Works fine here. Are your autoconf, automake and libtool ports up to date? If you use -v, do you see output like this at the start of the configure phase?
autoreconf: Entering directory `.'
autoreconf: configure.in: not using Gettext
autoreconf: running: aclocal --force
autoreconf: configure.in: tracing
autoreconf: running: /opt/local/bin/glibtoolize --copy --force
glibtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, `.'.
glibtoolize: copying file `./ltmain.sh'
glibtoolize: Consider adding `AC_CONFIG_MACRO_DIR([m4])' to configure.in and
glibtoolize: rerunning glibtoolize, to keep the correct libtool macros in-tree.
glibtoolize: Consider adding `-I m4' to ACLOCAL_AMFLAGS in Makefile.am.
autoreconf: running: /opt/local/bin/autoconf --force
autoreconf: running: /opt/local/bin/autoheader --force
autoreconf: running: automake --add-missing --copy --force-missing
configure.in:14: installing `./config.guess'
configure.in:14: installing `./config.sub'
configure.in:12: installing `./install-sh'
configure.in:12: installing `./missing'
common/mp4ff/Makefile.am: installing `./depcomp'
Makefile.am: installing `./INSTALL'
autoreconf: Leaving directory `.'
