configure.ac

AC_COPYRIGHT((c) 2012-2014 Cold Spring Harbor Laboratory)

AC_PREREQ([2.68])
AC_INIT([snapdragon],[0.0.2],[olson@warelab.org])
AC_CONFIG_AUX_DIR([test])
AC_REQUIRE_AUX_FILE([tap-driver.sh])
AM_INIT_AUTOMAKE([-Wall -Werror foreign])
AC_REVISION([m4_esyscmd_s([git describe --tags --always])])

AC_CONFIG_SRCDIR([config.h.in])
AC_CONFIG_HEADERS([config.h])
AC_CONFIG_MACRO_DIR([m4])
AM_CONDITIONAL([MACOS], [test "$(uname -s)" = "Darwin"])

# Can't find Boost dirs (in /usr/local) on my system; is this bad practice?
AC_SUBST(CPPFLAGS, -I/usr/local/include)
AC_SUBST(LDFLAGS, -L/usr/local/lib)

# Options to configure.
# Boost
AC_ARG_WITH(boost, AS_HELP_STRING([--with-boost=PATH],
	[directory for the boost header files]))
if test "$with_boost" -a -d "$with_boost"; then
	boost_cppflags="-I$with_boost"
fi
AC_SUBST(CPPFLAGS, "$boost_cppflags $CPPFLAGS")

AC_LANG_PUSH([C++])
AC_CHECK_HEADERS([boost/foreach.hpp], [],
	[AC_MSG_ERROR(You need the Boost libraries.)])
AC_CHECK_HEADERS([zlib.h], [],
	[AC_MSG_ERROR(You need zlib (http://zlib.net).)])
AC_LANG_POP([C++])

LIB_VERSION_INFO=0:9:0

AM_PROG_AR

# Checks for programs.
AC_PROG_CXX
AC_PROG_AWK
AC_PROG_CC
AC_PROG_CPP
AC_PROG_INSTALL
AC_PROG_LN_S
AC_PROG_MAKE_SET
AC_PROG_LIBTOOL

# Checks for libraries.
AC_CHECK_LIB([z], [deflateInit])
AC_CHECK_LIB([boost_serialization], [serialize])

AC_CHECK_LIB([gtest_main],
             [main],
             AM_CONDITIONAL(HAVE_SHARED_LIBGTEST, [true]),
             AM_CONDITIONAL(HAVE_SHARED_LIBGTEST, [false]))

AC_MSG_CHECKING(whether to enable extra optimization)
AC_ARG_ENABLE(xopt,
	[AS_HELP_STRING([--enable-xopt],
		[turn on extra optimization (default: no, leave the default CXXFLAGS alone)])],
	[if test "$enableval" = "yes" ; then xopt="yes" ; else xopt="no" ; fi],[xopt="no"])
AC_MSG_RESULT($xopt)
if test "x$xopt" = "xyes" ; then
	# add -O5 if the compiler accepts it, otherwise -O3
	OLDCXXFLAGS=$CXXFLAGS;
	CXXFLAGS="$CXXFLAGS -O5";
	AC_COMPILE_IFELSE([
	AC_LANG_PROGRAM([[
	#include <cmath>
	]], [[
	return (1 == static_cast<int>(std::sqrt(2.0)));
	]])], [], [CXXFLAGS="$OLDCXXFLAGS -O3"])
fi

AC_ARG_ENABLE(fastbit,
	[AS_HELP_STRING([--enable-fastbit],
		[Enable FastBit library and wrappers [default=no]])],
	[if test "$enableval" = "yes"; then fastbit="yes"; else fastbit="no"; fi],
	[fastbit="no"]
)
AC_MSG_RESULT(${fastbit})
AM_CONDITIONAL(BUILD_FASTBIT, test "$fastbit" = "yes")
AC_SUBST(BUILD_FASTBIT)

# Checks for header files.
AC_CHECK_HEADERS([stdlib.h string.h])

# Checks for typedefs, structures, and compiler characteristics.
AC_C_INLINE
AC_TYPE_INT16_T
AC_TYPE_INT32_T
AC_TYPE_INT64_T
AC_TYPE_OFF_T
AC_TYPE_SIZE_T
AC_TYPE_UINT16_T
AC_TYPE_UINT32_T
AC_TYPE_UINT64_T
AC_TYPE_UINT8_T

# Checks for library functions.
AC_FUNC_MALLOC
AC_FUNC_MMAP
AC_FUNC_REALLOC
AC_CHECK_FUNCS([memset mkdir select sqrt strerror])

AC_CONFIG_FILES([
	Makefile
	src/Makefile
	src/fastbit/Makefile
	src/bvec/Makefile
	src/preprocessing/Makefile
	src/kmerizer/Makefile
	src/util/Makefile
	src/bitmap/Makefile
	src/programs/Makefile
	test/Makefile
])
AC_CONFIG_SUBDIRS([
	vendor/fastbit
])
LT_INIT
AC_OUTPUT