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add ConvertScalarImageToRGB.m
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‎ImageM/+imagem/+actions/+image/ConvertScalarImageToRGB.m‎

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classdef ConvertScalarImageToRGB < imagem.actions.CurrentImageAction
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% Convert an intensity or grayscale image to color RGB.
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%
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% Class ConvertScalarImageToRGB
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%
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% Example
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% ConvertScalarImageToRGB
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%
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% See also
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%
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% ------
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% Author: David Legland
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% e-mail: [email protected]
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% Created: 2020-03-02, using Matlab 9.7.0.1247435 (R2019b) Update 2
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% Copyright 2020 INRAE - BIA-BIBS.
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%% Properties
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properties
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end % end properties
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%% Constructor
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methods
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function obj = ConvertScalarImageToRGB(varargin)
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% Constructor for convertScalarImageToRGB class
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end
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end % end constructors
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%% Methods
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methods
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function run(obj, frame) %#ok<INUSL>
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% get handle to current doc
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doc = currentDoc(frame);
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img = doc.Image;
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if ~isIntensityImage(img) && ~isGrayscaleImage(img)
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warning('require intensity or grayscale image');
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end
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colormapNames = imagem.util.enums.ColorMaps.allLabels;
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range = [min(img) max(img)];
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colorNames = imagem.util.enums.BasicColors.allLabels;
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% Creates the Dialog for choosing options
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gd = imagem.gui.GenericDialog('Binary Overlay');
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addChoice(gd, 'Color Map:', colormapNames, colormapNames{1});
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addNumericField(gd, 'Min Value:', range(1));
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addNumericField(gd, 'Max Value:', range(2));
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addChoice(gd, 'Background Color:', colorNames, colorNames{1});
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% displays the dialog, and waits for user
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showDialog(gd);
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% check if ok or cancel was clicked
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if wasCanceled(gd)
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return;
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end
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% parse user inputs
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colorMapItem = imagem.util.enums.ColorMaps.fromLabel(getNextString(gd));
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cmap = createColorMap(colorMapItem, 256);
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vmin = getNextNumber(gd);
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vmax = getNextNumber(gd);
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colorItem = imagem.util.enums.BasicColors.fromLabel(getNextString(gd));
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bgColor = colorItem.RGB;
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rgb = double2rgb(img, cmap, [vmin vmax], bgColor);
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name = 'NoName-rgb';
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if ~isempty(img.Name)
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name = [img.Name '-rgb'];
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end
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rgb.Name = name;
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% add image to application, and create new display
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newDoc = addImageDocument(frame, rgb);
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% add history
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string = sprintf('cmap = createColorMap(imagem.util.enums.BasicColors.%s, 256);\n', ...
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colorItem.Name);
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addToHistory(frame, string);
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string = sprintf('%s = double2rgb(%s, %s, [%g %g], [%g %g %g]);\n', ...
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newDoc.Tag, doc.Tag, 'cmap', vmin, vmax, bgColor);
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addToHistory(frame, string);
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end
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function b = isActivable(obj, frame)
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b = [email protected](obj, frame);
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if ~b
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return;
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end
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img = currentImage(frame);
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b = isIntensityImage(img) || isGrayscaleImage(img);
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end
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end % end methods
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end % end classdef
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‎ImageM/+imagem/+actions/+process/+binary/BinaryImageOverlay.m‎

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@@ -35,7 +35,7 @@ function run(obj, frame) %#ok<INUSL>
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imageNames = getImageNames(app);
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colorNames = imagem.util.enums.BasicColors.allLabels;
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% Creates the Dialogfor choosing options
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% Creates the Dialog for choosing options
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gd = imagem.gui.GenericDialog('Binary Overlay');
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addChoice(gd, 'Reference Image:', imageNames, imageNames{1});
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addChoice(gd, 'Binary Image:', imageNames, imageNames{1});

‎ImageM/+imagem/+gui/FrameMenuBuilder.m‎

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addMenuItem(obj, convertMenu, ConvertImage3DToVectorImage(), '3D Image to Vector Image');
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addMenuItem(obj, convertMenu, ConvertVectorImageToImage3D(), 'Vector Image to 3D Image');
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addMenuItem(obj, convertMenu, ConvertVectorImageToRGB(), 'Vector Image to RGB');
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addMenuItem(obj, convertMenu, ConvertScalarImageToRGB(), 'Intensity Image to RGB', 'Separator', 'on');
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addMenuItem(obj, convertMenu, UnfoldVectorImage(), 'Unfold Vector Image to Table', 'Separator', 'on');
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addMenuItem(obj, convertMenu, UnfoldVectorImageWithMask(), 'Unfold Vector Image Within Mask to Table...');
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addMenuItem(obj, imageMenu, ReshapeImage(), 'Reshape...');

