configure.ac

#                                               -*- Autoconf -*-
# Process this file with autoconf to produce a configure script.

AC_PREREQ([2.65])
AC_INIT([EPACTS], [3.3.0], [hmkang@umich.edu])
AM_INIT_AUTOMAKE(EPACTS, 3.3.0)
#AC_CONFIG_SRCDIR([src/Anno.cpp])
AC_CONFIG_HEADERS([config.h])

AC_CONFIG_MACRO_DIR([m4])
AM_PROG_LIBTOOL
AC_PROG_LIBTOOL
AC_ENABLE_SHARED
AC_DISABLE_STATIC

# Checks for programs.
AC_PROG_CXX
AC_PROG_CC

# Checks for libraries.

# Checks for header files.
AC_CHECK_HEADERS([limits.h stddef.h stdint.h stdlib.h string.h unistd.h])

# Checks for typedefs, structures, and compiler characteristics.
AC_HEADER_STDBOOL
AC_C_INLINE
AC_TYPE_INT32_T
AC_TYPE_INT64_T
AC_C_RESTRICT
AC_TYPE_SIZE_T
AC_TYPE_UINT16_T
AC_TYPE_UINT32_T
AC_TYPE_UINT64_T
AC_TYPE_UINT8_T
AC_CHECK_TYPES([ptrdiff_t])

# Checks for library functions.
AC_FUNC_ERROR_AT_LINE
AC_FUNC_MALLOC
AC_HEADER_MAJOR
AC_FUNC_REALLOC
AC_FUNC_STRTOD
AC_CHECK_FUNCS([floor gethostname memset pow select sqrt strchr strstr strtol])
AC_CHECK_LIB(z, gzopen, [], [AC_MSG_ERROR([libz.{so,a} was not found. Please install zlib at http://www.zlib.net/ first])])
#AC_CHECK_LIB(bz2, BZ2_bzopen, [], [AC_MSG_ERROR([libbz2.{so,a} was not found in the library path. Please install it at http://www.bzip.org/downloads.html first])])
#AC_CHECK_LIB(R, R_alloc, [], [AC_MSG_ERROR([libR.{so,a} was not found. Please install it at http://www.r-project.org/ first])])

#perl 
AC_CHECK_PROG(PERL_CHECK,perl,yes)
if test x"$PERL_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install perl before installing.])
fi

#gs
AC_CHECK_PROG(GS_CHECK,gs,yes)
if test x"$GS_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install gs before installing.])
fi

#Rscript
AC_CHECK_PROG(RSCRIPT_CHECK,Rscript,yes)
if test x"$RSCRIPT_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install latest version of R before installing.])
fi

#R
AC_CHECK_PROG(R_CHECK,R,yes)
if test x"$R_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install latest version of R before installing.])
fi

#grep
AC_CHECK_PROG(GREP_CHECK,grep,yes)
if test x"$GREP_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install grep before installing.])
fi

#mv
AC_CHECK_PROG(MV_CHECK,mv,yes)
if test x"$MV_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install mv before installing.])
fi

#rm
AC_CHECK_PROG(RM_CHECK,rm,yes)
if test x"$RM_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install rm before installing.])
fi

#make
AC_CHECK_PROG(MAKE_CHECK,make,yes)
if test x"$MAKE_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install make before installing.])
fi

#cat
AC_CHECK_PROG(CAT_CHECK,cat,yes)
if test x"$CAT_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install cat from GNU coreutils at http://ftp.gnu.org/gnu/coreutils/ before installing.])
fi

#cut
AC_CHECK_PROG(CUT_CHECK,cut,yes)
if test x"$CUT_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install cut from GNU coreutils at http://ftp.gnu.org/gnu/coreutils/ before installing.])
fi

#dirname
AC_CHECK_PROG(DIRNAME_CHECK,dirname,yes)
if test x"$DIRNAME_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install dirname from GNU coreutils at http://ftp.gnu.org/gnu/coreutils/ before installing.])
fi

#head
AC_CHECK_PROG(HEAD_CHECK,head,yes)
if test x"$HEAD_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install head from GNU coreutils at http://ftp.gnu.org/gnu/coreutils/ before installing.])
fi

#mkdir
AC_CHECK_PROG(MKDIR_CHECK,mkdir,yes)
if test x"$MKDIR_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install mkdir from GNU coreutils at http://ftp.gnu.org/gnu/coreutils/ before installing.])
fi

#sort
AC_CHECK_PROG(SORT_CHECK,sort,yes)
if test x"$SORT_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install sort from GNU coreutils at http://ftp.gnu.org/gnu/coreutils/ before installing.])
fi

#zcat
AC_CHECK_PROG(ZCAT_CHECK,zcat,yes)
if test x"$ZCAT_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install zcat from zlib package at http://www.zlib.net/ before installing.])
fi

#groff
AC_CHECK_PROG(GROFF_CHECK,groff,yes)
if test x"$GROFF_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install groff at ftp://ftp.gnu.org/gnu/groff/ before installing.])
fi

#pfbtops
AC_CHECK_PROG(PFBTOPS_CHECK,pfbtops,yes)
if test x"$PFBTOPS_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install pfbtops from groff package at ftp://ftp.gnu.org/gnu/groff/ before installing.])
fi

#gnuplot
AC_CHECK_PROG(GNUPLOT_CHECK,gnuplot,yes)
if test x"$GNUPLOT_CHECK" != x"yes" ; then
   AC_MSG_ERROR([Please install gnuplot at http://sourceforge.net/projects/gnuplot/files/ before installing.])
fi

AC_OUTPUT(Makefile src/Makefile scripts/Makefile data/Makefile)