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Re: Please help comment on hdf/netcdf compatability



On Fri, Feb 03, 2006 at 01:55:25PM -0700, Orion Poplawski wrote:
> I maintain hdf 4.2r1 in FE.  I'm running into an issue with 
> compatibility with netcdf.  By default, hdf provides the netcdf api as 
> well, unless compiled with -DHAVE_NETCDF.

> I also maintain gdl, which can be linked against both hdf and netcdf, 
> but I get complaints.  I don't know if gdl can use the netcdf API in the 
> hdf library or not - looking into it (if you know, tell me!).

What I know is that hdf4 implements the netcdf 2 API. The netcdf 3 is
backward compatible, so it also contains the netcdf 2 API.
 
> Those of you who use both, what would you like to see?

I believe it is right to have the netcdf includes that come with hdf
in the hdf include dir, not directly in /usr/include. This is like that
allready.

In case it could be of use to you, I attach to my mail the autoconf
files I use when I want to detect hdf4 or netcdf, in case it is of use 
for you.

--
Pat
dnl example of use
dnl AC_CHECK_NETCDF(
dnl   [
dnl       LIBS="$LIBS $NC_LIBS"
dnl       LDFLAGS="$LDFLAGS $NC_LDFLAGS"
dnl       CPPFLAGS="$CPPFLAGS $NC_CPPFLAGS"
dnl   ],
dnl   [
dnl       echo "*** Use --with-netcdf for the root netcdf directory."
dnl       echo "*** Otherwise use --with-netcdf-include switch for includes directory"
dnl       echo "*** and --with-netcdf-libdir switch for libraries directory."
dnl       AC_MSG_ERROR([netcdf library and netcdf headers are required.])
dnl   ]
dnl )

# Check for the netcdf library.
# AC_CHECK_NETCDF([ACTION-IF-FOUND],[ACTION-IF-NOT-FOUND],[INTERFACE-NR])
# if interface number is given, check for a specific interface
# sets NC_LDFLAGS, NC_LIBS, and, by calling other macros
# NC_CPPFLAGS and maybe NC_NETCDF_3_CPPFLAG
AC_DEFUN([AC_CHECK_NETCDF],
[
  AC_ARG_WITH([netcdf],
            [AS_HELP_STRING([--with-netcdf=ARG],[netcdf directory])],
            [NC_PATH=$withval], 
            [NC_PATH=""])

  AC_ARG_WITH([netcdf_include],
            [AS_HELP_STRING([--with-netcdf-include=ARG],[netcdf include directory])],
            [NC_PATH_INC=$withval], 
            [NC_PATH_INC=""])

  AC_ARG_WITH([netcdf_libdir],
            [AS_HELP_STRING([--with-netcdf-libdir=ARG],[netcdf library directory])],
            [NC_PATH_LIBDIR=$withval], 
            [NC_PATH_LIBDIR=""])

  AS_IF([test "z$NC_PATH" != "z"],
  [
    AS_IF([test "z$NC_PATH_LIBDIR" = "z"],[NC_PATH_LIBDIR="$NC_PATH/lib"])
    AS_IF([test "z$NC_PATH_INC" = "z"],[NC_PATH_INC="$NC_PATH/include"])
  ])

