Mercurial > repos > imgteam > imagej2_bunwarpj_compare_elastic
comparison imagej2_bunwarpj_compare_elastic.xml @ 0:b95f87118c6f draft
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/image_processing/imagej2 commit b08f0e6d1546caaf627b21f8c94044285d5d5b9c-dirty"
| author | imgteam |
|---|---|
| date | Tue, 17 Sep 2019 17:05:38 -0400 |
| parents | |
| children | 125641435c4b |
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| -1:000000000000 | 0:b95f87118c6f |
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| 1 <?xml version='1.0' encoding='UTF-8'?> | |
| 2 <tool id="imagej2_bunwarpj_compare_elastic" name="Compare opposite elastic deformations" version="@WRAPPER_VERSION@.0"> | |
| 3 <description>by warping index with bUnwarpJ</description> | |
| 4 <macros> | |
| 5 <import>imagej2_macros.xml</import> | |
| 6 </macros> | |
| 7 <expand macro="fiji_requirements" /> | |
| 8 <command> | |
| 9 <![CDATA[ | |
| 10 python $__tool_directory__/imagej2_bunwarpj_compare_elastic.py | |
| 11 --target_image "$target_image" | |
| 12 --target_image_format $target_image.ext | |
| 13 --source_image "$source_image" | |
| 14 --source_image_format $source_image.ext | |
| 15 --target_transformation "$target_transformation" | |
| 16 --source_transformation "$source_transformation" | |
| 17 --output "$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="target_transformation" type="data" label="Target inverse transformation"/> | |
| 24 <param format="txt" name="source_transformation" type="data" label="Source direct transformation"/> | |
| 25 </inputs> | |
| 26 <outputs> | |
| 27 <data name="output" format="txt" label="${tool.name} on ${on_string}: Warping index" /> | |
| 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="target_transformation" value="target_elastic_transformation.txt" /> | |
| 34 <param name="source_transformation" value="source_elastic_transformation.txt" /> | |
| 35 <output name="output" file="warping_index.txt" /> | |
| 36 </test> | |
| 37 </tests> | |
| 38 <help> | |
| 39 **What it does** | |
| 40 | |
| 41 <![CDATA[ | |
| 42 Calculates the warping index of two elastic transformations, i.e. the average of the geometrical distance | |
| 43 between every pixel and its version after applying both transformations (direct and inverse). This value | |
| 44 is given as a result. The transformation files must be in the same format format as the files created with | |
| 45 the **Save Transformation** option in the **Align two images with bUnwarpJ** tool. | |
| 46 | |
| 47 ]]> | |
| 48 | |
| 49 </help> | |
| 50 <expand macro="bunwarpj_citations" /> | |
| 51 </tool> |