在MATLAB中，echo()不会从java类输出所需的信息。

Question

我在MATLAB中有一个分析脚本，它使用MIJI和一个名为TrackMate的java插件。它用下面的脚本初始化，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如何对图像进行分析。

%----------------------------
% 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)

当调用get(model)时，该模型返回以下组件；

  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]

令人感兴趣的是FeatureModel组件，它包含来自TrackMate的分析输出。运行featMod = get(model,'FeatureModel')时，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featMod.echo()将单个值作为java字符串输出，但是这只告诉我来自featMod的Track特性声明组件的值，而不是声明的Spot特性的值，这是我完成分析所需的输出。

如何从spot特性声明的组件中获取值？--我不知道为什么它没有给我想要的输出，而是给了我其他组件。

当我尝试用featMod.echo('SpotFeatures')专门调用它时，我会得到错误消息；

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

Answer 1

我也有同样的问题，通过用户emartini https://forum.image.sc/t/problem-exporting-xml-from-trackmate-in-matlab/27242/3在图像论坛上得到了解决。

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()