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MPlot3D.m
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MPlot3D.m
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classdef (InferiorClasses = {?matlab.graphics.axis.Axes}) MPlot3D < handle
properties
uniquezero = true
palette = 'HotCold Bright'
gs = 0
width
fontsize = 14
limz = 1e-3
norm = true
hSpacing = 3;
vSpacing = 3;
cbw = 10;
end
properties (SetAccess = protected)
figHandle
axesHandles = gobjects(4);
colorbarHandles = gobjects(4);
end
properties (Hidden)
maskHandles
end
methods
function obj = MPlot3D(varargin)
obj.figHandle = figure;
obj.width = getFigWidth;
plot(obj,varargin{:});
end
function plot(obj,data,varargin)
% \\ Required positional input:
% data: [4,4,X,Y] array. X and Y are horizontal and vertical plot
% dimensions.
% \\ Optional Name-Value pairs that set object properties
% 'uniquezero', logical: make zero white or black in colormaps
% Default is true.
% 'palette', string: name of a colormap, including custom
% ones in local function colPalette
% Default is 'Fireice'
% 'gs', [min max]: GlobalScale. plot limits of all Z-scales between min, max.
% If not given, each MM element maps to its own min and max value.
% Only 1 colorbar is drawn with GlobalScale is set
% 'fontsize', scalar: Size of font in colorbars
% 'width', scalar: Width of figure in inches. Height is
% computed automatically to ensure no streching of plots (figure can go
% off page, in which case, reduce value of 'width'. Default is %60 of
% the monitor or with dual displays of different size, who knowns...
% 'limz', scalar: limits how small the range of the z-axes can be.
% 'hSpacing', scalar: sets the horizontal space between plots in pixels
% 'vSpacing', scalar: sets the vertical space between plots in pixels
% 'cbw', scalar: Colorbar width in pixels.
p = inputParser;
% setup input scheme
addRequired(p,'obj',@(x) isa(x,'MPlot3D'))
addRequired(p,'data',@(x) isnumeric(x) && ndims(x) == 4)
addParameter(p,'norm',obj.norm,@(x) x == 1 || x == 0)
addParameter(p,'uniquezero',obj.uniquezero,@(x) x == 1 || x == 0)
addParameter(p,'palette',obj.palette,@(x) ischar(x) )
addParameter(p,'limz',obj.limz,@(x) isscalar(x)&&isnumeric(x))
addParameter(p,'fontsize',obj.fontsize,@(x) isscalar(x)&&isnumeric(x))
addParameter(p,'width',obj.width,@(x) isscalar(x) && isnumeric(x)) % inches
addParameter(p,'gs',obj.gs,@(x) length(x) == 2 && isnumeric(x))
addParameter(p,'hSpacing',obj.hSpacing,@isscalar)
addParameter(p,'vSpacing',obj.vSpacing,@isscalar)
addParameter(p,'cbw',obj.cbw,@isscalar)
parse(p,obj,data,varargin{:}) %parse inputs
sz = size(data);
obj.norm = p.Results.norm;
obj.uniquezero = p.Results.uniquezero;
obj.palette = p.Results.palette;
obj.gs = p.Results.gs;
obj.limz = p.Results.limz;
obj.fontsize = p.Results.fontsize;
obj.width = p.Results.width;
obj.hSpacing = p.Results.hSpacing;
obj.vSpacing = p.Results.vSpacing;
obj.cbw = p.Results.cbw;
% normalize and replace NaN with 0 if obj.norm is set
if obj.norm
data = data ./ data(1,1,:,:);
data(isnan(data)) = 0;
end
dummy = uicontrol('style', 'text', 'fontsize', obj.fontsize, 'units', 'pixels');
set(dummy,'String', '-0.000');
cblbextents = get(dummy, 'extent');
cblbsz = cblbextents(3); % colorbar label size
delete(dummy)
figWidth = (obj.width) * obj.figHandle.Parent.ScreenPixelsPerInch;
if obj.gs==0
plotW = (figWidth - 9*obj.vSpacing-4*(obj.cbw + cblbsz))/4;
plotH = sz(3)/sz(4)*plotW;
figHeight = plotH*4+5*obj.hSpacing;
totalPlotWidth = obj.vSpacing*2+obj.cbw+cblbsz+plotW;
plotPosFun = @(j,k) [ (obj.vSpacing+(k-1)*totalPlotWidth)/figWidth...
,(obj.hSpacing+(4-j)*(plotH+obj.hSpacing))/figHeight,...
plotW/figWidth,...
plotH/figHeight];
set(obj.figHandle,'Position',[0,0,figWidth,figHeight],'units','pixels');
for j=1:4
for k=1:4
if isgraphics(obj.axesHandles(j,k))
subplot(obj.axesHandles(j,k), ...
