A few minor changes to comments:

secgen_metadata.xml:20 - removed comment as not apache installation so not needed.
 java.pp:1-3 - update step removed here and example I used in #49 followed to allow for dependencies code to be used in the future.
java_service.xml:7 updated comment to reflect that the service is a java language installation

modules/services/unix/languages/java/java.pp

@@ -1,8 +1,3 @@
-exec { 'update':
-  command => "/usr/bin/apt-get update -y",
-}
-
-
 class { 'java':
   distribution => 'jre',
 }

modules/services/unix/languages/java/secgen_metadata.xml

@@ -17,7 +17,6 @@
   <software_name>java</software_name>
   <software_license>Apache v2</software_license>
 
-  <!--Cannot co-exist with other apache installations-->
   <conflict>
     <software_name>java</software_name>
   </conflict>

scenarios/simple_examples/java_service.xml

@@ -4,11 +4,15 @@
 	   xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
 	   xsi:schemaLocation="http://www.github/cliffe/SecGen/scenario">
 
-	<!-- an example remote storage system, with a remotely exploitable vulnerability that can then be escalated to root -->
+	<!-- A secure system running java -->
 	<system>
 		<system_name>system_with_java</system_name>
 		<base platform="linux"/>
 
+		<!-- TODO: Dependency -->
+		<service module_path="modules/services/unix/update/unix_update"></service>
+		<!-- TODO: /Dependency -->
+
 		<service module_path="modules/services/unix/languages/java"></service>
 
 		<network type="private_network" range="dhcp"></network>