  ac_netcdf_ok='no'
  NC_LIBS=
  NC_LDFLAGS=
  ac_nc_save_LDFLAGS=$LDFLAGS
  ac_nc_save_LIBS=$LIBS
  ac_check_nc_func_checked='ncopen'
  ac_check_nc_interface=
dnl the interface number isn't quoted with "" otherwise a newline 
dnl following the number isn't stripped.
  m4_if([$3],[],[ac_check_nc_interface=2],[ac_check_nc_interface=$3])
  AS_IF([test "z$ac_check_nc_interface" = 'z3'],
    [ac_check_nc_func_checked='nc_open'])
  AS_IF([test "z$NC_PATH_LIBDIR" != "z"],
    [
      NC_LDFLAGS="-L$NC_PATH_LIBDIR"
      LDFLAGS="$LDFLAGS $NC_LDFLAGS"
dnl the autoconf internal cache isn't avoided because we really check for
dnl libnetcdf, other libraries that implement the same api have other names
dnl  AC_LINK_IFELSE([AC_LANG_CALL([],[$ac_check_func_checked])],
      AC_CHECK_LIB([netcdf],[$ac_check_nc_func_checked],
        [
          NC_LIBS='-lnetcdf'
          ac_netcdf_ok='yes'
        ])
    ],
    [
      for ac_netcdf_libdir in "" \
       /usr/local/netcdf-${ac_check_nc_interface}/lib \
       /opt/netcdf-${ac_check_nc_interface}/lib \
       /usr/netcdf-${ac_check_nc_interface}/lib \
       /usr/local/lib/netcdf-${ac_check_nc_interface} \
       /opt/lib/netcdf-${ac_check_nc_interface} \
       /usr/lib/netcdf-${ac_check_nc_interface} \
       /usr/local/netcdf/lib /opt/netcdf/lib \
       /usr/netcdf/lib /usr/local/lib/netcdf /opt/lib/netcdf \
       /usr/lib/netcdf ; do
        AS_IF([test "z$ac_netcdf_libdir" = 'z'],
          [NC_LDFLAGS=],
          [
            AC_MSG_CHECKING([for netcdf libraries in $ac_netcdf_libdir])
            NC_LDFLAGS="-L$ac_netcdf_libdir"
          ])
        LDFLAGS="$LDFLAGS $NC_LDFLAGS"
        LIBS="$LIBS -lnetcdf"
dnl we have to avoid the autoconf internal cache in that case
        AC_LINK_IFELSE([AC_LANG_CALL([],[$ac_check_nc_func_checked])],
          [
            NC_LIBS='-lnetcdf'
            ac_netcdf_ok='yes'
            AS_IF([test "z$ac_netcdf_libdir" != 'z'],[AC_MSG_RESULT([yes])])
          ],
          [
            AS_IF([test "z$ac_netcdf_libdir" != 'z'],[AC_MSG_RESULT([no])])
          ])
        AS_IF([test $ac_netcdf_ok = 'yes'],[break])
        LDFLAGS=$ac_nc_save_LDFLAGS
        LIBS=$ac_nc_save_LIBS
      done
    ])
  LDFLAGS=$ac_nc_save_LDFLAGS
  LIBS=$ac_nc_save_LIBS

  AC_SUBST([NC_LDFLAGS])
  AC_SUBST([NC_LIBS])
  ac_netcdf_header='no'

  AS_IF([test "z$NC_PATH_INC" != "z"],
    [
      AC_CHECK_NETCDF_HEADER([$NC_PATH_INC],
        [ac_netcdf_header='yes'],
        [ac_netcdf_header='no'],
        [$ac_check_nc_interface])
    ],
    [
      for ac_netcdf_incdir in "" \
       /usr/local/netcdf-${ac_check_nc_interface}/include \
       /opt/netcdf-${ac_check_nc_interface}/include \ 
       /usr/netcdf-${ac_check_nc_interface}/include \
       /usr/local/include/netcdf-${ac_check_nc_interface} \
       /opt/include/netcdf-${ac_check_nc_interface} \
       /usr/include/netcdf-${ac_check_nc_interface} \
       /usr/local/netcdf/include \
       /opt/netcdf/include /usr/netcdf/include /usr/local/include/netcdf \
       /opt/include/netcdf /usr/include/netcdf ; do
        AC_MSG_NOTICE([searching netcdf includes in $ac_netcdf_incdir])
        AC_CHECK_NETCDF_HEADER([$ac_netcdf_incdir],[ac_netcdf_header='yes'],
          [ac_netcdf_header='no'],[$ac_check_nc_interface])
        AS_IF([test $ac_netcdf_header = 'yes'],[break])
      done
    ])

