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我在 MATLAB 中有一个分析脚本，它利用 MIJI 和一个名为 TrackMate 的 java 插件。它使用以下脚本初始化并打开一个图像文件进行分析。

% add java paths and script folder
javaaddpath '\mij.jar';
javaaddpath '\ij-1.51n.jar';
addpath '\Fiji.app\scripts';
Miji(false);

% Get currently selected image
% imp = ij.IJ.openImage('http://fiji.sc/samples/FakeTracks.tif')
imp = ij.ImagePlus('\B1R1 16000 Frames 405 561nm HILO.tif');
imp.show()

生成一个模型和设置对象，告诉 TrackMate 如何分析图像。

%----------------------------
% Create the model object now
%----------------------------   
% Some of the parameters we configure below need to have
% a reference to the model at creation. So we create an
% empty model now.

model = fiji.plugin.trackmate.Model();    

% Send all messages to ImageJ log window.
model.setLogger(fiji.plugin.trackmate.Logger.IJ_LOGGER)

%------------------------
% Prepare settings object
%------------------------      
settings = fiji.plugin.trackmate.Settings();
settings.setFrom(imp)

get(model)模型在被调用时返回以下组件；

  Class: [1×1 java.lang.Class]
           FeatureModel: [1×1 fiji.plugin.trackmate.FeatureModel]
                 Logger: [1×1 fiji.plugin.trackmate.Logger$5]
    ModelChangeListener: [1 java.util.LinkedHashSet]
             SpaceUnits: 'pixels'
                  Spots: [1×1 fiji.plugin.trackmate.SpotCollection]
              TimeUnits: 'frames'
             TrackModel: [1×1 fiji.plugin.trackmate.TrackModel]

有趣的是，FeatureModel组件包含来自 TrackMate 的分析输出。运行时featMod = get(model,'FeatureModel')，以下内容作为 1x1 FeatureModel 返回；

Spot features declared:
   - QUALITY: Quality, 'Quality' (QUALITY) - double valued.
   - POSITION_X: X, 'X' (POSITION) - double valued.
   - POSITION_Y: Y, 'Y' (POSITION) - double valued.
   - POSITION_Z: Z, 'Z' (POSITION) - double valued.
   - POSITION_T: T, 'T' (TIME) - double valued.
   - FRAME: Frame, 'Frame' (NONE) - integer valued.
   - RADIUS: Radius, 'R' (LENGTH) - double valued.
   - VISIBILITY: Visibility, 'Visibility' (NONE) - integer valued.

Edge features declared:

Track features declared:
   - TRACK_DURATION: Duration of track, 'Duration' (TIME) - double valued.
   - TRACK_START: Track start, 'T start' (TIME) - double valued.
   - TRACK_STOP: Track stop, 'T stop' (TIME) - double valued.
   - TRACK_DISPLACEMENT: Track displacement, 'Displacement' (LENGTH) - double valued.

我可以通过声明将单个值输出为 java 字符串featMod.echo()，但这仅告诉我来自声明的 Track features组件的值featMod，而不是声明的 Spot features的值，这是我完成分析所需的输出。

如何从点特征声明的组件中获取值？我无法弄清楚为什么它没有给我想要的输出，而是给了我其他组件。

当我尝试专门调用它时，featMod.echo('SpotFeatures')我收到错误消息；

没有为类“fiji.plugin.trackmate.FeatureModel”找到具有匹配签名的方法“echo”。

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1 回答 1

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我遇到了同样的问题，用户emartini在图像论坛中解决了它https://forum.image.sc/t/problem-exporting-xml-from-trackmate-in-matlab/27242/3

您需要添加的代码

import fiji.plugin.trackmate.io.TmXmlWriter %add this import

outfile=java.io.File('F:\Projects\Matlab\Test_track_july25.xml'); %%or your file name 
writer = fiji.plugin.trackmate.io.TmXmlWriter(outfile); 
writer.appendModel( trackmate.getModel() ) %trackmate instantiate like this before 
trackmate = TrackMate(model, settings) writer.appendSettings( trackmate.getSettings() ) writer.writeToFile()
于 2019-07-25T10:33:59.463 回答