[gmx-users] Sanity error in cpp while intalling FFTW

[Erik Lindahl]

Hi,

First, since this is an FFTW-related issue you will probably get  
better help by asking the FFTW authors.

Looking in config.log, the script is trying to preprocess the test  
program

/* confdefs.h.  */
#define PACKAGE_NAME "fftw"
#define PACKAGE_TARNAME "fftw"
#define PACKAGE_VERSION "3.1.2"
#define PACKAGE_STRING "fftw 3.1.2"
#define PACKAGE_BUGREPORT "fftw at fftw.org"
#define PACKAGE "fftw"
#define VERSION "3.1.2"
#define FFTW_SINGLE 1
#define BENCHFFT_SINGLE 1
/* end confdefs.h.  */
#ifdef __STDC__
# include <limits.h>
#else
# include <assert.h>
#endif


using the command gcc -std=gnu99 -E  conftest.c

but gets the error message

In file included from /usr/include/bits/posix1_lim.h:130,
                  from /usr/include/limits.h:144,
                  from /usr/lib/gcc-lib/i386-redhat-linux/3.2.3/ 
include/limits.h:132,
                  from /usr/lib/gcc-lib/i386-redhat-linux/3.2.3/ 
include/syslimits.h:7,
                  from /usr/lib/gcc-lib/i386-redhat-linux/3.2.3/ 
include/limits.h:11,
                  from conftest.c:13:
/usr/include/bits/local_lim.h:36:26: linux/limits.h: No such file or  
directory


<limits.h> is mandatory for ANSI C99, so there is something wrong  
with your operating system/compiler installation.

Cheers,

Erik





On Oct 17, 2006, at 1:43 PM, sharada wrote:

>
>
>
> Hi gromacs users,
>
> I am trying to install gromacs on Linux. While installing the fftw  
> module , I am getting the following error
> at the ./configure stage:
>
> [root at Sharada fftw-3.1.2]# ./configure --enable-float --enable- 
> threads --enable-sse
>
> checking for a BSD-compatible install... /usr/bin/install -c
> checking whether build environment is sane... yes
> checking for gawk... gawk
> checking whether make sets $(MAKE)... yes
> checking whether to enable maintainer-specific portions of  
> Makefiles... no
> checking build system type... i686-pc-linux-gnu
> checking host system type... i686-pc-linux-gnu
> checking for gcc... gcc
> checking for C compiler default output file name... a.out
> checking whether the C compiler works... yes
> checking whether we are cross compiling... no
> checking for suffix of executables...
> checking for suffix of object files... o
> checking whether we are using the GNU C compiler... yes
> checking whether gcc accepts -g... yes
> checking for gcc option to accept ISO C89... none needed
> checking for style of include used by make... GNU
> checking dependency style of gcc... gcc3
> checking for C compiler vendor... gnu
> checking for gcc option to accept ISO C99... -std=gnu99
> checking for gcc -std=gnu99 option to accept ISO Standard C...  
> (cached) -std=gnu99
> checking for a BSD-compatible install... /usr/bin/install -c
> checking whether ln -s works... yes
> checking whether make sets $(MAKE)... (cached) yes
> checking for a sed that does not truncate output... /bin/sed
> checking for grep that handles long lines and -e... /bin/grep
> checking for egrep... /bin/grep -E
> checking for ld used by gcc -std=gnu99... /usr/bin/ld
> checking if the linker (/usr/bin/ld) is GNU ld... yes
> checking for /usr/bin/ld option to reload object files... -r
> checking for BSD-compatible nm... /usr/bin/nm -B
> checking how to recognise dependent libraries... pass_all
> checking how to run the C preprocessor... /lib/cpp
> configure: error: C preprocessor "/lib/cpp" fails sanity check
> See `config.log' for more details.
>
> what does the error trying to tell me ? cpp is linked to /usr/bin/ 
> cpp. I am installing from the root account. can any body help ?  I  
> am attaching the config.log file alongwith.  Thanks in advance.
>
> regards,
> sharada
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