[gmx-users] problem with ./configure with mpi (on sgi)

[Ben Simons]

Hi,

I'm wondering if there's something wrong with the configure
script for mpi compilation. I'm doing this on an sgi IRIX 6.5.10.

Here's my config exec line:

% setenv CPPFLAGS '-I/usr/local/include -I/usr/include'
% setenv LDFLAGS '-L/usr/local/lib -lmpi'
% setenv LDADD -lmpi
% ./configure --prefix=/apps/gromacs3.0 --enable-mpi --enable-shared=yes --disable-float

I added the "-lmpi" to the LDFLAGS in an attempt to link in the
mpi lib for the test which is in the configure script.
Here's what I see in the config.log

----8<----------------------------------------------------

configure:3330: checking whether the MPI cc command works
configure:3346: cc -o conftest -g -I/usr/local/include -I/usr/include -L/usr/local/lib -lmpi conftest.c  >&5
ld32: WARNING 84 : /usr/lib32/mips4/libmpi.so is not used for resolving any symbol.
ld32: ERROR   33 : Unresolved text symbol "MPI_Init" -- 1st referenced by conftest.o.
        Use linker option -v to see when and which objects, archives and dsos are loaded.  
ld32: INFO    152: Output file removed because of error.
configure:3349: $? = 2
configure: failed program was:
#line 3334 "configure"
#include "confdefs.h"
#include <mpi.h>
int
main ()
{
int argc; char **argv; MPI_Init(&argc,&argv);
  ;
  return 0;
}
configure:3362: error: Cannot compile and link MPI code with cc

## ----------------- ##
## Cache variables.  ##
## ----------------- ##

----8<----------------------------------------------------

Note the line above with the "ld32: ERROR".
It says it can't find MPI_Init.

Ok, so I copied this little test program (see above) to /tmp
and managed to compile it ok myself - it just needed a -lmpi
on the compile command line.  viz:

/tmp % cc -o conftest -g -I/usr/local/include -I/usr/include conftest.c -lmpi -v

and this *worked*  (??)

The error is a link error, saying it can't find MPI_Init,
and yet it *is* there:

% nm /usr/lib32/mips4/libmpi.so | grep MPI_Init
[107]   | 156604168|     268|FUNC |WEAK |DEFAULT  |MIPS_TEXT|MPI_Init
[108]   | 156604436|      52|FUNC |WEAK |DEFAULT  |MIPS_TEXT|MPI_Initialized
[852]   | 156604168|     268|FUNC |GLOB |DEFAULT  |MIPS_TEXT|PMPI_Init
[853]   | 156604436|      52|FUNC |GLOB |DEFAULT  |MIPS_TEXT|PMPI_Initialized


and i've got the LD_LIBRARY paths set so it will find the N32 mpi lib.

 % env|grep LD
LD_LIBRARY_PATH=/usr/lib:/lib:/usr/local/lib:/usr/freeware/lib:/hfs/dsolib:/apps/houdini1.2/dsolib:/apps/CFX/lib/4.2/IRIS_R4K:/apps/CFX/lib/4.2dp/IRIS_R4K:/usr/interbase/lib:/apps/IMOD/lib
LD_LIBRARYN32_PATH=/usr/lib32:/lib32:/usr/local/lib:/usr/freeware/lib32:/hfs/dsolib:/apps/houdini1.2/dsolib:/apps/CFX/lib/4.2/IRIS_R4K:/apps/CFX/lib/4.2dp/IRIS_R4K:/usr/interbase/lib:/apps/IMOD/lib32
LD_LIBRARY64_PATH=/usr/lib64:/lib64:/usr/local/lib:/usr/freeware/lib64:/hfs/dsolib:/apps/houdini1.2/dsolib:/apps/CFX/lib/4.2/IRIS_R4K:/apps/CFX/lib/4.2dp/IRIS_R4K:/usr/interbase/lib


any suggestions?  Is the configure script wrong? Do I need to
set something else as well?

thanks in advance,
ben.
______________________________________________________________
Ben Simons                              Physics Building, A28,
VisLab Systems Manager               The University of Sydney.
Phone +61-2-9351-5900                    NSW. AUSTRALIA. 2006.
Fax   +61-2-9351-1880           http://www.vislab.usyd.edu.au/

``They [pig-footed bandicoot Chaeropus ecaudatus, now extinct]
  are very good eating, and I am sorry to confess that my
  appetite more than once over-ruled my love for science.''

     - Gerard Krefft. Director of The Australian Museum 1857.
       pp.252 The Explorers, edited by Tim Flannery.