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This will detail how to run ilastik headless and track jobs submissions etc.
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GlomIDTrainingImages
CapillaryOpenness
CellArea
CellCounts
MME.ijm
Methods
MontageMaker.ijm
Parralle_Ndpisplit.she README
README.md
TrainedClassifer
create_inputfile
ilastikheadlessJan2017_3.sh
parallel_ndpisplit.sh

README.md

Digital-Glomerular-identification

This Github page explains how to use the output of ilastik classification in segmentation .tiff files and obtain disease scores per glomeruli.
Code will be provided to run both in Graphical user Interface (GUI) macros for Image J and headless or commandline for command line interaction some helpful hints to track jobs submissions etc. will be provided.

This assumes that you have a working ilastik classifier.

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