Hi CellProfiler Team,
Our lab is currently working on getting CellProfiler 2.2.0 and 3.0 running on our computing cluster, and we have a couple of questions regarding illumination correction pipelines. We routinely image multiple 384-well plates in 4 channels (25 fields per well) and so have hundreds of thousands of images to run in any one experiment.
Using desktop mode, we’re able to easily load up all of the plates from a single experiment, calculate across all images (grouped by plateID) and then output a single image per plate for each channel (around 7 hours per plate). Is there a way to run CorrectIlluminationCalculate in the same way, but across multiple parallel jobs on a cluster? We currently run 90 simultaneous jobs to export the data to a MySQL database, but weren’t sure how splitting the images into 90 jobs would impact the illumination correction calculation.
Your help would be very much appreciated!