diff -up EMBOSS-6.4.0/configure.in.system-expat EMBOSS-6.4.0/configure.in
--- EMBOSS-6.4.0/configure.in.system-expat	2011-11-23 17:06:08.000000000 +0100
+++ EMBOSS-6.4.0/configure.in	2011-11-23 17:07:00.615161077 +0100
@@ -643,6 +643,7 @@ AC_ARG_ENABLE([systemlibs],
 if test "${enable_systemlibs}" = "yes" ; then
   have_systemlibs=yes
   AC_CHECK_LIB(pcre, pcre_compile)
+  AC_CHECK_LIB(expat, XML_ParserCreate)
 fi
 AM_CONDITIONAL([ESYSTEMLIBS], [test "$have_systemlibs" = "yes"])
 AC_SUBST([ESYSTEMLIBS])
@@ -806,7 +807,6 @@ AC_CONFIG_FILES([Makefile
                  ajax/ajaxdb/Makefile
                  ajax/core/Makefile
                  ajax/ensembl/Makefile
-                 ajax/expat/Makefile
                  ajax/graphics/Makefile
                  ajax/zlib/Makefile
                  doc/Makefile
diff -up EMBOSS-6.4.0/configure.system-expat EMBOSS-6.4.0/configure