I am trying to account for the irregular Illumination in each plane(channel) of a RGB image using the ‘CorrectIlluminationCalculate’ module.
My images are nearly 7Mb and are of dimensions 2848 * 4288.
This obviously lead to memory errors.
I tried using a few tips from this post: CellProfiler 2.0 FAQ
I have attached my pipeline as a JPEG image.
I have split the channels, applied the illumination correction individually for each channels and then converting to the truecolor image and saving them. I use conserve memory module to get rid of the unwanted intermediate images.
I still am facing the memory error.
How do I get over this problem? Is there a way where I could increase the amount of memory cell profiler uses?
I am also interested to know about the algorithm used in CorrectIlluminationCalculate module.
The manual does not have much information about the algorithm.
I tried reading the code but a short algorithm/suitable references would help me to understand better.
Where can I get to read more about it?
Appreciate any help.