‎ImageM/+imagem/+tools/Brush.m‎

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if isa(obj.Viewer, 'imagem.gui.Image3DSliceViewer')
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iz = obj.Viewer.SliceIndex;
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end
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ic = 1:channelNumber(img);
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ic = 1:channelCount(img);
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it = 1; % not managed for the moment
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if ~isempty(obj.PreviousPoint)

‎ImageM/+imagem/+util/+enums/BasicColors.m‎

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classdef BasicColors
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% One-line description here, please.
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% A list of basic colors associated with names.
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%
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% Enumeration BasicColors
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%

‎ImageM/+imagem/+util/+enums/ColorMaps.m‎

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classdef ColorMaps
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% Various color maps for generating color displays.
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%
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% Enumeration ColorMaps
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%
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% Example
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% label = 'Parula';
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% item = imagem.util.enums.ColorMaps.fromLabel(label);
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% cmap = createColorMap(item, 256);
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% size(cmap)
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% 256 3
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%
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% See also
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% BasicColors
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% ------
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% Author: David Legland
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% e-mail: [email protected]
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% Created: 2021-01-05, using Matlab 9.8.0.1323502 (R2020a)
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% Copyright 2021 INRAE - BIA-BIBS.
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%% Enumerates the different cases
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enumeration
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Parula('Parula');
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Jet('Jet');
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Gray('Gray');
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Hsv('Hsv');
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Hot('Hot');
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Cool('Cool');
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end % end properties
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%% Static methods
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methods (Static)
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function res = allNames()
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% Returns a cell list with all enumeration names.
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mc = ?imagem.util.enums.ColorMaps;
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itemList = mc.EnumerationMemberList;
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nItems = length(itemList);
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res = cell(1, nItems);
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for i = 1:nItems
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% retrieve current enumeration item
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mitem = itemList(i);
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res{i} = mitem.Name;
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end
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end
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function res = fromName(name)
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% Identifies a ColorMaps from its name.
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if nargin == 0 || ~ischar(name)
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error('requires a character array as input argument');
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end
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mc = ?imagem.util.enums.ColorMaps;
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itemList = mc.EnumerationMemberList;
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for i = 1:length(itemList)
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% retrieve current enumeration item
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mitem = itemList(i);
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item = imagem.util.enums.ColorMaps.(mitem.Name);
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if strcmpi(name, char(item))
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res = item;
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return;
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end
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end
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error('Unrecognized ColorMaps name: %s', name);
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end
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function res = allLabels()
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% Returns a cell list with all enumeration names.
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mc = ?imagem.util.enums.ColorMaps;
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itemList = mc.EnumerationMemberList;
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nItems = length(itemList);
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res = cell(1, nItems);
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for i = 1:nItems
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% retrieve current enumeration item
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mitem = itemList(i);
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item = imagem.util.enums.ColorMaps.(mitem.Name);
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res{i} = item.Label;
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end
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end
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function res = fromLabel(label)
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% Identifies a ColorMaps from its label.
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if nargin == 0 || ~ischar(label)
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error('requires a character array as input argument');
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end
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mc = ?imagem.util.enums.ColorMaps;
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itemList = mc.EnumerationMemberList;
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for i = 1:length(itemList)
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% retrieve current enumeration item
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mitem = itemList(i);
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item = imagem.util.enums.ColorMaps.(mitem.Name);
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if strcmpi(label, item.Label)
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res = item;
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return;
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end
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end
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error('Unrecognized ColorMaps label: %s', label);
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end
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end % end methods
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%% Constructor
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methods
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function map = createColorMap(obj, varargin)
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% Create a N-by-3 color array.
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% determine color number
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n = 256;
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if ~isempty(varargin)
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n = varargin{1};
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end
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% create color map
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switch obj
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case imagem.util.enums.ColorMaps.Parula
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map = parula(n);
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case imagem.util.enums.ColorMaps.Jet
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map = jet(n);
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case imagem.util.enums.ColorMaps.Hsv
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map = hsv(n);
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case imagem.util.enums.ColorMaps.Hot
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map = hot(n);
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case imagem.util.enums.ColorMaps.Cool
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map = cool(n);
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case imagem.util.enums.ColorMaps.Gray
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map = gray(n);
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otherwise
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error(['Unprocessed color map: ' obj.Name]);
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end
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end
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end % end constructors
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%% Constructor
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methods
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function obj = ColorMaps(label, varargin)
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% Constructor for ColorMaps class.
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obj.Label = label;
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end
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end % end constructors
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%% Properties
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properties
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Label;
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end % end properties
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end % end classdef
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