Cleanup of config/includes.

Remove a use of AH_BOTTOM from configure.ac. This macro is used by
autoheader to add '#include' of some include file to the end of
config.h.in and then to config.h. OpenOCD can be built with a custom
config.h, so it's preferable to move these '#include' statement directly
in the C files that need them dropping this unneeded dependency.

It also causes problems when I want to use the gnulib library (which
comes with its own Makefile, and does not have the same include path as
the top-level Makefile).

So this change touches a lot of files, but is actually really simple. It
does not affect functionality at all.

Change-Id: I52c70bf15eb2edc1dd10e0fde23b2bcd4caec000
Signed-off-by: Tim Newsome <tim@sifive.com>
Reviewed-on: http://openocd.zylin.com/6171
Tested-by: jenkins
Reviewed-by: Antonio Borneo <borneo.antonio@gmail.com>

src/helper/configuration.c

@@ -18,12 +18,14 @@
  *   You should have received a copy of the GNU General Public License     *
  *   along with this program.  If not, see <http://www.gnu.org/licenses/>. *
  ***************************************************************************/
+
 #ifdef HAVE_CONFIG_H
 #include "config.h"
 #endif
 
 #include "configuration.h"
 #include "log.h"
+#include "replacements.h"
 
 static size_t num_config_files;
 static char **config_file_names;