diff imagej2_bunwarpj_adapt_transform.xml @ 0:213ace68ff50 draft

planemo upload commit 369e40078146d00608d52205bb8cee66ae735b76-dirty
author iuc
date Fri, 26 Jun 2015 05:29:22 -0400
parents
children 6beb1921064d
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/imagej2_bunwarpj_adapt_transform.xml	Fri Jun 26 05:29:22 2015 -0400
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+<?xml version='1.0' encoding='UTF-8'?>
+<tool id="imagej2_bunwarpj_adapt_transform" name="Adapt an elastic transformation" version="1.0.0">
+    <description>to a new image size with bUnwarpJ</description>
+    <macros>
+        <import>imagej2_macros.xml</import>
+    </macros>
+    <expand macro="fiji_headless_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 $image_size_factor
+    @max_heap_size_args@
+    --output "$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)"/>
+        <expand macro="max_heap_size_type_conditional" />
+    </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="input_elastic_transformation.txt" />
+            <param name="image_size_factor" value="2.0" />
+            <output name="output" file="output_elastic_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>