Dear all,
I am a beginner at ImageJ, and I’m getting desperate…
For a looooooong long time I tried to make a macro that would automatically take three images and merge them into different coloured channels, as I often have to do that for my work (on hundreds of images…).
I had finally managed to write a macro that worked (!!) a few weeks ago, now I wanted to use it again, and it stopped working… although it is still exactly the same (obviously).
I am now getting the error message “File is not in a supported format, a reader plugin is not available or it was not found”.
I double checked the file path and the file names, and both are fine.
The macro in question looks like this:
directory = getDirectory(“Choose a Directory”);
firstIndex = 1;
lastIndex = 50;
for (i = firstIndex; i <= lastIndex ; i++) {
open(directory + File.separator + "20201027_CDD_wt_MD_Synpo-561_Homer-647_MAP2-488_" + i + "_w1Conf488.stk_MIP.tif");
imageTitle1 = getTitle();
open(directory + File.separator + "20201027_CDD_wt_MD_Synpo-561_Homer-647_MAP2-488_" + i + "_w2Conf561.stk_MIP.tif");
imageTitle2 = getTitle();
open(directory + File.separator + "20201027_CDD_wt_MD_Synpo-561_Homer-647_MAP2-488_" + i + "_w3Conf640.stk_MIP.tif");
imageTitle3 = getTitle();
run("Merge Channels...", "c1=[" + imageTitle3 +"] c2=[" + imageTitle2 + "] c3=[" + imageTitle1 + "] create ignore");
saveAs("tiff", directory+imageTitle1+"_composite");
close;
}
Can someone please give me a pointer as to what might be wrong here? I don’t want to make composites of 200 images by hand 
Best,
Anja
