Hey Guillaume,
I'm not an autoconf expert, but this program seems to be tricking your
/usr/bin/autoconf script:

bash-2.05b$ ./autogen.sh 
Running autoheader
FATAL ERROR: Autoconf version 2.52 or higher is required for this script
Running aclocal 
Running automake
Running autoconf 
FATAL ERROR: Autoconf version 2.52 or higher is required for this script


Something is wrong here!  Or is it the author's configure.in file?
Austin


bash-2.05b$ autoheader-2.13
FATAL ERROR: Autoconf version 2.52 or higher is required for this script

bash-2.05b$ autoheader-2.5x
ac-wrapper: ouch, couldn't call binary (/usr/bin/autom4te-2.13).
autoheader-2.5x: autom4te failed with exit status: 2
 at /usr/bin/autoheader-2.5x line 163

bash-2.05b$ cat configure.in
dnl Process this file with autoconf to produce a configure script.

AC_INIT(gnome-file-manager, 1.0)
AC_CONFIG_SRCDIR(configure.in)
AM_INIT_AUTOMAKE(AC_PACKAGE_NAME, AC_PACKAGE_VERSION)

AM_CONFIG_HEADER(config.h)

##dnl Add PONG support
##AM_PROG_XML_I18N_TOOLS
##AM_PROG_PONG

AM_SANITY_CHECK
AM_MAINTAINER_MODE

AC_PROG_CC
AC_PROG_CPP
AC_PROG_INSTALL
AC_PROG_MAKE_SET

# gnome, gtk+, ...
PKG_CHECK_MODULES(GFM, libgnomeui-2.0 libglade-2.0)

AC_SUBST(GFM_CFLAGS)
AC_SUBST(GFM_LIBS)


dnl Add the languages which your application supports here.
ALL_LINGUAS=""
AM_GLIB_GNU_GETTEXT

GETTEXT_PACKAGE=AC_PACKAGE_NAME
AC_SUBST(GETTEXT_PACKAGE)
AC_DEFINE_UNQUOTED(GETTEXT_PACKAGE, "$GETTEXT_PACKAGE", "i don't know
what should be here")

AM_GLIB_GNU_GETTEXT
AC_PROG_INTLTOOL

AC_OUTPUT([
Makefile
src/Makefile
po/Makefile.in
testing/Makefile
pixmaps/Makefile
help/Makefile
help/C/Makefile
intltool-extract
intltool-merge
intltool-update
])


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