Got rid of deprecated usage of manifest Eclipse-AutoStart (changed to LazyStart) and got rid of .project project references because JDT/PDE takes care of these automatically and those are deprecated in the .project file.
diff --git a/plugins/org.eclipse.jem.util/META-INF/MANIFEST.MF b/plugins/org.eclipse.jem.util/META-INF/MANIFEST.MF
index 30f7314..50f0567 100644
--- a/plugins/org.eclipse.jem.util/META-INF/MANIFEST.MF
+++ b/plugins/org.eclipse.jem.util/META-INF/MANIFEST.MF
@@ -21,4 +21,4 @@
org.eclipse.emf.ecore,
org.eclipse.emf.ecore.xmi,
org.eclipse.perfmsr.core;resolution:=optional
-Eclipse-AutoStart: true
+Eclipse-LazyStart: true
