ImageJ 宏中的错误，无法在原始图像上放置粒子分析轮廓

Question

我正在尝试编写一个 imageJ 宏，它将

1(打开图像并将其拆分为两个通道2( 对每个图像进行颗粒分析并保存测量结果3( 保存原始图像并叠加粒子轮廓

到目前为止，我已经意识到我需要首先复制原始图像，以便以后可以在此基础上保存投资回报率。但是，我目前无法弄清楚如何重命名此重复的图像，以便以后可以选择它进行拼合：

dir=getDirectory("Choose a Directory"); 
print(dir); 
greenDir=dir + "/Green/"; 
blueDir=dir + "/Blue/";
print(greenDir); 
print(blueDir); 
File.makeDirectory(greenDir); 
File.makeDirectory(blueDir); 
list = getFileList(dir); 
for (i=0; i<list.length; i++) { 
     if (endsWith(list[i], ".tif")){ 
               print(i + ": " + dir+list[i]); 
             open(dir+list[i]); 
             imgName=getTitle(); 
         baseNameEnd=indexOf(imgName, ".tif"); 
         baseName=substring(imgName, 0, baseNameEnd); 
         run("Split Channels"); 
         selectWindow("C1-" + imgName);  
     run("Duplicate...", "title= imgName + "original");
     selectWindow("C1-" + imgName); 
     setAutoThreshold("Default dark");
     //run("Threshold...");
     //setThreshold(1, 255);
     run("Convert to Mask");
     run("Analyze Particles...", "size=60-Infinity pixel show=Outlines display exclude   summarize   add");
     selectWindow(imgName + "original"); 
     roiManager("Show All without labels");
     run("Flatten");
     saveAs("Tiff", greenDir + baseName + "green.tif"); 
         close(); 

如果这是非常简单的事情，提前抱歉，这对我来说都是非常新的，并且从谷歌搜索中学到了！

Answer 1

我昨晚将我的代码修改为这个，现在它正在工作：

dir=getDirectory("Choose a Directory"); 
print(dir); 
greenDir=dir + "/Green/"; 
blueDir=dir + "/Blue/";
print(greenDir); 
print(blueDir); 
File.makeDirectory(greenDir); 
File.makeDirectory(blueDir); 
list = getFileList(dir); 
for (i=0; i<list.length; i++) { 
     if (endsWith(list[i], ".tif")){ 
               print(i + ": " + dir+list[i]); 
             open(dir+list[i]); 
             imgName=getTitle(); 
         baseNameEnd=indexOf(imgName, ".tif"); 
         baseName=substring(imgName, 0, baseNameEnd); 
         run("Split Channels"); 
     roiManager("Reset"); 
         selectWindow("C1-" + imgName);  
     run("Duplicate...", "title=");
     saveAs("Tiff", greenDir + "originalgreen" + baseName); 
     selectWindow("C1-" + imgName); 
     setAutoThreshold("Default dark");
     //run("Threshold...");
     //setThreshold(1, 255);
     setOption("BlackBackground", false);
     run("Convert to Mask");
     run("Analyze Particles...", "size=60-Infinity pixel show=Outlines display exclude   summarize   add");
     selectWindow("originalgreen" + imgName); 
     roiManager("Show All with labels");
     run("Flatten");
     saveAs("Tiff", greenDir + baseName + "overlaygreen.tif"); 
         close(); 
     } 
} 
for (i=0; i<list.length; i++) { 
     if (endsWith(list[i], ".tif")){ 
               print(i + ": " + dir+list[i]); 
             open(dir+list[i]); 
             imgName=getTitle(); 
         baseNameEnd=indexOf(imgName, ".tif"); 
         baseName=substring(imgName, 0, baseNameEnd); 
     run("Split Channels");
     roiManager("Reset"); 

         selectWindow("C2-" + imgName); 
     run("Duplicate...", "title=");
     saveAs("Tiff", blueDir + "originalblue" + baseName);
     selectWindow("C2-" + imgName);
     //run("Threshold...");
     //setThreshold(23, 255);
     setOption("BlackBackground", false);
     run("Convert to Mask");
     run("Analyze Particles...", "size=60-Infinity pixel show=Outlines display exclude   summarize   add");
     selectWindow("originalblue" + imgName); 
     roiManager("Show All with labels");
     run("Flatten");
         saveAs("Tiff", blueDir + baseName + "overlayblue.tif"); 
         run("Close All"); 
     } 
} 

Answer 2

ImageJ 中的每个 GUI 操作都可以使用宏录制器以不同的脚本语言录制，这很有帮助，请参阅：

https://imagej.nih.gov/ij/docs/guide/146-31.html#sub:Record...

http://imagej.net/Introduction_into_Macro_Programming

重命名的宏命令很简单：rename("YourImageTitle"(;