Mercurial > repos > imgteam > imagej2_bunwarpj_adapt_transform
comparison imagej2_bunwarpj_adapt_transform.xml @ 0:706af1d7028a 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 17:11:26 -0400 |
parents | |
children | 5d633d30316e |
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1 <?xml version='1.0' encoding='UTF-8'?> | |
2 <tool id="imagej2_bunwarpj_adapt_transform" name="Adapt an elastic transformation" version="@WRAPPER_VERSION@.0"> | |
3 <description>to a new image size with bUnwarpJ</description> | |
4 <macros> | |
5 <import>imagej2_macros.xml</import> | |
6 </macros> | |
7 <expand macro="fiji_requirements" /> | |
8 <command> | |
9 <![CDATA[ | |
10 python $__tool_directory__/imagej2_bunwarpj_adapt_transform.py | |
11 --target_image "$target_image" | |
12 --target_image_format $target_image.ext | |
13 --source_image "$source_image" | |
14 --source_image_format $source_image.ext | |
15 --input_elastic_transformation "$input_elastic_transformation" | |
16 --image_size_factor $image_size_factor | |
17 --output "$output" | |
18 ]]> | |
19 </command> | |
20 <inputs> | |
21 <param format="bmp,eps,gif,jpg,pcx,pgm,png,psd,tiff" name="target_image" type="data" label="Target image"/> | |
22 <param format="bmp,eps,gif,jpg,pcx,pgm,png,psd,tiff" name="source_image" type="data" label="Source image"/> | |
23 <param format="txt" name="input_elastic_transformation" type="data" label="Target inverse transformation"/> | |
24 <param name="image_size_factor" type="float" value="2.0" label="Image size factor" help="Must be a positive or negative power of 2 (0.25, 0.5, 2, 4, 8, etc)"/> | |
25 </inputs> | |
26 <outputs> | |
27 <data name="output" format="txt" label="${tool.name} on ${on_string}: Image size factor ${image_size_factor}" /> | |
28 </outputs> | |
29 <tests> | |
30 <test> | |
31 <param name="target_image" value="dotblot.jpg" /> | |
32 <param name="source_image" value="blobs.gif" /> | |
33 <param name="input_elastic_transformation" value="source_elastic_transformation.txt" /> | |
34 <param name="image_size_factor" value="2.0" /> | |
35 <output name="output" file="adapted_transformation.txt" ftype="txt" /> | |
36 </test> | |
37 </tests> | |
38 <help> | |
39 **What it does** | |
40 | |
41 <![CDATA[ | |
42 Transforms the coefficients of an elastic transformation according to a real image | |
43 factor. This is useful, for example, for very large images, where sub-sampled versions | |
44 of the image (e.g., 4 times smaller) can be registered with the resulting transformations | |
45 adapted to the smaller image size (image factor = 4) so they can be applied to the high | |
46 resolution images. | |
47 | |
48 ]]> | |
49 | |
50 </help> | |
51 <expand macro="bunwarpj_citations" /> | |
52 </tool> |