Hello gmx-users --
The following error occurs during compilation of Gromacs 4.5.5 :
4.5.5/gromacs-4.5.5/src/gmxlib/.libs/libgmx.so: undefined reference to
`pthread_setaffinity_np'
There was an exchange on this problem on the gmx-users list on 21/09/2011,
but apparently no solution.
OS : RHEL 4
CPU : Dual-Core AMD Opteron Processor 2220
gcc : 3.4.6 20060404 (Red Hat 3.4.6-11)
glibc : glibc-2.3.4-2.54
The following is from the configure script :
FFTW=/afs/cad/hpc/amd/opt/fftw/3.3/gnu3
INSTALL_DIR=/some/dir
CPPFLAGS="-I$FFTW/include"
LDFLAGS="-L$FFTW/lib"
time ./configure \
CPPFLAGS="$CPPFLAGS" \
LDFLAGS="$LDFLAGS" \
--prefix=$INSTALL_DIR \
--with-fft=fftw3 \
2>&1 | tee -a CONFIGURE.log
Any suggestions on how to resolve this problem would be greatly appreciated.
Thanks.
___________
David Perel
IST University Computing Systems (UCS)
New Jersey Institute of Technology
[email protected]
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