  AS_IF([test "$ac_netcdf_ok" = 'no' -o "$ac_netcdf_header" = 'no'],
    [m4_if([$2], [], [:], [$2])],
    [m4_if([$1], [], [:], [$1])])
])
# Check for the netcdf header.
# AC_CHECK_NETCDF_HEADER([INCLUDE-DIR],[ACTION-IF-FOUND],
# [ACTION-IF-NOT-FOUND],[INTERFACE-NR])
# if interface number is given, check for a specific interface
# sets NC_CPPFLAGS and maybe NC_NETCDF_3_CPPFLAG
AC_DEFUN([AC_CHECK_NETCDF_HEADER],
[
  NC_CPPFLAGS=
  ac_netcdf_h='no'
  ac_netcdf_h_compile='no'
  ac_netcdf_h_preproc='no'
  ac_nc_include_dir=
  ac_nc_header_interface=
  
  ac_nc_save_CPPFLAGS=$CPPFLAGS
  m4_if([$1],[],[:],[
    ac_nc_include_dir="$1"
    AS_IF([test "z$ac_nc_include_dir" != "z"],
       [CPPFLAGS="$CPPFLAGS -I$ac_nc_include_dir"])
  ])
  m4_if([$4],[],[:],[ac_nc_header_interface=$4])
dnl dont use AC_CHECK_HEADERS to avoid autoconf internal caching
  AC_MSG_CHECKING([for netcdf.h with compiler])
  AC_COMPILE_IFELSE([AC_LANG_SOURCE([[#include <netcdf.h>]])],
    [
      AC_MSG_RESULT([yes])
      ac_netcdf_h_compile='yes'
    ],
    [
      AC_MSG_RESULT([no])
      ac_netcdf_h_compile='no'
    ])
    AC_MSG_CHECKING([for netcdf.h with preprocessor])
    AC_PREPROC_IFELSE([AC_LANG_SOURCE([[#include <netcdf.h>]])],
    [
      AC_MSG_RESULT([yes])
      ac_netcdf_h_preproc='yes'
    ],
    [
      AC_MSG_RESULT([no])
      ac_netcdf_h_preproc='no'
    ])
  CPPFLAGS="$ac_nc_save_CPPFLAGS"
  AS_IF([test $ac_netcdf_h_compile = 'yes'],
    [ac_netcdf_h='yes'
    AS_IF([test "z$ac_nc_header_interface" = 'z3'],
      [AC_CHECK_NETCDF_3_HEADER([$1],
         [ac_netcdf_h='yes'],[ac_netcdf_h='no'])])
    ])

  AS_IF([test "$ac_netcdf_h" = 'yes'],
    [
      AS_IF([test "z$ac_nc_include_dir" != "z"],
        [NC_CPPFLAGS="-I$ac_nc_include_dir"])
      m4_if([$2], [], [:], [$2])
    ],
    [m4_if([$3], [], [:], [$3])])

  AC_SUBST([NC_CPPFLAGS])
])

AC_DEFUN([AC_CHECK_NETCDF_3_HEADER],
[
  NC_NETCDF_3_CPPFLAG=
  ac_check_netcdf_3_include=
  ac_check_netcdf_3_header='no'
  ac_nc_save_CPPFLAGS=$CPPFLAGS
  AC_MSG_CHECKING([for netcdf 3 interface])
  m4_if([$1],[],[:],[
    ac_check_netcdf_3_include="$1"
  ])
  AS_IF([test "z$ac_check_netcdf_3_include" != "z"],
    [CPPFLAGS="$CPPFLAGS -I$ac_check_netcdf_3_include"])
  AC_COMPILE_IFELSE([AC_LANG_PROGRAM([[#include <netcdf.h>]],
    [[int status;
int ncid;
status = nc_open("foo.nc", 0, &ncid);
char vernum;
vernum = *nc_inq_libvers();]])],
    [
      AS_IF([test "z$ac_check_netcdf_3_include" != "z"],
        [NC_NETCDF_3_CPPFLAG="-I$ac_check_netcdf_3_include"])
      ac_check_netcdf_3_header='yes'
    ],[ac_check_netcdf_3_header='no'])
  CPPFLAGS=$ac_nc_save_CPPFLAGS
  AS_IF([test "$ac_check_netcdf_3_header" = 'yes'],
    [
      AC_MSG_RESULT([yes])
      m4_if([$2], [], [:], [$2])
    ],
    [
      AC_MSG_RESULT([no])
      m4_if([$3], [], [:], [$3])
    ])
  
  AC_SUBST([NC_NETCDF_3_CPPFLAG])
])
dnl AC_CHECK_HDF : Check for hdf4
dnl args :             action-if-yes, action-if-no

AC_DEFUN([AC_CHECK_HDF4],
[
  AC_ARG_WITH([hdf4],
            [AS_HELP_STRING([--with-hdf4=ARG],[hdf4 directory])],
            [HDF4_PATH=$withval], 
            [HDF4_PATH=""])

  AC_ARG_WITH([hdf4_include],
            [AS_HELP_STRING([--with-hdf4-include=ARG],[hdf 4 include directory])],
            [HDF4_PATH_INC=$withval],
            [HDF4_PATH_INC=""])

  AC_ARG_WITH([hdf4_libdir],
            [AS_HELP_STRING([--with-hdf4-libdir=ARG],[hdf 4 library directory])],
            [HDF4_PATH_LIBDIR=$withval], 
            [HDF4_PATH_LIBDIR=""])

  dnl This is a very common location for the hdf4 code. jhrg 10/11/05
  AS_IF([test -d /usr/local/hdf], [HDF4_PATH="/usr/local/hdf"])
      
  AS_IF([test "z$HDF4_PATH" != "z"],
  [
    AS_IF([test "z$HDF4_PATH_LIBDIR" = "z"],
      [HDF4_PATH_LIBDIR="$HDF4_PATH/lib"])  
    AS_IF([test "z$HDF4_PATH_INC" = "z"],
      [HDF4_PATH_INC="$HDF4_PATH/include"])  
  ])
  
  
  ac_hdf4_lib_ok='no'
  ac_hdf4_save_LDFLAGS=$LDFLAGS
  HDF4_LIBS=
  AS_IF([test "z$HDF4_PATH_LIBDIR" != "z"],
    [
      HDF4_LDFLAGS="-L$HDF4_PATH_LIBDIR"
      LDFLAGS="$LDFLAGS $HDF4_LDFLAGS"
      AC_CHECK_HDF4_LIB([ac_hdf4_lib_ok='yes'])
    ],
    [
      for ac_hdf4_libdir in "" /usr/local/hdf4.2r1/lib /opt/hdf4.2r1/lib \ 
       /usr/hdf4.2r1/lib /usr/local/lib/hdf4.2r1 /opt/lib/hdf4.2r1 \
       /usr/lib/hdf4.2r1 /usr/local/hdf/lib/ /opt/hdf/lib /usr/hdf/lib \
       /usr/local/lib/hdf /opt/lib/hdf /usr/lib/hdf ; do
        AS_IF([test "z$ac_hdf4_libdir" = 'z'],
           [HDF4_LDFLAGS=],
           [
             AC_MSG_NOTICE([searching hdf libraries in $ac_hdf4_libdir])
             HDF4_LDFLAGS="-L$ac_hdf4_libdir"
           ])
        LDFLAGS="$LDFLAGS $HDF4_LDFLAGS" 
        AC_CHECK_HDF4_LIB([ac_hdf4_lib_ok='yes'])
        AS_IF([test $ac_hdf4_lib_ok = 'yes'],[break])
        LDFLAGS=$ac_hdf4_save_LDFLAGS
      done
    ])
  LDFLAGS=$ac_hdf4_save_LDFLAGS
  
