After successfully setting up Cellprofiler/CPCluster, I am now trying to set up Cell Profiler 2.0 to run on our cluster. So far, so good, the software and libraries are installed and the program runs. Now, I am intending to modify the Batchrunner.pl script from the previous CPCluster release to run with Cell Profiler 2.0
The problem I observe is the Batch_data.mat data structure in Cell Profiler 2.0
batch_info = loadmat("%(datadir)s/Batch_data.mat"%(locals()))
num_sets = batch_info’handles’].Current.NumberOfImageSets
Now, I need to change the variables to correctly grab the number of image sets from Batch_data.mat. What should the new variable names be to get the right number?