MAPGD/configure.ac at master · LynchLab/MAPGD · GitHub

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define(VERSION, esyscmd(sh -c "cat ./src/mapgd_0.4/VERSION | cut -d '-' -f 1 | tr -d '\n'" ) )

AC_INIT([mapgd], VERSION, [matthew.s.ackerman@gmail.com], [mapgd.tgz], [https://github.com/LynchLab/MAPGD/])
AC_PROG_CXX
AC_LANG(C++)

AC_SUBST(HAVE_GSL, [no])
AC_SUBST(HAVE_OMP, [no])

AC_CHECK_LIB(sqlite3,sqlite3_open,AC_SUBST(HAVE_SQL, [yes]), AC_SUBST(HAVE_SQL, [no]) )
AC_SUBST(SQLITE3_VERSION)
AC_CHECK_PROG(HAVE_MAN, [man], [yes], [no])

#AC_PACKAGE_TARNAME(

AC_CHECK_LIB([m],[cos])
AC_CHECK_LIB([gslcblas],[cblas_dgemm])
AC_CHECK_LIB([gsl],[gsl_blas_dgemm])

AM_GNU_GETTEXT([external])

AC_CHECK_LIB([lzo],[lzo1x_1_15_compress],[LZO_LIBS="-llzo"],[HAVE_LZO="no"])

AC_CONFIG_MACRO_DIR([m4])

AC_OPENMP
AX_CXX_COMPILE_STDCXX([11], [noext], [mandatory])
#AX_CXX_COMPILE_STDCXX_11
AX_WITH_HTSLIB
AX_MPI

if test "$ac_cv_lib_gsl_gsl_blas_dgemm" == yes
then
	AC_SUBST(HAVE_GSL, yes)
else
	AC_MSG_WARN([GSL (gnu scientific libraries) not found. Unable to use relatedness command.])
fi

if test "$ac_cv_prog_cxx_openmp" == "unsupported"
then
	AC_MSG_WARN([No openmp support detected, will not be multi-threaded.])
	Hsource='# Commented because no HTS detected'
	Hinstall='# Commented because no HTS detected'
else
	AC_SUBST(HAVE_OMP, yes)
	if test "$ax_cv_htslib_which" = source; then
		Hsource=
		Hinstall='#'
	else
		Hsource='#'
		Hinstall=
	fi
fi

if test "$ac_cv_func_MPI_Init" == "yes"
then
	AC_SUBST(HAVE_MPI, yes)
	AC_SUBST(MPICXX, mpicxx)
else
	AC_MSG_WARN([No mpi support detected, cannot run on multiple nodes.])
fi

if test "$ax_cv_htslib" == "yes"
then
	AC_SUBST(HAVE_HTS, no)
	AC_CHECK_LIB(hts, bcf_hdr_sync,
		AC_SUBST(HAVE_HTS, yes),
		AC_MSG_WARN([Htslib version 1.9 or greater needed.] ), [-lm -lpthread] )
else
	AC_SUBST(HAVE_HTS, no)
	AC_MSG_WARN([Htslib not detected, will be unable to create vcf files.])
fi

if test "$USE_NLS" == yes
then
	AC_SUBST(USE_NLS, yes)
else
	AC_MSG_ERROR([No gettext support detected, please install gettext.

For linux users:
	sudo apt-get install gettext
For OSX users:
        sudo brew install gettext;
        sudo brew link --force gettext;])
fi


#if test "$ax_cv_htslib" == yes

AC_SUBST(LZ4_DIR, )
AC_SUBST([Hsource])
AC_SUBST([Hinstall])
AC_OUTPUT(Makefile)
#cp confdefs.h my_config.h