Updated autotools to fix Qt port compilation.

Yeah, it's some kind of ugly hack... but it always been...
and those scripts will be removed after next release.

git-svn-id: https://yabause.svn.sourceforge.net/svnroot/yabause/trunk@3007 d7be59e3-070e-4b9a-85a1-4646befae34d
Added deprecation warning in configure script.

git-svn-id: https://yabause.svn.sourceforge.net/svnroot/yabause/trunk@3008 d7be59e3-070e-4b9a-85a1-4646befae34d