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"

--- /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>