1:length(rowNames)-2
rowNames{2+row} = ['Video ', num2str(row)];
end
set(tableSamples, 'rowname',rowNames);
for col = 1:size(samplesDef,2)
totWorms = 0;
for sel = 1:length(samplesIdx{col})
totWorms = totWorms + fileDB(samplesIdx{col}{sel}).worms;
end
samplesDef{2, col} = [num2str(totWorms),' worms'];
end
set(tableSamples, 'data', samplesDef);
ww = cell(1,size(samplesDef,2));
for it = 1:length(ww)
ww{it} = filterW;
end
set(tableSamples, 'columnwidth',ww)
end
end
function tableSelect(hObject,eventdata) %#ok<*INUSL>
try
selectedCellsData = eventdata;
if size(eventdata.Indices, 1) == 1 && eventdata.Indices(1) == 1
set(tableSamples, 'ColumnEditable', true)
else
set(tableSamples, 'ColumnEditable', false)
end
catch exception
generateReport(exception)
end
end
function tableEdit(hObject,eventdata)
try
if size(eventdata.Indices, 1) ~= 1 || eventdata.Indices(1) ~= 1
samplesDef = get(tableSamples, 'data');
samplesDef(eventdata.Indices(1), eventdata.Indices(2)) = eventdata.PreviousData;
set(tableSamples, 'data', samplesDef);
end
set(tableSamples, 'ColumnEditable', false)
catch exception
generateReport(exception)
end
end
% ============
% GET ALL THE DISTINCT VALUES TO DISPLAY IN EVERY FILTER LIST
% ============
function populateFilters
listToShow = 1:length(fileDB);
fields = fieldnames(flt);
for field = 1:length(fields)
setappdata(flt.(fields{field}),'field',fields{field});
result = {};
flagWell = strcmp('well',fields{field});
for vid = listToShow
if flagWell
value = num2str(~isempty(fileDB(vid).(fields{field})));
elseif ~ischar(fileDB(vid).(fields{field}))
value = num2str(fileDB(vid).(fields{field}));
else
value = fileDB(vid).(fields{field});
end
cand = length(result);
while (cand >= 1) && ~strcmpi(value,result{cand})
cand = cand - 1;
end
if cand < 1
result{end+1} = value; %#ok<AGROW>
end
end
result = [['All (',num2str(length(result)) ,' values)'], sort(result)];
set(flt.(fields{field}),'string',result);
end
for field = 1:length(fields)
set(flt.(fields{field}),'value', filterSelection.(fields{field}));
end
setFilteredList
end
% ============
% BUILD THE LIST OF VIDEOS TO SHOW, BASED ON THE SELECTED FILTERS
% ============
function setFilteredList(hObject,eventdata) %#ok<*INUSD>
try
result = cell(length(fileDB),1);
currentVal = 0;
listVideosFilteredIdx = zeros(1,length(fileDB));
fields = fieldnames(flt);
for field = 1:length(fields)
filterSelection.(fields{field}) = get(flt.(fields{field}),'value');
end
for vv = 1:length(fileDB)
flagKeep = true;
for field = 1:length(fields)
if (field == colFtlWell)
value = num2str(~isempty(fileDB(vv).(fields{field})));
elseif ~ischar(fileDB(vv).(fields{field}))
value = num2str(fileDB(vv).(fields{field}));
else
value = fileDB(vv).(fields{field});
end
options = get(flt.(fields{field}),'string');
selIdx = get(flt.(fields{field}),'value');
if length(selIdx) >= 1 && selIdx(1) == 1
continue;
end
selection = options(selIdx);
cand = 1;
while (cand <= length(selection)) && ~strcmpi(value, selection{cand})
cand = cand + 1;
end
if cand > length(selection)
flagKeep = false;
break
end
end
if flagKeep && fileDB(vv).measured
currentVal = currentVal + 1;
result{currentVal} = [fileDB(vv).name, ' (', num2str(fileDB(vv).worms), ' worms)'];
listVideosFilteredIdx(currentVal) = vv;
end
end
listVideosFilteredIdx = listVideosFilteredIdx(1:currentVal);
set(listVideosFiltered, 'string', result(1:currentVal,:), 'value',1);
set(txtListVideosFiltered,'string', ['Videos to choose from: (',num2str(length(listVideosFilteredIdx)),' filtered)']);
catch exception
generateReport(exception)
end
end
% ============
% DISPLAY THE AXIS AND THE SLIDER
% ============
% ------------
% Set the position of the main panel based on the sliders values
% ------------
function setMainPanelPositionBySliders(hObject,eventdata)
newPos = get(mainPanel,'position');
newPos(1) = 5 - get(sliderHoriz,'value');
newPos(2) = -5 - get(sliderVert,'value');
set(mainPanel,'position',newPos);
end
% ------------
% Update the sliders positions when the main figure is resized
% ------------
function resizeMainFigure(hObject,eventdata)
% -------
% Update the size and position of the sliders
% -------
newPosition = get(mainFigure,'position');
set(sliderHoriz, 'position',[0 0 newPosition(3)-20 20]);
set(sliderVert, 'position',[newPosition(3)-20 20 20 newPosition(4)-20]);
% -------
% Check the horizontal slider
% -------
if newPosition(3) < mainPanelPosition(3)
deltaH = round(mainPanelPosition(3) - newPosition(3));
newValue = min(deltaH,get(sliderHoriz,'value'));
set(sliderHoriz, 'enable', 'on', 'min',0,'max',deltaH,'value',newValue);
else
set(sliderHoriz, 'enable', 'off','min',0,'max',1,'value',0);
end
% -------
% Check the horizontal slider
% -------
if newPosition(4) < mainPanelPosition(4)
deltaV = round(mainPanelPosition(4) - newPosition(4));
newValue = min(deltaV,get(sliderVert,'value'));
set(sliderVert, 'enable', 'on', 'min',0,'max',deltaV,'value',newValue);
else
set(sliderVert, 'enable', 'off','min',0,'max',1,'value',0);
end
setMainPanelPositionBySliders
end
end