diff projective_transformation.xml @ 6:2f504e075496 draft

planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/projective_transformation/ commit c045f067a57e8308308cf6329060c7ccd3fc372f

--- a/projective_transformation.xml	Mon Nov 13 22:12:05 2023 +0000
+++ b/projective_transformation.xml	Thu Apr 04 15:26:07 2024 +0000
@@ -1,5 +1,14 @@
-<tool id="ip_projective_transformation" name="Performs projective transformation with/without labels" version="0.1.2-2" profile="20.05"> 
+<tool id="ip_projective_transformation" name="Perform projective transformation of an image" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.05"> 
     <description></description>
+    <macros>
+        <import>creators.xml</import>
+        <import>tests.xml</import>
+        <token name="@TOOL_VERSION@">0.1.2</token>
+        <token name="@VERSION_SUFFIX@">3</token>
+    </macros>
+    <creator>
+        <expand macro="creators/bmcv"/>
+    </creator>
     <edam_operations>
         <edam_operation>operation_3443</edam_operation>
     </edam_operations>
@@ -7,11 +16,11 @@
         <xref type="bio.tools">galaxy_image_analysis</xref>
     </xrefs>
     <requirements>
-        <requirement type="package" version="0.18.1">scikit-image</requirement>
+        <requirement type="package" version="0.18.3">scikit-image</requirement>
         <requirement type="package" version="1.2.4">pandas</requirement>
-        <requirement type="package" version="1.20.2">numpy</requirement>
-        <requirement type="package" version="1.6.2">scipy</requirement>
-        <requirement type="package" version="2020.10.1">tifffile</requirement>
+        <requirement type="package" version="1.24.4">numpy</requirement>
+        <requirement type="package" version="1.10.1">scipy</requirement>
+        <requirement type="package" version="2021.7.2">tifffile</requirement>
     </requirements>
     <command detect_errors="aggressive">
     <![CDATA[
@@ -25,9 +34,9 @@
     ]]>
     </command>
     <inputs>
-        <param name="moving" type="data" format="tiff,png" label="Moving image (to be transformed)" />
-        <param name="fixed" type="data" format="tiff,png" label="Fixed image (the reference)" />
-        <param name="tmat" type="data" format="tabular" label="Transformation matrix" />
+        <param name="moving" type="data" format="tiff,png" label="Moving image" help="The image to be transformed." />
+        <param name="fixed" type="data" format="tiff,png" label="Fixed image" help="The reference image." />
+        <param name="tmat" type="data" format="tabular" label="Transformation matrix" help="Homogeneous transformation matrix (3⨉3)." />
     </inputs>
     <outputs>
         <data name="warped" format_source="moving" metadata_source="moving" from_work_dir="result_image" />
@@ -37,27 +46,28 @@
             <param name="fixed" value="fixed.png"/>
             <param name="moving" value="moving.png"/>
             <param name="tmat" value="tmat.tsv"/>
-            <output name="warped" value="moving_warped.png" ftype="png" compare="sim_size" delta_frac="0.1" />
+            <expand macro="tests/intensity_image_diff" name="warped" value="moving_warped.png" ftype="png"/>
         </test>
         <test>
             <param name="fixed" value="fixed_rgb.png"/>
             <param name="moving" value="moving_rgb.png"/>
             <param name="tmat" value="tmat.tsv"/>
-            <output name="warped" value="moving_rgb_warped.png" ftype="png" compare="sim_size" delta_frac="0.1" />
+            <expand macro="tests/intensity_image_diff" name="warped" value="moving_rgb_warped.png" ftype="png"/>
         </test>
         <test>
             <param name="fixed" value="multi_f.tif"/>
             <param name="moving" value="multi_m.tif"/>
             <param name="tmat" value="tmat.tsv"/>
-            <output name="warped" value="multi_m_warped.tif" ftype="tiff" compare="sim_size" delta_frac="0.1" />
+            <expand macro="tests/intensity_image_diff" name="warped" value="multi_m_warped.tif" ftype="tiff"/>
       </test>
     </tests>
     <help>
 
-**What it does**
+        **Performs projective transformation.**
 
-    This tool performs a projective transformation of the moving 2D image so that it fits the fixed 2D image. 
-    Multi-channel and RGB images are supported.
+        This tool performs a projective transformation of 2-D image into the coordinate system of another 2-D image. 
+        Multi-channel images are supported (e.g., RGB).
+
     </help>
     <citations>
         <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation>