Re: [Libmesh-users] how to compile with installed netcdf?

[<ed...@op...>]

I can still not compile with my system's netcdf. With this code, I can 
compile and run a test:

   #+begin_SRC cpp
     #include "netcdf.h"

     int main(void){
              static int ncid;
              nc_create("test.nc", NC_NETCDF4|NC_CLOBBER, &ncid);}
   #+end_SRC

   #+begin_SRC bash
     gcc -Wall -lnetcdf -L/usr/lib -I/usr/include -o run-test test.cpp
     ./run-test
     ls test.nc
   #+end_SRC

   #+RESULTS:
   : test.nc

I added what I thought would be the same to netcdf.m4, but it seems that 
it cannot compile. I show the relevant portions of the attached file

   #+begin_SRC autoconf
     m4_define([_AX_CXX_COMPILE_NETCDF_preamble],
     [[
     @%:@include "netcdf.h"
     ]])

     m4_define([_AX_CXX_COMPILE_NETCDF_body],
     [[
     static int ncid;
     nc_create("test.nc", NC_NETCDF4|NC_CLOBBER, &ncid);
     ]])
   #+END_SRC

This message does not show up in the log

   #+begin_SRC autoconf
     AS_IF([test "$netcdfincFound" = "no"],
     [
     AC_MSG_RESULT(NETCDF header files not found!)
     enablenetcdf=no;
     ])
   #+end_SRC

So I think that this should work

   #+BEGIN_SRC autoconf
     NETCDF_INCLUDE="-I$NETCDF_INC"
   #+END_SRC
---8<--- snip
   #+begin_SRC autoconf
     AS_IF([test "x$RPATHFLAG" != "x" && test -d $NETCDF_LIB],
           [NETCDF_RPATH_FLAGS="${RPATHFLAG}${NETCDF_LIB}"
            NETCDF_LIBRARY="${RPATHFLAG}${NETCDF_LIB} $NETCDF_LIBRARY"
           ],
           [NETCDF_LIBRARY="-L${NETCDF_LIB} -lnetcdf $NETCDF_LIBRARY"])
     LIBS="$LIBS $NETCDF_LIBRARY"
     CPPFLAGS="$CPPFLAGS $NETCDF_INCLUDE"
   #+end_SRC

But I get the error from here

   #+begin_SRC autoconf
     
AC_LINK_IFELSE([AC_LANG_PROGRAM([_AX_CXX_COMPILE_NETCDF_preamble],[_AX_CXX_COMPILE_NETCDF_body])],
     [AC_DEFINE(HAVE_NETCDF, 1, [Flag indicating whether the library will 
be compiled with Netcdf support])],
     [AC_MSG_ERROR(*** Linking a test program against the NETCDF 
libraries failed)])
   #+end_SRC

What I find funny is that if I force

   #+begin_SRC autoconf
     LIBS="$LIBS -lnetcdf -L/usr/lib"
     CPPFLAGS="$CPPFLAGS -I/usr/include"
   #+end_SRC

then, configure runs well, but still picks up the =contrib/netcdf4=. I 
think that I will live with this. I am sure that there is a silly 
mistake. I hope that it is useful to others. If you want more debugging 
information, let me know.

On 2019-12-30 00:21, ed...@op... wrote:
> I attach a patch for netcdf.m4 which can help to use the system's
> netcdf. Mind you, this is the first autoconf script that I prepare.
> =make= is currently running. If there is a better solution, let me
> know. You can also find the file here:
> https://notabug.org/broncodev/libmesh-pkgbuild and you need to run
> =autoconf= in the libmesh root directory
> 
> On 2019-12-25 13:40, ed...@op... wrote:
>> Hello,
>> 
>> Is there a way to use my system's netcdf instead of the one in the
>> contrib directory? Thanks!
> 
> 
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