Mercurial > repos > imgteam > imagej2_analyze_skeleton

comparison imagej2_create_image_jython_script.py @ 1:3272e0439968 draft

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"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/image_processing/imagej2 commit 2afb24f3c81d625312186750a714d702363012b5"
author imgteam
date Mon, 28 Sep 2020 16:52:29 +0000
parents bb84f130a4e1
children bdee06a1bcfa
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0:bb84f130a4e1 1:3272e0439968
1 import sys 1 import sys
2
2 from ij import IJ 3 from ij import IJ
3 4
4 # Fiji Jython interpreter implements Python 2.5 which does not 5 # Fiji Jython interpreter implements Python 2.5 which does not
5 # provide support for argparse. 6 # provide support for argparse.
6 title = sys.argv[ -6 ] 7 title = sys.argv[-6]
7 width = int( sys.argv[ -5 ] ) 8 width = int(sys.argv[-5])
8 height = int( sys.argv[ -4 ] ) 9 height = int(sys.argv[-4])
9 depth = int( sys.argv[ -3 ] ) 10 depth = int(sys.argv[-3])
10 type = sys.argv[ -2 ].replace( '_', ' ' ) 11 type = sys.argv[-2].replace('_', ' ')
11 tmp_image_path = sys.argv[ -1 ] 12 tmp_image_path = sys.argv[-1]
12 13
13 imp = IJ.newImage( title, type, width, height, depth ) 14 imp = IJ.newImage(title, type, width, height, depth)
14 IJ.save( imp, "%s" % tmp_image_path ) 15 IJ.save(imp, "%s" % tmp_image_path)