I am trying to implement a Fiji Macro for batch processing images using Ilastik plugins as a segmentation step.
The training of the Ilastik classifier in the main app (ilastik.exe) works fine.
I ran into a problem when trying to apply the trained classifier on images using following Fiji plugins:
“Plugins/ilastik/Run Object Classification Prediction” &
“Plugins/ilastik/Run Pixel Classification Prediction”
I did not get any classification result (segmentation or prediction) and there were some
strange errors in the Log like:
The operation completed successfully. ilastik finished successfully!..
…something went wrong during processing ilastik pixel classification
The ilastik executable configuration is correct. And the ilastik main app works fine on its own.
I tried the Fiji plugins on Windows 10 and Ubuntu 18.04 machines.
Thanks for your Help!!
Links to Log files: