# HG changeset patch
# User iuc
# Date 1743763060 0
# Node ID c49d6a069ce388b85d3b92df34f602e6d704e465
# Parent  ea76fa4f1526e03a1f899544e136e86d2b69cce7
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/arriba commit 2d69e621036bf155e02189d4a9a8aa9ee24536e0

diff -r ea76fa4f1526 -r c49d6a069ce3 arriba_draw_fusions.xml
--- a/arriba_draw_fusions.xml	Wed Sep 25 15:29:42 2024 +0000
+++ b/arriba_draw_fusions.xml	Fri Apr 04 10:37:40 2025 +0000
@@ -89,7 +89,7 @@
 
 **INPUTS**
 
-See: https://arriba.readthedocs.io/en/latest/command-line-options/#draw_fusionsr
+See: https://github.com/suhrig/arriba/wiki/07-Command-line-options#draw_fusionsr
 
   - Fusions  
 
@@ -122,12 +122,12 @@
 
 **OPTIONS**
 
-  See: https://arriba.readthedocs.io/en/latest/command-line-options/#draw_fusionsr
+  See: https://github.com/suhrig/arriba/wiki/07-Command-line-options#draw_fusionsr
 
 
 **OUTPUTS**
 
-See: https://arriba.readthedocs.io/en/latest/visualization/
+See: https://github.com/suhrig/arriba/wiki/06-Visualization
 
   - fusions.pdf
 
@@ -140,8 +140,8 @@
 
 
 
-.. _Arriba_Draw_Fusions: https://arriba.readthedocs.io/en/latest/visualization/
-.. _Arriba: https://arriba.readthedocs.io/en/latest/
+.. _Arriba_Draw_Fusions: https://github.com/suhrig/arriba/wiki/06-Visualization
+.. _Arriba: https://github.com/suhrig/arriba/wiki/01-Home
 
     ]]></help>
     <expand macro="citations" />
diff -r ea76fa4f1526 -r c49d6a069ce3 macros.xml
--- a/macros.xml	Wed Sep 25 15:29:42 2024 +0000
+++ b/macros.xml	Fri Apr 04 10:37:40 2025 +0000
@@ -1,6 +1,6 @@
 <macros>
-    <token name="@TOOL_VERSION@">2.4.0</token>
-    <token name="@VERSION_SUFFIX@">2</token>
+    <token name="@TOOL_VERSION@">2.5.0</token>
+    <token name="@VERSION_SUFFIX@">0</token>
     <xml name="requirements">
         <requirements>
         <requirement type="package" version="@TOOL_VERSION@">arriba</requirement>
@@ -238,6 +238,7 @@
                         </help>
                         <validator type="regex" message="">^\d+(,\d+)?$</validator>
                     </param>
+                    <param argument="--plotPanels" type="boolean" label="Plot panels" truevalue="TRUE" falsevalue="FALSE" help="The output will contain a panel for each fusion partner"/>
                 </section>
     </xml>
     <token name="@DRAW_FUSIONS@">
@@ -301,5 +302,8 @@
     #if str($visualization.options.fontSize)
         --fontSize=$visualization.options.fontSize
     #end if
+    #if $visualization.options.plotPanels
+        --plotPanels=$visualization.options.plotPanels
+    #end if
 </token>
 </macros>