Hi
I am having problems configuring Amber. I my system configuration is this
Red Hat
Red Hat Enterprise Linux Server release 5.7 (Tikanga)
Kernel \r on an \m
ICC
Version 10.1
GCC
Using built-in specs.
Target: x86_64-redhat-linux
Configured with: ../configure --prefix=/usr --mandir=/usr/share/man
--infodir=/usr/share/info --enable-shared --enable-threads=posix
--enable-checking=release --with-system-zlib --enable-__cxa_atexit
--disable-libunwind-exceptions --enable-libgcj-multifile
--enable-languages=c,c++,objc,obj-c++,java,fortran,ada
--enable-java-awt=gtk --disable-dssi --disable-plugin
--with-java-home=/usr/lib/jvm/java-1.4.2-gcj-1.4.2.0/jre
--with-cpu=generic --host=x86_64-redhat-linux
Thread model: posix
gcc version 4.1.2 20080704 (Red Hat 4.1.2-51)
I did a fresh checkout of the git tree. I checked the log file and it
seems to be a problem with gcc, which makes no sense to me since I was
configuring with intel
configure: error: Need a version of gcc with -mavx
I am including the file in case it helps. Do you have any idea what could
be going wrong?
It is weird because the error says gcc, but I am configuring with intel,
so it should be icc. The previous lines of the log file does have icc, but
the error says gcc, but even if I try to compile with gnu I get the same
problem
I am copying all my output here too in case you see something I am missing
[romelia.beatrix ~]$ git clone gitosis.git.ambermd.org:/amber.git amber
Cloning into amber...
remote: Counting objects: 209171, done.
remote: Compressing objects: 100% (56611/56611), done.
remote: Total 209171 (delta 154259), reused 204971 (delta 150313)
Receiving objects: 100% (209171/209171), 1.03 GiB | 5.62 MiB/s, done.
Resolving deltas: 100% (154259/154259), done.
[1]+ Done emacs cuda/gpu.cpp (wd: ~/amber/src/pmemd/src)
(wd now: ~)
[romelia.beatrix ~]$ cd amber
[romelia.beatrix amber]$ pwd
/server-home2/romelia/amber
[romelia.beatrix amber]$ export AMBERHOME=/server-home2/romelia/amber/
[romelia.beatrix amber]$ ./configure intel
Amber is up to date
Searching for python2... Found python2.6:
/server-home/netbin/amber11/exe/python2.6
Detected icc version 10
Detected ifort version 10
Using Intel MKL libraries in
/server-home/netbin/intel/mkl/10.1.1.019//lib/em64t
MKL Version 10 or 11 assumed.
Testing the icc compiler:
icc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -o testp testp.c
OK
Testing the ifort compiler:
ifort -O0 -o testp testp.f
OK
Testing mixed C/Fortran compilation:
icc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -c -o testp.c.o testp.c
ifort -O0 -c -o testp.f.o testp.f
icc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -o testp testp.c.o
testp.f.o -L/server-home/netbin/intel/fce/10.1.018/lib/ -lifport
-lifcore -lsvml
/server-home/netbin/intel/cce/10.1.018/lib/libimf.so: warning: warning:
feupdateenv is not implemented and will always fail
OK
Testing pointer size:
icc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -o test_pointer_size
test_pointer_size.c
Detected 64 bit operating system.
Testing flex: OK
Configuring NetCDF (may be time-consuming)...
NetCDF configure succeeded.
Checking for zlib: OK
Checking for libbz2: OK
Configuring fftw-3.3 (may be time-consuming)...
Error: FFTW configure returned 1
FFTW configure failed! Check the fftw3_config.log file.
Configure failed due to the errors above!
Thanks
Romelia
--
****************************************
Romelia Salomon
Walker Group
398 San Diego Supercomputing Center
UC San Diego
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Received on Mon Feb 13 2012 - 11:00:02 PST
