Illumination Correction of multiple images with loaded function


#1

Hello,

I was trying to do illumination correction of hundreds of images by using some illumination calibration images taken on fluorescent calibration slides. I was able to save and load the illumination correction function as a npy file following https://github.com/CellProfiler/CellProfiler/issues/2822 and https://github.com/CellProfiler/CellProfiler/issues/3423. However, when I tried to load images with the illumination function, only one image would be processed because “channels have different numbers of images”. Is there a way to process all the images at the same time without running batch processing? Thank you.


#2

Yes! You need to match the illumination correction functions to the images to be corrected by some piece of Metadata- see the help for the “NamesAndTypes” module for examples.