  ac_hdf4_h='no'
  HDF4_CPPFLAGS=
  ac_hdf4_save_CPPFLAGS=$CPPFLAGS
  AS_IF([test "z$HDF4_PATH_INC" != "z"],
    [
       HDF4_CPPFLAGS="-I$HDF4_PATH_INC"
       CPPFLAGS="$CPPFLAGS $HDF4_CPPFLAGS"
       AC_CHECK_HEADER_NOCACHE_HDF4([mfhdf.h],[ac_hdf4_h='yes'])
    ],
    [
      for ac_hdf4_incdir in "" /usr/local/hdf4.2r1/include /opt/hdf4.2r1/include \ 
       /usr/hdf4.2r1/include /usr/local/include/hdf4.2r1 \
       /opt/include/hdf4.2r1 /usr/include/hdf4.2r1 /usr/local/hdf/include \
       /opt/hdf/include /usr/hdf/include /usr/local/include/hdf \
       /opt/include/hdf /usr/include/hdf ; do
        AS_IF([test "z$ac_hdf4_incdir" = 'z'],
           [HDF4_CPPFLAGS=],
           [
             AC_MSG_NOTICE([searching hdf includes in $ac_hdf4_incdir])
             HDF4_CPPFLAGS="-I$ac_hdf4_incdir"
           ])
        CPPFLAGS="$CPPFLAGS $HDF4_CPPFLAGS" 
        AC_CHECK_HEADER_NOCACHE_HDF4([mfhdf.h],[ac_hdf4_h='yes'])
        AS_IF([test $ac_hdf4_h = 'yes'],[break])
        CPPFLAGS=$ac_hdf4_save_CPPFLAGS
      done
    ])
  CPPFLAGS=$ac_hdf4_save_CPPFLAGS
  
  AS_IF([test "$ac_hdf4_h" = 'yes' -a "$ac_hdf4_lib_ok" = 'yes'],
  [m4_if([$1], [], [:], [$1])],
  [m4_if([$2], [], [:], [$2])])

  AC_SUBST([HDF4_LIBS])
  AC_SUBST([HDF4_CPPFLAGS])
  AC_SUBST([HDF4_LDFLAGS])
])

dnl check for the netcdf 2 interface provided by hdf
AC_DEFUN([AC_CHECK_HDF4_NETCDF],
[
  ac_hdf4_netcdf_lib='no'
  ac_hdf4_netcdf_h='no'
  AC_CHECK_HDF4([
    ac_hdf4_netcdf_save_LDFLAGS=$LDFLAGS
    ac_hdf4_netcdf_save_LIBS=$LIBS
    LIBS="$LIBS $HDF4_LIBS"
    LDFLAGS="$LDFLAGS $HDF4_LDFLAGS"
    AC_MSG_CHECKING([for ncopen with hdf link flags])
    AC_LINK_IFELSE([AC_LANG_CALL([],[ncopen])],
      [
        AC_MSG_RESULT([yes])
        ac_hdf4_netcdf_lib='yes'
      ],
      [
        AC_MSG_RESULT([no])
        ac_hdf4_netcdf_lib='no'
      ])
    LDFLAGS=$ac_hdf4_netcdf_save_LDFLAGS
    LIBS=$ac_hdf4_netcdf_save_LIBS

    ac_hdf4_netcdf_save_CPPFLAGS=$CPPFLAGS
    CPPFLAGS="$CPPFLAGS $HDF4_CPPFLAGS"
    AC_CHECK_NETCDF_HEADER([],[ac_hdf4_netcdf_h='yes'])
    CPPFLAGS=$ac_hdf4_netcdf_save_CPPFLAGS
  ])

  AS_IF([test $ac_hdf4_netcdf_lib = 'yes' -a $ac_hdf4_netcdf_h = 'yes'],
  [m4_if([$1], [], [:], [$1])],
  [m4_if([$2], [], [:], [$2])])
  
