在ImageJ Javascript宏

Question

我正在从三个频道.svs图像中读取裁剪区域并将作物保存为.tiff图像。目前，图像使用单独的RGB通道进行保存。

我以这种方式裁剪图像：

var path = currentFolder + "images" + File.separator + imageName; 
var options = new ImporterOptions(); 
options.setId(path); 
options.setAutoscale(true); 
options.setCrop(true); 
options.setCropRegion(0, new Region(X, Y, deltaX, deltaY)); 
options.setColorMode(ImporterOptions.COLOR_MODE_COMPOSITE); 
var croppedImage= new ImagePlus();
croppedImage= BF.openImagePlus(options); 

print("cropped image class: " + croppedImage.getClass());

给出

cropped image class: class [Lij.ImagePlus;

然后我保存图像：

IJ.saveAs(cropedImage, "tif", outputFileName);

我最终获得了三个频道图像。

我想合并频道。

我发现了两种可能的方法：

http://javadoc.imagej.net/ImageJ1/ij/plugin/RGBStackMerge.html

http://rsb.info.nih.gov/ij/developer/api/ij/ImagePlus.html#flatten--

我尝试了croppedImage.flatten()并得到了：

javax.script.ScriptException: sun.org.mozilla.javascript.internal.EvaluatorException: Java class "[Lij.ImagePlus;" has no public instance field or method named "flatten".

我也尝试导入RGBStackMerge类：

importClass(Packages.ij.plugin.RGBStackMerge);

并且正在做

finalImage = new ImagePlus();
finalImage = RGBStackMerge.mergeChannels(croppedImage, false);
print ("final image class: " + finalImage.getClass() + " length: " + finalImage.length);

但是这给了：

Started svs_to_cropped_tiffs.js at Fri Jan 22 22:58:10 PST 2016 javax.script.ScriptException: sun.org.mozilla.javascript.internal.EcmaError: TypeError: Cannot call method "getClass" of null 

Answer 1

来自BF class javadoc：

  

static ImagePlus[] openImagePlus(ImporterOptions options)

BF.openImagePlus()会返回ImagePlus个[L个对象的数组（由getClass()输出中的croppedImage[0]表示）。 您应该通过访问返回数组的第一个元素来访问您的图像：finalImage = croppedImage[0].flatten();

您建议的两种方法都应该适用：

finalImage = RGBStackMerge.mergeChannels(croppedImage[0], false);

或

procedure RunFileAsAdminWait(hWnd: hWnd; aFile, aParameters: string);
var
  sei: TShellExecuteInfo;
  msg: tagmsg;
begin
  FillChar(sei, SizeOf(sei), 0);
  sei.cbSize := SizeOf(sei);
  sei.Wnd := hWnd;
  sei.fMask := SEE_MASK_FLAG_NO_UI or SEE_MASK_NOCLOSEPROCESS;
  sei.lpVerb := 'runas';
  sei.lpFile := PChar(aFile);
  sei.lpParameters := PChar(aParameters);
  sei.nShow := SW_SHOWNORMAL;

  if ShellExecuteEx(@sei) then
  begin
    while MsgWaitForMultipleObjects(1, sei.hProcess, False, INFINITE, QS_ALLINPUT) <> WAIT_OBJECT_0 do
      while PeekMessage(msg, 0, 0, 0, PM_REMOVE) do
        DispatchMessage(msg);

    CloseHandle(sei.hProcess);
  end;
end;

您可以在ImageJ wiki的Scripting toolbox页面上找到示例如何使用Bio-Formats打开图像。