Mercurial > repos > imgteam > imagej2_skeletonize3d

comparison imagej2_binary_to_edm_jython_script.py @ 2:49b5288dcd8c draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/image_processing/imagej2 commit 57a0433defa3cbc37ab34fbb0ebcfaeb680db8d5
author imgteam
date Sun, 05 Nov 2023 14:26:52 +0000
parents 768825d9034a
children 5f5b7185bc16
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1:768825d9034a 2:49b5288dcd8c
19 # Create a copy of the image. 19 # Create a copy of the image.
20 input_image_plus_copy = input_image_plus.duplicate() 20 input_image_plus_copy = input_image_plus.duplicate()
21 image_processor_copy = input_image_plus_copy.getProcessor() 21 image_processor_copy = input_image_plus_copy.getProcessor()
22 22
23 # Set binary options. 23 # Set binary options.
24 options_list = ['edm=Overwrite', 'iterations=%d' % iterations, 'count=%d' % count] 24 options_list = ["edm=Overwrite", "iterations=%d" % iterations, "count=%d" % count]
25 if black_background: 25 if black_background:
26 options_list.append("black") 26 options_list.append("black")
27 if pad_edges_when_eroding: 27 if pad_edges_when_eroding:
28 options_list.append("pad") 28 options_list.append("pad")
29 options = " ".join(options_list) 29 options = " ".join(options_list)