diff gemini_macros.xml @ 11:53a5647e5271 draft

Uploaded

--- a/gemini_macros.xml	Mon Aug 25 16:37:46 2014 -0400
+++ b/gemini_macros.xml	Wed Feb 18 11:36:37 2015 -0500
@@ -88,11 +88,17 @@
 
     <xml name="sanitize_query">
         <sanitizer invalid_char="">
-            <valid initial="string.printable">
-            </valid>
+            <valid initial="string.printable"/>
        </sanitizer>
     </xml>
 
+    <token name="@CMDLN_SQL_FILTER_FILTER_OPTION@">
+        #if str($filter.filter_selector) == 'yes' and $filter.filter:
+            #import pipes
+            --filter ${ pipes.quote( str( $filter.filter ) ) or "''" }
+        #end if
+    </token>
+
     <xml name="min_sequence_depth">
         <param name="d" type="integer" value="0" size="5" label="The minimum aligned sequence depth (genotype DP) required for each sample"
                 help="default: 0 (-d)">
@@ -100,7 +106,7 @@
         </param>
     </xml>
 
-    <token name="@VERSION@">0.10.0</token>
+    <token name="@VERSION@">0.10.1</token>
 
     <token name="@CITATION@">------
 
@@ -115,4 +121,14 @@
         <yield />
     </citations>
   </xml>
+
+    <xml name="infile">
+        <param name="infile" type="data" format="gemini.sqlite" label="GEMINI database" help="Only files with version @VERSION@ are accepted." >
+            <options options_filter_attribute="metadata.gemini_version" >
+                <filter type="add_value" value="@VERSION@" />
+            </options>
+            <validator type="expression" message="This version of Gemini will only work with Gemini files that are for version @VERSION@.">value is not None and value.metadata.gemini_version == "@VERSION@"</validator>
+        </param>
+    </xml>
+
 </macros>