diff mothur/tools/mothur/collect.shared.xml @ 25:bfbaf823be4c

Change metagenomics datatypes to include labels and groups metadata. change Mothur tool configs to get label and group select options from a data_meta filter rather than using the options from_dataset attribute. This grealty decreases memory demand for the galaxy server.

--- a/mothur/tools/mothur/collect.shared.xml	Wed Mar 28 15:45:03 2012 -0500
+++ b/mothur/tools/mothur/collect.shared.xml	Wed May 16 12:28:44 2012 -0500
@@ -26,20 +26,14 @@
   <param name="otu" type="data" format="shared" label="shared - OTU Shared"/>
   <param name="label" type="select" label="label - OTU Label filter" multiple="true">
    <help>To filter: select labels to include</help>
-   <options from_dataset="otu">
-    <column name="name" index="0"/>
-    <column name="value" index="0"/>
-    <filter type="static_value" name="ignore_header" keep="False" column="0" value = "label"/>
-    <filter type="unique_value" name="unq_lbl" column="0" />
+   <options>
+    <filter type="data_meta" ref="otu" key="labels" />
    </options>
   </param>
   <param name="groups" type="select" label="groups - Groups filter (uses all groups if none are selected)" multiple="true">
    <help>To filter: select select at least 2 groups</help>
-   <options from_dataset="otu">
-    <column name="name" index="1"/>
-    <column name="value" index="1"/>
-    <filter type="static_value" name="ignore_header" keep="False" column="1" value = "Group"/>
-    <filter type="unique_value" name="unq_grp" column="1" />
+   <options>
+    <filter type="data_meta" ref="otu" key="groups" />
    </options>
   </param>
   <param name="calc" type="select" label="calc - Calculators (Uses defaults if none are selected)" multiple="true">