dnl Process this file with autoconf to produce a configure script.
AC_INIT([Kinfold], [1.0], [rna@tbi.univie.ac.at])

dnl Every other copy of the package version number gets its value from here
AM_INIT_AUTOMAKE

dnl configure options
AM_WITH_DMALLOC

dnl Checks for programs.
AC_PROG_CC
AC_PROG_MAKE_SET

dnl create a config.h file (Automake will add -DHAVE_CONFIG_H)
AM_CONFIG_HEADER(config.h)

AC_SUBST(VERSION)

ISODATE=`date +%Y-%m-%d`
AC_SUBST(ISODATE)

AC_CANONICAL_HOST

AC_ARG_WITH(ViennaRNA-include, 
  [ --with-ViennaRNA-include	where to search for ViennaRNA header files], 
  ac_VRNA_includes="$withval",
  )

AC_ARG_WITH(ViennaRNA-lib, 
  [ --with-ViennaRNA-lib	where to search for libRNA.a], 
  ac_VRNA_lib="$withval",
  )

AC_PATH_VRNA	

dnl Checks for libraries.
dnl Replace `main' with a function in -lm:
AC_CHECK_LIB(m, exp)

dnl checking for -lRNA will fail if both are built simultaneously
dnl AC_CHECK_LIB(RNA, fold)
LIBS=["-lRNA ${LIBS}"]


dnl Checks for header files.
AC_HEADER_STDC
AC_CHECK_HEADERS(limits.h sys/time.h unistd.h fold.h)

dnl Checks for typedefs, structures, and compiler characteristics.
AC_C_CONST

dnl Checks for library functions.
AC_CHECK_FUNCS(strdup)

AC_OUTPUT(Makefile Example/Makefile)