Mercurial > repos > imgteam > imagej2_find_edges
comparison imagej2_bunwarpj_raw_transform_jython_script.py @ 0:8e608a6e44ac draft
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/image_processing/imagej2 commit b08f0e6d1546caaf627b21f8c94044285d5d5b9c-dirty"
author | imgteam |
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date | Tue, 17 Sep 2019 16:59:03 -0400 |
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-1:000000000000 | 0:8e608a6e44ac |
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1 import sys | |
2 import jython_utils | |
3 from ij import IJ | |
4 | |
5 # Fiji Jython interpreter implements Python 2.5 which does not | |
6 # provide support for argparse. | |
7 | |
8 source_tiff_path = sys.argv[ -3 ] | |
9 source_datatype = sys.argv[ -2 ] | |
10 source_path = sys.argv[ -1 ] | |
11 | |
12 # Save the Registered Source Image. | |
13 registered_source_image = IJ.openImage( source_tiff_path ) | |
14 if source_datatype == 'tiff': | |
15 registered_source_image = jython_utils.convert_before_saving_as_tiff( registered_source_image ) | |
16 IJ.saveAs( registered_source_image, source_datatype, source_path ) |