diff rpviz.xml @ 2:751dfcc6f663 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rptools commit 2333b7b56422febf439cd9f4cd3e6eda858b2690

--- a/rpviz.xml	Wed Nov 16 14:55:09 2022 +0000
+++ b/rpviz.xml	Tue Mar 28 12:11:30 2023 +0000
@@ -1,12 +1,9 @@
 <tool id="rptools_rpviz" name="Visualize pathways" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.09">
     <description>Visualize pathways from the RetroPath Suite</description>
     <macros>
-        <token name="@VERSION_SUFFIX@">0</token>
-        <token name="@TOOL_VERSION@">5.13.1</token>
+        <import>macros.xml</import>
     </macros>
-    <requirements>
-        <requirement type="package" version="@TOOL_VERSION@">rptools</requirement>
-    </requirements>
+    <expand macro="requirements"/>
     <command detect_errors="exit_code"><![CDATA[
         #set input_folder="input_folder"
         mkdir -p '$input_folder' &&
@@ -54,33 +51,33 @@
     </outputs>
     <tests>
         <test>
-        <!-- test 1: check if identical html output is produced (single sbml input) --> 
+        <!-- test 1: check if identical html output is produced (single sbml input) -->
             <conditional name="input_type_conditional">
                 <param name="input_type" value="single_sbml"/>
                 <param name="input_single_sbml" value="lycopene_CrtEBI_from_selenzy.xml" />
             </conditional>
             <output name="html_file" >
                 <assert_contents>
-                    <has_size value="1296252" delta="100" />
+                    <has_size value="1296252" delta="1000" />
                 </assert_contents>
             </output>
         </test>
         <test>
-        <!-- test 2: check if identical html output is produced (tar input) --> 
+        <!-- test 2: check if identical html output is produced (tar input) -->
             <conditional name="input_type_conditional">
                 <param name="input_type" value="tar"/>
                 <param name="input_tar" value="as_tar_inputs.tgz" />
             </conditional>
             <output name="html_file" >
                 <assert_contents>
-                    <has_size value="1604488" delta="100" />
+                    <has_size value="1604488" delta="1000" />
                 </assert_contents>
             </output>
         </test>
     </tests>
     <help><![CDATA[
 RPVIZ
-================
+=====
 
 Visualize pathways from the `RetroPath Suite <https://www.sciencedirect.com/science/article/pii/S1096717617301337>`_.
 
@@ -99,19 +96,9 @@
 ------
 
 * **Pathways Visualization**\ : HTML output for pathway's visualization.
-
-Project Links
-------------------
-
-* `GitHub <https://github.com/brsynth/rptools/tree/master/rptools/rpviz>`_
-
-License
--------
-
-* `MIT <https://github.com/brsynth/rptools/blob/master/LICENSE>`_
-
     ]]></help>
-    <creator>
-        <person givenName="Thomas" familyName="Duigou" email="[e-mail]" identifier="https://orcid.org/0000-0002-2649-2950" />
-    </creator>
+    <expand macro="creator"/>
+    <citations>
+        <citation type="doi">10.1038/s41467-022-32661-x</citation>
+    </citations>
 </tool>