Made ImageJ example script a bit more user-friendly

model_server/clients/imagej/example_simple_ilastik.py

-import os
-import sys
-
-from ij import IJ
-from ij.plugin.filter import ParticleAnalyzer
-from ij.plugin.frame import Recorder, RoiManager
+from os.path import join, expanduser
 
-sys.path.append(
-	os.path.join(
-		os.path.expanduser('~'), 'model_server', 'source', 'model_server', 'clients'
-	)
-)
+# top-level directory <user>/model_server that contains codebase
+root = join(expanduser('~'), 'model_server')
 
-from imagej.adapter import run_request_sequence
-import ilastik_map_objects_simple
-from ij import IJ
+# USER: change this to look for ilastik models in some place other than <user>/model_server/ilastik
+classifier_directory = join(root, 'ilastik')
 
+# USER: set filenames and channels to build ilastik pipeline
 params = {
-	'pixel_classifier_path': 'c:/Users/rhodes/projects/proj0011-plankton-seg/exp0019/px-03.ilp',
-	'object_classifier_path': 'c:/Users/rhodes/projects/proj0011-plankton-seg/exp0019/obj-07.ilp',
+	'pixel_classifier': 'px-03.ilp',
+	'object_classifier': 'obj-07.ilp',
 	'debug': True,
 	'channel': 4,  # zero-index
 	'object_class': 3
 }
 
+# load ImageJ API then Jython dependencies that are maintained in model_server codebase
+import sys
+from ij import IJ
+from ij.plugin.frame import Recorder, RoiManager
+
+sys.path.append(join(root, 'source', 'model_server', 'clients'))
+from imagej.adapter import run_request_sequence
+import ilastik_map_objects_simple
+
+# call the server to run ilastik analysis
+params['pixel_classifier_path'] = join(classifier_directory, params['pixel_classifier'])
+params['object_classifier_path'] = join(classifier_directory, params['object_classifier'])
+
 IJ.run('Remove Overlay')
 imp_czi = IJ.getImage()