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20040526: NetCDF Installation on Microway AMD Opteron Beowulf cluster

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  • Subject: 20040526: NetCDF Installation on Microway AMD Opteron Beowulf cluster
  • Date: Wed, 26 May 2004 15:49:12 -0600
Francisco,

> To: address@hidden
> From: "Francisco Pagan" <address@hidden>
> Subject: NetCDF Installation
> Organization: University of Puerto Rico-Mayaguez
> Keywords: 200405262043.i4QKhutK009323 netCDF Linux

The above message contained the following:

> I am trying to install NetCDF in a Microway AMD Opteron Beowulf
> cluster (4 nodes) in the master (double processor). Here is the relevant
> information, configuration as stated in your Others builds of the netcdf
> package page).
> 
> 
> Configuration:
> CC=/usr/bin/gcc ; export CC
> FC=/usr/pgi/linux86-64/5.1/bin/pgf77 ; export FC
> CXX=/usr/bin/g++ ; export CXX
> CFLAGS='-O3 -funroll-loops -m64 -mfpmath=sse -msse2 -ffast-math 
> -mcmodel=medium' ; export CFLAGS
> CPPFLAGS='-DNDEBUG -Df2cFortran
>  -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE' ; export CPPFLAGS
> FFLAGS='-fastsse -tp k8-64 -Minline 
> -Mvect=recog,transform,assoc,cachesize:1048576 -mcmodel=medium' ; export 
> FFLAGS
> CXXFLAGS='-O3 -funroll-loops -m64 -mfpmath=sse -msse2
>  -ffast-math -mcmodel=medium' ; export CXXFLAGS
> 
> uname -a
> Linux master 2.4.21-osmp #12 SMP Thu Aug 28 20:14:03 PDT 2003 x86_64 unknown
> 
> VERSION
> 3.5.1-beta13
> 
> macros.make
> "empty"
> 
> configure.log
> creating cache ./config.cache
> checking for top-level source-directory
> /usr/lib_install/netcdf-3.5.1-beta13/src
> checking for m4 preprocessor
> checking for m4... m4
> checking m4 flags... -B10000
> checking C compiler "/usr/bin/gcc"... failed to compile test program

The last line above indicates a severe problem with your C compilation
environment.  The reason can be found in your "config.log" file:

> configure:1085: checking C compiler "/usr/bin/gcc"
> configure:1094: /usr/bin/gcc -c -O3 -funroll-loops -march=k8 -m64 
> -mfpmath=sse -msse2 -ffast-math -mcmodel=medium -DNDEBUG -Df2cFortran
>  -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE conftest.c 1>&5
> cc1: bad value (k8) for -march= switch
> cc1: bad value (k8) for -mcpu= switch

Apparently, the "-march=k8" option is illegal.  Given that you specified
the CFLAGS environment variable as

> CFLAGS='-O3 -funroll-loops -m64 -mfpmath=sse -msse2 -ffast-math 
> -mcmodel=medium' ; export CFLAGS

It seems likely that the CFLAGS variables was not correctly made an
environment variable.

A similar problem exists with your Fortran compiler:

> checking user-defined Fortran-77 compiler "/usr/bin/g77"... failed to compile 
> test program

For which the problem is also explained in your "config.log" file:

> configure:1383: checking user-defined Fortran-77 compiler "/usr/bin/g77"
> configure:1389: /usr/bin/g77 -c -O3 -funroll-loops -march=k8 -m64 
> -mfpmath=sse -msse2 -ffast-math -mcmodel=medium -Wno-globals conftest.f
> ./configure: line 1: /usr/bin/g77: No such file or directory

Given that you specified the Fortran-77 compiler as

> FC=/usr/pgi/linux86-64/5.1/bin/pgf77 ; export FC

it seems likely that the FC variable was not correctly made an
environment variable.

Please do a "make distclean" and retry the build with the environment
variables settings that you used before. before (re)executing the
"configure" script, verify the settings with the following commands:

    env | grep CFLAGS
    env | grep FC

Regards,
Steve Emmerson