'position',plotPosFun(j,k),'units','pixels');
else
obj.axesHandles(j,k) = ...
subplot('position',plotPosFun(j,k),'units','pixels');
end
clim = [min(min(data(j,k,:,:))),max(max(data(j,k,:,:)))];
if obj.limz ~= 0 % modify axes bounds if limz is set
if (clim(2) - clim(1)) < obj.limz
avg = (clim(2) + clim(1))./2;
clim(2) = avg + obj.limz/2;
clim(1) = avg - obj.limz/2;
end
end
pos = get(obj.axesHandles(j,k),'Position');
imagesc(squeeze(data(j,k,:,:)),'Parent',obj.axesHandles(j,k),clim)
axis(obj.axesHandles(j,k),'off')
colormap(obj.axesHandles(j,k),makeColormap(clim,obj.uniquezero,obj.palette))
obj.colorbarHandles(j,k) = colorbar(obj.axesHandles(j,k),'units','pixels',...
'Position',[pos(1)+pos(3)+obj.vSpacing,pos(2)+cblbextents(4)/4,...
obj.cbw,pos(4)-cblbextents(4)/2],...
'fontsize',obj.fontsize);
end
end
if any(strcmp('nonorm', p.UsingDefaults))
obj.axesHandles(1,1).CLim = [0 1];
end
else
plotW = (figWidth - 6*obj.vSpacing - 2*obj.cbw - cblbsz)/4;
plotH = sz(3)/sz(4)*plotW;
figHeight = plotH*4+5*obj.hSpacing;
plotPosFun = @(j,k) [ (obj.vSpacing+(k-1)*(plotW+obj.vSpacing))/figWidth,...
(obj.hSpacing+(4-j)*(plotH+obj.hSpacing))/figHeight,...
plotW/figWidth,...
plotH/figHeight];
set(obj.figHandle,'Position',[0,0,figWidth,figHeight],'units','pixels');
for j=1:4
for k=1:4
if isgraphics(obj.axesHandles(j,k))
subplot(obj.axesHandles(j,k),...
'position',plotPosFun(j,k),'units','pixels');
else
obj.axesHandles(j,k) = ...
subplot('position',plotPosFun(j,k),'units','pixels');
end
pos = get(obj.axesHandles(j,k),'Position');
imagesc(squeeze(data(j,k,:,:)),'Parent',obj.axesHandles(j,k),obj.gs)
colormap(obj.axesHandles(j,k),makeColormap(obj.gs,obj.uniquezero,obj.palette))
axis(obj.axesHandles(j,k),'off')
end
end
obj.colorbarHandles(1,4) = colorbar(obj.axesHandles(1,4),'units','pixels',...
'Position',[pos(1)+pos(3)+obj.vSpacing,cblbextents(4)/4+6,...
obj.cbw,figHeight-cblbextents(4)/2-12],...
'fontsize',obj.fontsize);
end
end
function mmdata = getPlotData(obj)
% h: [4,4] array of axis handles
mmdata = zeros([4, 4, size(obj.axesHandles(1,1).Children.CData)], ...
class(obj.axesHandles(1,1).Children.CData));
for j=1:4
for k=1:4
mmdata(j,k,:,:) = obj.axesHandles(j,k).Children.CData;
end
end
end
function replacePlotData(obj,mmdata)
% MMreplace3DplotData replaces the data in 4x4 intensity plots.
% h is a [4,4] array of axis handles
% Data is a 4x4xNxM array. Data size should not be different than data in
% plots.
for j=1:4
for k=1:4
obj.axesHandles(j,k).Children.CData = squeeze(mmdata(j,k,:,:));
end
end
end
function update(obj,varargin)
obj.figHandle.Visible = 'off';
data = getPlotData(obj);
delete(obj.colorbarHandles)
obj.colorbarHandles = gobjects(4);
plot(obj,data,varargin{:});
obj.figHandle.Visible = 'on';
end
function drawMask(obj, i, j)
sz = size(obj.axesHandles(1,1).Children.CData);
h_im = obj.axesHandles(i,j).Children;
e = imellipse(obj.axesHandles(i,j),...
[sz(1)*0.1,sz(2)*0.1,0.8*sz(1),0.8*sz(1)]);
obj.maskHandles = {e,h_im};
end
function setElipse(obj, position)
setPosition(obj.maskHandles{1}, position);
end
function applyMask(obj)
mask = createMask(obj.maskHandles{1}, obj.maskHandles{2});
delete(obj.maskHandles{1})
for j=1:4
for k=1:4
obj.axesHandles(j,k).Children.CData = ...
obj.axesHandles(j,k).Children.CData.*mask;
end
end
end
function applyMaskWithTrim(obj)
mask = createMask(obj.maskHandles{1},obj.maskHandles{2});
pos = obj.maskHandles{1}.getPosition;
pos = [floor(pos(1:2)),ceil(pos(3:4))];
delete(obj.maskHandles{1})
data = zeros(4,4,pos(4),pos(3),'single');
idx = {pos(2):(pos(2)+pos(4)-1),pos(1):(pos(1)+pos(3)-1)};
for j=1:4
for k=1:4
data(j,k,:,:) = ...
obj.axesHandles(j,k).Children.CData(idx{:}).*mask(idx{:});
end
end
plot(obj,data)
end
function print(obj,filepath)
print(obj.figHandle,filepath,'-depsc');
end
function flipX(obj)
replacePlotData(obj, flip(getPlotData(obj), 4));
end
end
end
function width = getFigWidth % sets default width to 60% of display width
scrsz = get(0,'screensize');
width = 0.6*scrsz(3)/get(0,'ScreenPixelsPerInch');
end
function colAr = colPalette(palette)
% these are custom colormaps. A colormap is just a Nx4 matrix. The
% first column are values between 0 and 256 that position a color marker.
