diff macros.xml @ 4:184dfd9e113d draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/circos commit f5db2969e8602eff32ec799d237875b911578fe5"
author iuc
date Thu, 09 Jan 2020 10:03:02 -0500
parents fd59d783248a
children a64dc31ab7f2
line wrap: on
line diff
--- a/macros.xml	Mon Dec 02 08:14:29 2019 -0500
+++ b/macros.xml	Thu Jan 09 10:03:02 2020 -0500
@@ -2,7 +2,7 @@
 <macros>
   <token name="@CIRCOS_VERSION@">0.69.8</token>
 
-  <token name="@WRAPPER_VERSION@">@CIRCOS_VERSION@+galaxy2</token>
+  <token name="@WRAPPER_VERSION@">@CIRCOS_VERSION@+galaxy3</token>
 
   <xml name="requirements">
       <requirements>
@@ -141,6 +141,11 @@
     </param>
   </xml>
 
+  <xml name="zdepth">
+    <param name="zdepth" type="float" value="" optional="true" label="Z-depth"
+        help="Optional. Datasets with a higher z-depth value are drawn on top of data sets with a lower value. Only useful if plotting multiple tracks"/>
+  </xml>
+
   <xml name="font_select"
       token_normal="true"
       token_bold="false">
@@ -159,8 +164,8 @@
   <xml name="axes">
     <section name="sec_axes" title="Axes">
         <repeat name="axes" title="Axis">
-            <param name="y0" type="float" value="0" min="0" max="1" label="Inside Radius" help="Value must be between 1 (outer edge of track) and 0 (inner edge of the track)"/>
-            <param name="y1" type="float" value="1" min="0" max="1" label="Outside Radius" help="Value must be between 1 (outer edge of track) and 0 (inner edge of the track)"/>
+            <param name="y0" type="float" value="0" label="Inside Radius" help="Values are according to minimum and maximum values of dataset. E.g. if your dataset goes from -10 to 10, y0 should be -10"/>
+            <param name="y1" type="float" value="1" label="Outside Radius" help="Values are according to minimum and maximum values of dataset. E.g. if your dataset goes from -10 to 10, y1 should be 10"/>
 
             <expand macro="circos_color"/>
             <param name="thickness" type="integer" value="1" label="Thickness"/>
@@ -195,7 +200,13 @@
                     <when value="1">
                     </when>
                     <when value="on">
-                        <param name="on_genomes" type="text" label="Comma separated list of contig IDs"/>
+                        <param name="on_genomes" type="text" label="Contig IDs" help="Pipe | separated list of contig IDs">
+                            <sanitizer>
+                                <valid initial="string.letters,string.digits">
+                                  <add value="|" />
+                                </valid>
+                            </sanitizer>
+                        </param>
                     </when>
                     <when value="pos">
                         <param name="pos_gt" type="float" label="Greater than this base" optional="true"/>
@@ -232,7 +243,12 @@
                             </sanitizer>
                         </param>
 
-                        <param name="varvalue" type="text" label="Qualifier value to compare against"/>
+                        <param name="varvalue" type="text" label="Qualifier value to compare against">
+                            <sanitizer>
+                                <valid initial="string.letters,string.digits">
+                                </valid>
+                            </sanitizer>
+                        </param>
                     </when>
                 </conditional>
             </repeat>