I am currently running CellProfiler version 7522 on a OSX 10.6 (I also have access to a XP 32 bit and a Vista 64 bit systems as well)
My pipeline is being used to calculate FRET using time-lapse images, which I have working fine. I am also curious about the FRET values at each pixel not just in ROI’s, which I have done successfully with the ImageMath module, which I then make a projection out of the ImageMath images (not necessary for analysis, but the investigator would like to have a visual representation of it), which is where I run into a problem.
When I run this over one field, I get a perfect projection image, but when I go to do multiple fields, the projection image keeps compiling a projection from all previous fields, even when I have each field separated by individual folders. Is there some module I am missing that would assist with this?
I have attached a set of of test images with two time points from the same field along with the pipeline. (I apologize for the length of the pipeline, we believe in calculating all items under the sun, just in case.)