[R] Error when running configure on xeon with r-1-9-patched

[Gavin Simpson]

Prof Brian Ripley wrote:
> Is libg2c.so in your library path?  That's one common problem.

Many thanks for your reply Prof. Ripley. How can I check what my library 
path is?

cat /etc/ld.so.conf gives

include ld.so.conf.d/*.conf
/usr/X11R6/lib
/usr/lib/qt-3.3/lib
/usr/local/lib

and I don't have LD_LIBRARY_PATH set. libg2c.so is in 
/usr/lib/gcc-lib/i386-redhat-linux/3.3.3 and libg2c.so.0 and 
libg2c.so.0.0.0 both link from /usr/lib to libg2c.so in 
/usr/lib/gcc-lib/i386-redhat-linux/3.3.3. This is the same setup as the 
other Fedora boxes I have compiled R on.

> On Mon, 6 Sep 2004, Gavin Simpson wrote:
> 
> 
>>Dear list,
>>
>>I'm having a problem configuring R-1-9-patched on a Intel Xeon machine 
>>running Fedora Core 2. I used svn to checkout the source, altered 
>>config.site to add some optimisation flags to match the Fedora rpm on 
>>CRAN (the flags work fine on two other P3 or P4 machines I've compiled R 
>>on).
> 
> 
> (Configure does not know about P3 vs P4 vs Xeon.)
> 
<snip>

The full section of the config log relating to this error is appended below.

Many thanks,

Gavin

##excerpt from config.log##

configure:25282: gcc -o conftest -D__NO_MATH_INLINES -mieee-fp -O2 -g 
-pipe -march=i386 -mcpu=i686 -I/usr/local/include -L/usr/local/lib 
conftest.c -lreadline -ldl -lncurses -lm   -L/usr/local/lib 
-L/usr/lib/gcc-lib/i386-redhat-linux/3.3.3 
-L/usr/lib/gcc-lib/i386-redhat-linux/3.3.3/../../.. -lfrtbegin -lg2c -lm 
-lgcc_s -lieee >&5
/usr/lib/gcc-lib/i386-redhat-linux/3.3.3/../../../libieee.a(.data+0x0): 
multiple definition of `_LIB_VERSION'
/usr/lib/gcc-lib/i386-redhat-linux/3.3.3/../../../libieee.a(.data+0x0): 
first defined here
collect2: ld returned 1 exit status
configure:25288: $? = 1
configure: failed program was:
| /* confdefs.h.  */
|
| #define PACKAGE_NAME "R"
| #define PACKAGE_TARNAME "R"
| #define PACKAGE_VERSION "1.9.1"
| #define PACKAGE_STRING "R 1.9.1"
| #define PACKAGE_BUGREPORT "r-bugs at R-project.org"
| #define PACKAGE "R"
| #define VERSION "1.9.1"
| #define R_PLATFORM "i686-pc-linux-gnu"
| #define R_CPU "i686"
| #define R_VENDOR "pc"
| #define R_OS "linux-gnu"
| #define Unix 1
| #ifdef __cplusplus
| extern "C" void std::exit (int) throw (); using std::exit;
| #endif
| #define STDC_HEADERS 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_MEMORY_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_DLFCN_H 1
| #define HAVE_LIBM 1
| #define HAVE_LIBNCURSES 1
| #define HAVE_LIBDL 1
| #define HAVE_LIBREADLINE 1
| #define STDC_HEADERS 1
| #define TIME_WITH_SYS_TIME 1
| #define HAVE_DIRENT_H 1
| #define HAVE_SYS_WAIT_H 1
| #define HAVE_ARPA_INET_H 1
| #define HAVE_DLFCN_H 1
| #define HAVE_ELF_H 1
| #define HAVE_FCNTL_H 1
| #define HAVE_FPU_CONTROL_H 1
| #define HAVE_GRP_H 1
| #define HAVE_IEEE754_H 1
| #define HAVE_LOCALE_H 1
| #define HAVE_NETDB_H 1
| #define HAVE_NETINET_IN_H 1
| #define HAVE_PWD_H 1
| #define HAVE_READLINE_HISTORY_H 1
| #define HAVE_READLINE_READLINE_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_PARAM_H 1
| #define HAVE_SYS_SELECT_H 1
| #define HAVE_SYS_SOCKET_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TIME_H 1
| #define HAVE_SYS_TIMES_H 1
| #define HAVE_SYS_UTSNAME_H 1
| #define HAVE_UNISTD_H 1
| #define HAVE_WCHAR_H 1
| #define HAVE_ERRNO_H 1
| #define HAVE_STDARG_H 1
| #define HAVE_STRING_H 1
| #define HAVE_POSIX_SETJMP 1
| #define HAVE_GLIBC2 1
| #define RETSIGTYPE void
| #define SOCKLEN_T socklen_t
| #define SIZEOF_INT 4
| #define INT_32_BITS 1
| #define SIZEOF_LONG 4
| #define SIZEOF_LONG_LONG 8
| #define SIZEOF_LONG_DOUBLE 12
| /* end confdefs.h.  */
| #define F77_DUMMY_MAIN _main
| #ifdef F77_DUMMY_MAIN
|
| #  ifdef __cplusplus
|      extern "C"
| #  endif
|    int F77_DUMMY_MAIN() { return 1; }
|
| #endif
| int
| main ()
| {
|
|   ;
|   return 0;
| }
configure:25321: result: unknown
configure:25341: error: linking to Fortran libraries from C fails
See `config.log' for more details.

-- 
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Gavin Simpson                     [T] +44 (0)20 7679 5522
ENSIS Research Fellow             [F] +44 (0)20 7679 7565
ENSIS Ltd. & ECRC                 [E] gavin.simpson at ucl.ac.uk
UCL Department of Geography       [W] http://www.ucl.ac.uk/~ucfagls/cv/
26 Bedford Way                    [W] http://www.ucl.ac.uk/~ucfagls/
London.  WC1H 0AP.
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