[gmx-users] Compilation problem on SGI ORIGIN 3800

[Patrick Fuchs]

Hi gmx users,
I'm trying to compile gromacs in // on an SGI ORIGIN 3800. For the 
monoCPU version it went well (thanks to very good advices on previous 
E-mails of the gmx list), but for the parallel version, I encountered a 
problem. Here are the steps I followed :
setenv CPPFLAGS "-I/opt/mpt/1.4.0.3/usr/include -I/usr/local/include"
setenv LDFLAGS "-L/opt/mpt/1.4.0.3/usr/lib -L/usr/local/lib/fftw2.1.5/lib32"
setenv LIBS "-lmpi"
./configure --enable-mpi --prefix=/home/fuchs/software/gromacs 
--program-suffix=_mpi --disable-float --disable-fortran --disable-nice
 -> This step went OK

make mdrun
 -> at the beginning it went OK
...
(cd ./src/kernel && make mdrun ; exit 0)
        /bin/sh ../../libtool --mode=link mpicc  -O3 
-OPT:IEEE_arithmetic=3 -OPT:rsqrt=ON -SWP:loop_overhead -INLINE:=ON 
-LNO:opt=1 -LNO:ou_further=3 -OPT:Olimit=0:roundoff=3:alias=typed -woff 
1174 -D__INLINE_INTRINSICS -I/usr/freeware/include/libxml2   
-L/opt/mpt/1.4.0.3/usr/lib -L/usr/local/lib/fftw2.1.5/lib32  -woff 84 -o 
mdrun  glaasje.o gctio.o init_sh.o  ionize.o do_gct.o relax_sh.o  
xutils.o md.o mdrun.o genalg.o ../mdlib/libmd_mpi_d.la 
../gmxlib/libgmx_mpi_d.la  -lnsl -lrfftw_mpi -lfftw_mpi -lrfftw -lfftw 
-lm -lmpi -lXm -lXt  -lSM -lICE -lXext -lX11  -L/usr/freeware/lib32 
-lxml2 -lz -lm
libtool: link: warning: library 
`/usr/local/lib/fftw2.1.5/lib32/librfftw_mpi.la' was moved.
libtool: link: warning: library 
`/usr/local/lib/fftw2.1.5/lib32/libfftw_mpi.la' was moved.
libtool: link: warning: library 
`/usr/local/lib/fftw2.1.5/lib32/librfftw.la' was moved.libtool: link: 
warning: library `/usr/local/lib/fftw2.1.5/lib32/libfftw.la' was moved.
libtool: link: warning: library 
`/usr/local/lib/fftw2.1.5/lib32/librfftw_mpi.la' was moved.
libtool: link: warning: library 
`/usr/local/lib/fftw2.1.5/lib32/libfftw_mpi.la' was moved.
libtool: link: warning: library 
`/usr/local/lib/fftw2.1.5/lib32/librfftw.la' was moved.libtool: link: 
warning: library `/usr/local/lib/fftw2.1.5/lib32/libfftw.la' was moved.
mpicc -O3 -OPT:IEEE_arithmetic=3 -OPT:rsqrt=ON -SWP:loop_overhead 
-INLINE:=ON -LNO:opt=1 -LNO:ou_further=3 
-OPT:Olimit=0:roundoff=3:alias=typed -woff 1174 -D__INLINE_INTRINSICS 
-I/usr/freeware/include/libxml2 -woff 84 -o mdrun glaasje.o gctio.o 
init_sh.o ionize.o do_gct.o relax_sh.o xutils.o md.o mdrun.o genalg.o  
-L/opt/mpt/1.4.0.3/usr/lib -L/usr/local/lib/fftw2.1.5/lib32 
../mdlib/.libs/libmd_mpi_d.a -L/usr/freeware/lib32 
../gmxlib/.libs/libgmx_mpi_d.a -lnsl 
/usr/local/lib/fftw2.1.5/lib32/librfftw_mpi.a 
/usr/local/lib/fftw2.1.5/lib32/libfftw_mpi.a 
/usr/local/lib/fftw2.1.5/lib32/librfftw.a 
/usr/local/lib/fftw2.1.5/lib32/libfftw.a -lmpi -lXm -lXt -lSM -lICE 
-lXext -lX11 -lxml2 -lz -lm
cc: Warning: -OPT options are ignored
cc: Warning: -OPT options are ignored
cc: Warning: -SWP options are ignored
cc: Warning: -OPT options are ignored
uld:
Object file format error in: glaasje.o: bad symbolic header (magic number)
*** Error code 1 (bu21)
*** Error code 1 (bu21)

I didn't find any similar case in the mailing list, and I'm wondering 
where could it come from.
Does someone have an idea on how to fix that ?
Thanks !

Patrick

-- 
_______________________________________________________
Patrick FUCHS
Equipe de Bioinformatique Genomique et Moleculaire
INSERM U726, Universite Paris 7
Case Courrier 7113
2, place Jussieu, 75251 Paris Cedex 05, FRANCE
Tel : +33 (0)1-44-27-77-16 - Fax : +33 (0)1-43-26-38-30
E-mail : Patrick.Fuchs at ebgm.jussieu.fr
Web Site: http://www.ebgm.jussieu.fr/~fuchs