% The 2nd, 3rd, and 4th columns are RGB color values. Names of matlab
% colormaps can also be handed to this function.
switch palette
case 'HotCold Bright'
colAr = ...
[0 0 65 220;...
36 0 90 240;...
76 0 253 253;...
128 250 250 250;...
182 255 242 0;...
224 255 127 0;...
256 255 0 0];
case 'HotCold Dark'
colAr = ...
[0 0 253 253;...
36 1 114 239;...
76 0 90 240;...
128 0 0 0;...
182 255 0 0;...
224 255 127 0;...
256 255 242 0];
case 'TwoTone Bright'
colAr = ...
[0 0 0 255;...
128 255 255 255;...
256 255 0 0];
case 'TwoTone Dark'
colAr = ...
[0 0 0 255;...
128 0 0 0;...
256 255 0 0];
case 'Fireice'
%Copyright (c) 2009, Joseph Kirk
%All rights reserved.
clrs = [0.75 1 1; 0 1 1; 0 0 1;...
0 0 0; 1 0 0; 1 1 0; 1 1 0.75];
y = -3:3;
m = 64;
if mod(m,2)
delta = min(1,6/(m-1));
half = (m-1)/2;
yi = delta*(-half:half)';
else
delta = min(1,6/m);
half = m/2;
yi = delta*nonzeros(-half:half);
end
colAr = cat(2,(0:4:255).',255*interp2(1:3,y,clrs,1:3,yi));
case 'Spectral'
colAr = cbrewer('div', 'Spectral', 11) .* 255;
t1 = linspace(0,256,size(colAr, 1)).';
colAr = [t1, colAr];
case 'RdYlGn'
colAr = cbrewer('div', 'RdYlGn', 11) .* 255;
t1 = linspace(0,256,size(colAr, 1)).';
colAr = [t1, colAr];
case 'RdYlBu'
colAr = cbrewer('div', 'RdYlBu', 11) .* 255;
t1 = linspace(0,256,size(colAr, 1)).';
colAr = [t1, colAr];
case 'RdBu'
colAr = cbrewer('div', 'RdBu', 11) .* 255;
t1 = linspace(0,256,size(colAr, 1)).';
colAr = [t1, colAr];
case 'RdGy'
colAr = cbrewer('div', 'RdGy', 11) .* 255;
t1 = linspace(0,256,size(colAr, 1)).';
colAr = [t1, colAr];
case 'PuOr'
colAr = cbrewer('div', 'PuOr', 11) .* 255;
t1 = linspace(0,256,size(colAr, 1)).';
colAr = [t1, colAr];
case 'PRGn'
colAr = cbrewer('div', 'PRGn', 11) .* 255;
t1 = linspace(0,256,size(colAr, 1)).';
colAr = [t1, colAr];
case 'PiYG'
colAr = cbrewer('div', 'PiYG', 11) .* 255;
t1 = linspace(0,256,size(colAr, 1)).';
colAr = [t1, colAr];
case 'BrBG'
colAr = cbrewer('div', 'BrBG', 11) .* 255;
t1 = linspace(0,256,size(colAr, 1)).';
colAr = [t1, colAr];
otherwise
colAr = colormap(palette) .* 255; % to use other colormaps
t1 = linspace(0,256,size(colAr, 1)).';
colAr = [t1, colAr];
end
end
function fracIndx = fracIndex(array,x)
fracIndx = zeros(1,length(x));
for idx = 1:length(x)
if x >= array(end)
fracIndx(idx) = length(array);
elseif x(idx) <= array(1)
fracIndx(idx) = 1;
else
a = find(array <= x(idx));
a = a(length(a));
b = find(array > x(idx));
b = b(1);
fracIndx(idx) = a+(x(idx)-array(a))/(array(b)-array(a));
end
end
end
function cm = makeColormap(clim,b_uniqueZero,palette)
dmin=clim(1);
dmax=clim(2);
if dmax == dmin
dmax=1;
dmin=0;
end
if b_uniqueZero == true
Zscale = zeros(1,256);
if abs(dmin) < abs(dmax)
didx = (dmax - dmin)/(2*dmax);
for idx = 0:255
Zscale(idx+1) = 256 - didx*idx;
end
else
didx = (dmin-dmax)/(2*dmin);
for idx = 0:255
Zscale(idx+1) = idx*didx;
end
Zscale = flip(Zscale);
end
else
Zscale = flip(1:256);
end
colAr = colPalette(palette);
cm = zeros(256,3);
for n = 1:256
x = fracIndex(colAr(:,1),Zscale(n));
cm(n,1) = interp1(colAr(:,2),x);
cm(n,2) = interp1(colAr(:,3),x);
cm(n,3) = interp1(colAr(:,4),x);
end
cm = cm./255;
cm = flip(cm,1);
end