Samik Bhattacharya wrote:
--- On Thu, 13/8/09, st <y1...@ucsd.edu> wrote:
From: st <y1...@ucsd.edu>
Subject: [gmx-users] problem installing gromacs
To: gmx-users@gromacs.org
Date: Thursday, 13 August, 2009, 1:42 AM
Hi There,
I have some problems
installing gromacs on the linux server.
fftw installed with no error, but when I install
gromacs,
I got the following error:
*****************************************
/bin/sh ../../libtool --tag=CC --mode=link
cc -O3 -fomit-frame-pointer -finline-functions -Wall -Wno-unused
-funroll-all-loops -L/home/y1gao/soft/fftw/lib -o grompp
grompp.o libgmxpreprocess_d.la ../mdlib/l
cc -O3 -fomit-frame-pointer
-finline-functions -Wall -Wno-unused -funroll-all-loops -o .libs/grompp
grompp.o -L/home/y1gao/soft/fftw/lib ./.libs/libgmxpreprocess_d.a
-L/usr/X11R6/lib ../mdlib/.libs/libmd_d.so /n
_d.so -lnsl -lfftw3 -lm -lSM
-lICE -lX11 -Wl,--rpath
-Wl,/home/y1gao/soft/gromacs//lib
.../mdlib/.libs/libmd_d.so: undefined
reference to `__libm_sse2_sincos'
.../mdlib/.libs/libmd_d.so: undefined
reference to `__libm_sse2_log'
.../mdlib/.libs/libmd_d.so: undefined reference
to `_intel_fast_memcpy'
collect2: ld returned 1 exit status
make[3]: ***
[grompp] Error 1
make[3]: Leaving directory
`/nas/y1gao/installation_files/gromacs-4.0.4/gromacs-4.0.4/src/kernel'
make[2]:
*** [all-recursive] Error 1
make[2]: Leaving directory
`/nas/y1gao/installation_files/gromacs-4.0.4/gromacs-4.0.4/src'
make[1]: ***
[all] Error 2
make[1]: Leaving directory
`/nas/y1gao/installation_files/gromacs-4.0.4/gromacs-4.0.4/src'
make: ***
[all-recursive] Error 1
*******************************************
I used the combinations of the following fftw and
gromacs:
fftw 3.2.1; fftw3.2.2
gromacs 3.3.3; gromacs 4.0.4
gcc version 3.4.6
try with make links after make install of gromacs. probably this may help.....
good luck
No. The object-linking process is failing. So making file system
symlinks after object-linking and installation will not help.
Mark
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