Troubleshooting - lucadellasantina/ObjectFinder GitHub Wiki

This page contains a list of common errors and ways to solve them.

  • ObjectFinder does not start after installed Please make sure that your MATLAB version meets the minimum requirements and that you have the required toolboxes.

  • I cannot load my images into ObjectFinder Please make sure that the images are saved into your "MyExperiment/I/" folder. Only image stacks in this folder will be recognized by ObjectFinder. Please make sure that your images are saved as single-channel .tif files with a bitdepth of 8-bit. You can save images from any input file format to 8-bit .tif files using the free software FIJI: http://fiji.sc/

  • My computer is froze during computation, I cannot do anything else Open MATLAB preferences and select "Parallel Computing Toolbox", among these preferences please make sure that "Preferred number of workers in a parallel pool" is less than the amount of cores available on your computer, usually setting a value = number of cores -1 leaves enough computational power to use the computer while ObjectFinder is running.

  • I cannot detect objects because I get an out-of-memory error This means your machine does not have enough memory (RAM) to process the entire image volume using multi-threaded computation. You can either:

  1. Increase the amount of RAM on your computer, if upgradable.
  2. Open MATLAB preferences and select "Parallel Computing Toolbox", among these preferences and reduce the amount of "Preferred number of workers in a parallel pool" until you don't experience anymore the error. Computation will slow down proportionally as you reduce the amount of workers, but also memory usage footprint will diminish.
  • MATLAB is not using the correct amount of cores in my computer Open MATLAB preferences and select "Parallel Computing Toolbox", among these preferences please match Preferred number of workers in a parallel pool to the correct number of cores you want to use.