Devteam:

The "cached" reference genome option on the variant_selector tool
(Main Toolshed) does not properly load reference options into the drop
down. Please comment out the following line to get it to work (the
same edit was already done in Unified Genotyper tool):

###########
diff -r 135e8721ffc5 variant_select.xml
--- a/variant_select.xml Tue Apr 01 10:49:48 2014 -0400
+++ b/variant_select.xml Wed Dec 03 13:53:46 2014 +0000
@@ -106,7 +106,7 @@
         <param name="input_variant" type="data" format="vcf"
label="Variant file to select" help="-V,--variant
&amp;lt;variant&amp;gt;" />
         <param name="ref_file" type="select" label="Using reference
genome" help="-R,--reference_sequence
&amp;lt;reference_sequence&amp;gt;">
           <options from_data_table="gatk_picard_indexes">
-            <filter type="data_meta" key="dbkey" ref="input_variant"
column="dbkey"/>
+            <!-- <filter type="data_meta" key="dbkey"
ref="input_variant" column="dbkey"/> -->
           </options>
           <validator type="no_options" message="A built-in reference
genome is not available for the build associated with the selected
input file"/>
         </param>
###########

Can I rely on one of you folks in devteam to post a new revision of
the tool? I'd rather not maintain a full fork.

Cheers,
-Evan Bollig
Research Associate | Application Developer | User Support Consultant
Minnesota Supercomputing Institute
599 Walter Library
612 624 1447
e...@msi.umn.edu
boll0...@umn.edu
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