diff --git a/lib/galaxy/config/sample/tool_conf.xml.sample b/lib/galaxy/config/sample/tool_conf.xml.sample
index 2e4daee8d67..68c52e54e39 100644
--- a/lib/galaxy/config/sample/tool_conf.xml.sample
+++ b/lib/galaxy/config/sample/tool_conf.xml.sample
@@ -126,7 +126,6 @@
     <tool file="maf/vcf_to_maf_customtrack.xml" />
   </section>
   <section id="hgv" name="Phenotype Association">
-    <tool file="phenotype_association/sift.xml" />
     <tool file="phenotype_association/linkToGProfile.xml" />
     <tool file="phenotype_association/linkToDavid.xml" />
     <tool file="phenotype_association/ldtools.xml" />