Mercurial > repos > imgteam > imagej2_bunwarpj_adapt_transform
diff 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 |
---|---|
date | Tue, 17 Sep 2019 17:11:26 -0400 |
parents | |
children | 5d633d30316e |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/imagej2_bunwarpj_adapt_transform.xml Tue Sep 17 17:11:26 2019 -0400 @@ -0,0 +1,52 @@ +<?xml version='1.0' encoding='UTF-8'?> +<tool id="imagej2_bunwarpj_adapt_transform" name="Adapt an elastic transformation" version="@WRAPPER_VERSION@.0"> + <description>to a new image size with bUnwarpJ</description> + <macros> + <import>imagej2_macros.xml</import> + </macros> + <expand macro="fiji_requirements" /> + <command> +<![CDATA[ + python $__tool_directory__/imagej2_bunwarpj_adapt_transform.py + --target_image "$target_image" + --target_image_format $target_image.ext + --source_image "$source_image" + --source_image_format $source_image.ext + --input_elastic_transformation "$input_elastic_transformation" + --image_size_factor $image_size_factor + --output "$output" +]]> + </command> + <inputs> + <param format="bmp,eps,gif,jpg,pcx,pgm,png,psd,tiff" name="target_image" type="data" label="Target image"/> + <param format="bmp,eps,gif,jpg,pcx,pgm,png,psd,tiff" name="source_image" type="data" label="Source image"/> + <param format="txt" name="input_elastic_transformation" type="data" label="Target inverse transformation"/> + <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)"/> + </inputs> + <outputs> + <data name="output" format="txt" label="${tool.name} on ${on_string}: Image size factor ${image_size_factor}" /> + </outputs> + <tests> + <test> + <param name="target_image" value="dotblot.jpg" /> + <param name="source_image" value="blobs.gif" /> + <param name="input_elastic_transformation" value="source_elastic_transformation.txt" /> + <param name="image_size_factor" value="2.0" /> + <output name="output" file="adapted_transformation.txt" ftype="txt" /> + </test> + </tests> + <help> +**What it does** + +<![CDATA[ +Transforms the coefficients of an elastic transformation according to a real image +factor. This is useful, for example, for very large images, where sub-sampled versions +of the image (e.g., 4 times smaller) can be registered with the resulting transformations +adapted to the smaller image size (image factor = 4) so they can be applied to the high +resolution images. + +]]> + + </help> + <expand macro="bunwarpj_citations" /> +</tool>