When trying to generate a multispectral image with the micaToolbox, I am unable to select the grey standards. The selection tools will allow me to select the area for alignment but not the standards, and I am not really sure why. This error is occurring on both a Mac and a PC. I have compared the settings for overlay and ROI with a computer on which the software is running smoothly, and there have been no differences thus far. Do you have any suggestions about why this error is occurring as well as which settings may need to be checked for discrepancies?
Adding this code setBatchMode(false); before this code waitForUser(“Select ” + standardLevels[i] + “% standard”); in the _Generate_Multispectral_Image.ijm file fixed this problem for me 🙂
This seems to be a recurring issue with several users across platforms (e.g. here). I do not know which setting specifically causes the observed effect but I’m keen to find out! A guess might be that the entire image is already selected so you might need to unselect any ROIs so that the smaller areas can be selected again?