Update tool XSD against latest Galaxy.

jmchilton · jmchilton · commit fca4183f8071 · 2017-01-30T14:11:53.000-05:00
Fixes #622.
diff --git a/planemo/xml/xsd/tool/galaxy.xsd b/planemo/xml/xsd/tool/galaxy.xsd
@@ -1916,7 +1916,7 @@ parameter being described. All the attributes for the ``param`` element are
 documented below for completeness, but here are the common ones for each
 type are as follows:
 
-$attribute_list:name,type,optional,label,help,argument:4
+$attribute_list:name,type,optional,label,help,argument,refresh_on_change:4
 
 ### Parameter Types
 
@@ -1942,6 +1942,20 @@ rendered on the tool form as a text area instead of a single line text box.
 <param name="foo" type="text" area="True" size="5x25" />
 ```
 
+As of 17.01, ``text`` parameters can also supply a static list of preset
+defaults options. The user **may** be presented with the option to select one of
+these but will be allowed to supply an arbitrary text value.
+
+```xml
+<param name="foo" type="text" value="foo 1">
+    <option value="foo 1">Foo 1 Display</option>
+    <option value="foo 2">Foo 2 Display</option>
+</param>
+```
+
+See [param_text_option.xml](https://github.com/galaxyproject/galaxy/blob/dev/test/functional/tools/param_text_option.xml)
+for a demonstration of this.
+
 $attribute_list:value,size,area:5
 
 #### ``integer`` and ``float``
@@ -2236,6 +2250,11 @@ but not always the tool's input dataset).
             <xs:documentation xml:lang="en"></xs:documentation>
           </xs:annotation>
         </xs:attribute>
+        <xs:attribute name="refresh_on_change" type="PermissiveBoolean">
+          <xs:annotation>
+            <xs:documentation xml:lang="en">Force a reload of the tool panel when the value of this parameter changes to allow ``code`` file processing. See deprecation-like notice for ``code`` blocks.</xs:documentation>
+          </xs:annotation>
+        </xs:attribute>
         <xs:attribute name="force_select" type="PermissiveBoolean" gxdocs:deprecated="true">
           <xs:annotation>
             <xs:documentation xml:lang="en">Used only if the ``type`` attribute
@@ -3260,7 +3279,7 @@ to the tool.
 ```
 
 This more advanced example, taken from Mothur's
-[remove.linage.xml](https://github.com/galaxyproject/tools-iuc/blob/master/tools/mothur/remove.lineage.xml)
+[remove.lineage.xml](https://github.com/galaxyproject/tools-iuc/blob/master/tools/mothur/remove.lineage.xml)
 tool demonstrates using filters to sort a list and remove duplicate entries.
 
 ```xml
@@ -3310,7 +3329,7 @@ tool demonstrates adding values to an option list using ``filter``s.
 </param>
 ```
 
-While this fragment from maf_to_interval.xml demonstrates removing items.
+While this fragment from [maf_to_interval.xml](https://github.com/galaxyproject/galaxy/blob/dev/tools/maf/maf_to_interval.xml) demonstrates removing items.
 
 ```xml
 <param name="species" type="select" label="Select additional species"
@@ -3375,7 +3394,7 @@ used with ``type`` of ``add_value``).</xs:documentation>
     <xs:attribute name="key" type="xs:string">
       <xs:annotation>
         <xs:documentation xml:lang="en">When ``type`` is ``data_meta``, ``param_value``,
-or ``remove_value`` - this is the name of the metadata key of ref to filter by.</xs:documentation>
+or ``remove_value`` - this is the name of the metadata key to filter by.</xs:documentation>
       </xs:annotation>
     </xs:attribute>
     <xs:attribute name="multiple" type="PermissiveBoolean" default="false">
@@ -3422,6 +3441,13 @@ is the index into the list to add the option to. If not set, the option will be
 added to the end of the list.</xs:documentation>
       </xs:annotation>
     </xs:attribute>
+    <xs:attribute name="meta_ref" type="xs:string">
+      <xs:annotation>
+        <xs:documentation xml:lang="en">Only used when ``type`` is
+``remove_value``. Dataset to look for the value of metadata ``key`` to remove
+from the list.</xs:documentation>
+      </xs:annotation>
+    </xs:attribute>
   </xs:complexType>
   <xs:complexType name="Outputs">
     <xs:annotation>
@@ -4802,7 +4828,7 @@ prepended with the warning ``Warning: Branch A was taken in execution``.
       <xs:documentation xml:lang="en"><![CDATA[See
 [extract_genomic_dna.xml](https://github.com/galaxyproject/tools-iuc/blob/master/tools/extract_genomic_dna/extract_genomic_dna.xml)
 or the test tool
-[output_action_change_format.xml](https://github.com/galaxyproject/galaxy/blob/dev/test/functional/tools/output_action_change_format.xml)
+[output_format.xml](https://github.com/galaxyproject/galaxy/blob/dev/test/functional/tools/output_format.xml)
 for simple examples of how this tag set is used in a tool. This tag set is
 optionally contained within the ``<data>`` tag set and is the container tag set
 for the following ``<when>`` tag set.]]></xs:documentation>
@@ -4847,7 +4873,7 @@ in the ``<data>`` tag set with ``format="interval"``.
 See
 [extract_genomic_dna.xml](https://github.com/galaxyproject/tools-iuc/blob/master/tools/extract_genomic_dna/extract_genomic_dna.xml)
 or the test tool
-[output_action_change_format.xml](https://github.com/galaxyproject/galaxy/blob/dev/test/functional/tools/output_action_change_format.xml)
+[output_format.xml](https://github.com/galaxyproject/galaxy/blob/dev/test/functional/tools/output_format.xml)
 for more examples.
 
 ]]></xs:documentation>
@@ -5057,6 +5083,7 @@ and ``bibtex`` are the only supported options.</xs:documentation>
       <xs:enumeration value="unique_value"/>
       <xs:enumeration value="multiple_splitter"/>
       <xs:enumeration value="add_value"/>
+      <xs:enumeration value="remove_value"/>
       <xs:enumeration value="sort_by"/>
     </xs:restriction>
   </xs:simpleType>
