diff --git a/build.xml b/build.xml
index 1eeee1c9c..ce91d935b 100644
--- a/build.xml
+++ b/build.xml
@@ -401,24 +401,6 @@
           </manifest>
         </jar>
 
-        <jar jarfile="${dist.dir}/ReorderSam.jar" whenmanifestonly="skip">
-          <fileset dir="${java.classes}">
-            <include name="**/tools/**/*.class" />
-          </fileset>
-          <manifest>
-            <attribute name="Main-Class" value="org.broadinstitute.sting.playground.tools.ReorderSam" />
-          </manifest>
-        </jar>
-
-        <jar jarfile="${dist.dir}/ModifyReadGroup.jar" whenmanifestonly="skip">
-          <fileset dir="${java.classes}">
-            <include name="**/tools/**/*.class" />
-          </fileset>
-          <manifest>
-            <attribute name="Main-Class" value="org.broadinstitute.sting.playground.tools.ModifyReadGroup" />
-          </manifest>
-        </jar>
-
         <jar jarfile="${dist.dir}/CompareBAMAlignments.jar" whenmanifestonly="skip">
           <fileset dir="${java.classes}">
             <include name="**/tools/**/*.class" />
@@ -495,19 +477,6 @@
                 <attribute name="Class-Path" value="${jar.classpath}" />
             </manifest>
         </jar>
-
-        <jar jarfile="${dist.dir}/ReorderSam.jar" update="true" whenmanifestonly="skip">
-            <manifest>
-                <attribute name="Class-Path" value="${jar.classpath}" />
-            </manifest>
-        </jar>
-
-        <jar jarfile="${dist.dir}/ModifyReadGroup.jar" update="true" whenmanifestonly="skip">
-            <manifest>
-                <attribute name="Class-Path" value="${jar.classpath}" />
-            </manifest>
-        </jar>
-
     </target>
 
     <target name="queue.manifests" depends="queue.jar, init.manifests" if="scala.include">