Worked on packaging.

autogen.sh

@@ -113,7 +113,7 @@ do
 	echo "macros were not found"
 	exit 1
       }
-
+	  ./updateAutomake.sh
       if grep "^AM_CONFIG_HEADER" configure.in >/dev/null; then
 	echo "Running autoheader..."
 	autoheader || { echo "**Error**: autoheader failed."; exit 1; }
@@ -145,4 +145,3 @@ if test x$NOCONFIGURE = x; then
 else
   echo Skipping configure process.
 fi
-

configure.in

 dnl Process this file with autoconf to produce a configure script.
-AC_INIT(JSBSim.cpp, 1.0.rc3-advtrim, jon@jsbsim.org)
+AC_INIT(JSBSim.cpp, 1.0.rc3-advtrim-2, jon@jsbsim.org)
 
 dnl set the $host variable based on local machine/os
 AC_CANONICAL_TARGET
 
-AM_INIT_AUTOMAKE(jsbsim, 1.0.rc3-advtrim)
+AM_INIT_AUTOMAKE(jsbsim, 1.0.rc3-advtrim-2)
 AC_CONFIG_MACRO_DIR([m4])
 
 # Before making a release, the LT_VERSION string should be modified.
@@ -128,6 +128,14 @@ AC_OUTPUT(
 	check_cases/ground_tests/aircraft/groundtest/Makefile 
 	check_cases/ground_tests/data_plot/Makefile 
 	systems/Makefile 
+	jsbsim-1.0.rc3-advtrim/Makefile 
+	jsbsim-1.0.rc3-advtrim/systems/Makefile 
+	jsbsim-1.0.rc3-advtrim/src/Makefile 
+	jsbsim-1.0.rc3-advtrim/src/initialization/Makefile 
+	jsbsim-1.0.rc3-advtrim/src/models/Makefile 
+	jsbsim-1.0.rc3-advtrim/src/models/atmosphere/Makefile 
+	jsbsim-1.0.rc3-advtrim/engine/Makefile 
+	jsbsim-1.0.rc3-advtrim/aircraft/Makefile 
 	src/Makefile 
 	src/math/Makefile 
 	src/utilities/Makefile