])

AC_DEFUN([AC_CHECK_HDF4_LIB],
[
  HDF4_LIBS=
  ac_hdf4_save_LIBS=$LIBS
  AC_CHECK_LIB_NOCACHE_HDF4([sz], [SZ_BufftoBuffCompress],
  [
      LIBS="$LIBS -lsz"
      HDF4_LIBS='-lsz'
  ])

dnl -lsz is not required because due to licencing it may not be present
dnl nor required everywhere
  ac_hdf4_lib='no'
  AC_CHECK_LIB_NOCACHE_HDF4([z],[deflate],
  [ AC_CHECK_LIB_NOCACHE_HDF4([jpeg],[jpeg_start_compress],
    [ AC_CHECK_LIB_NOCACHE_HDF4([df],[Hopen],
      [ AC_CHECK_LIB_NOCACHE_HDF4([mfhdf],[SDstart],
        [ ac_hdf4_lib="yes"
          HDF4_LIBS="-lmfhdf -ldf -ljpeg -lz $HDF4_LIBS"
        ],[],[-ldf -ljpeg -lz])
      ],[],[-ljpeg -lz])
    ])
  ])
  LIBS=$ac_hdf4_save_LIBS
  
  AS_IF([test "$ac_hdf4_lib" = 'yes'],
  [m4_if([$1], [], [:], [$1])],
  [m4_if([$2], [], [:], [$2])])
])

AC_DEFUN([AC_CHECK_LIB_NOCACHE_HDF4],
[
  AS_TR_SH([ac_check_lib_nocache_ok_$1_$2])='no'
  AS_TR_SH([ac_check_lib_nocache_$1_$2_LIBS])=$LIBS
  LIBS="-l$1 $5 $LIBS"
  AC_MSG_CHECKING([for $2 in -l$1])
  AC_LINK_IFELSE([AC_LANG_CALL([], [$2])],
  [ 
    AS_TR_SH([ac_check_lib_nocache_ok_$1_$2])='yes' 
    AC_MSG_RESULT([yes])
  ],[ 
    AC_MSG_RESULT([no])
  ])
  LIBS=$AS_TR_SH([ac_check_lib_nocache_$1_$2_LIBS])
  AS_IF([test $AS_TR_SH([ac_check_lib_nocache_ok_$1_$2]) = 'yes'],
  [m4_if([$3], [], [:], [$3])],
  [m4_if([$4], [], [:], [$4])])
])
 
AC_DEFUN([AC_CHECK_HEADER_NOCACHE_HDF4],
[
  AS_TR_SH([ac_check_header_nocache_compile_$1])='no'
  AS_TR_SH([ac_check_header_nocache_preproc_$1])='no'
  AC_MSG_CHECKING([for $1 with compiler])
  AC_COMPILE_IFELSE([AC_LANG_SOURCE([[#include <$1>]])],
    [
      AC_MSG_RESULT([yes])
      AS_TR_SH([ac_check_header_nocache_compile_$1])='yes'
    ],
    [
      AC_MSG_RESULT([no])
    ])
  AC_MSG_CHECKING([for $1 with preprocessor])
  AC_PREPROC_IFELSE([AC_LANG_SOURCE([[#include <$1>]])],
    [
      AC_MSG_RESULT([yes])
      AS_TR_SH([ac_check_header_nocache_preproc_$1])='yes'
    ],
    [
      AC_MSG_RESULT([no])
      AS_IF([test "$AS_TR_SH([ac_check_header_nocache_compile_$1])" = 'yes'],
        [AC_MSG_WARN([trusting compiler result, ignoring preprocessor error])])
    ])
  AS_IF([test "$AS_TR_SH([ac_check_header_nocache_compile_$1])" = 'yes'],
  [m4_if([$2], [], [:], [$2])],
  [m4_if([$3], [], [:], [$3])])
])

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