specs of my system are :
OS information
OS: Linux 2.6.37.6-0.5-desktop i686
System: openSUSE 11.4 (i586)
KDE: 4.6.00 (4.6.0) "release 6"
CPU Information
Processor (CPU): Intel(R) Core(TM)2 Duo CPU E8600 . 3.33GHz
Speed: 2,000.00 MHz
Cores: 2
I followed the following procedure to install amber 10 on my system whose specs have been given above:
COMMAND on terminal
cd usr/local/amber10/src
./configure_at --help
Usage: ./configure_at [flags] compiler
where compiler is one of:
gcc, icc, solaris_cc, irix_cc, osf1_cc
If not specified then gcc is used.
Option flags:
-mpi use MPI for parallelization
-scalapack use ScaLAPACK for linear algebra (utilizes MPI)
-openmp Use OpenMP pragmas for parallelization (icc, solaris_cc,gcc(>4.2))
-opteron options for solaris/opteron
-ultra2 options for solaris/ultra2
-ultra3 options for solaris/ultra3
-ultra4 options for solaris/ultra4
-bit64 64-bit compilation for solaris
-perflib Use solaris performance library in lieu of LAPACK and BLAS
-cygwin modifications for cygwin/windows
-p4 use optimizations specific for the Intel Pentium4 processor
-altix use optimizations specific for the SGI Altix with icc
-static create statically linked executables
-noX11 Do not build programs that require X11 libraries, e.g. xleap.
-nobintraj Delete support for binary (netCDF) trajectory files
-nosleap Do not build sleap, which requires unantiquated compilers.
Environment variables:
MKL_HOME If present, will link in Intel's MKL libraries (icc,gcc)
GOTO If present, and MKL_HOME is not set, will use this location
for the Goto BLAS routines
===========================================================
COMMAND
./configure_at gcc
Setting AMBERHOME to /usr/local/amber10
Warning: the X11 libraries are not in the usual location !
To search for them try the command: locate libXt
On Fedora Core 5 install an xorg-x11-devel package.
On RedHat8 install an XFree86-devel package.
For the moment Amber will be configured not to build XLEaP.
Testing the C compiler:
gcc -m32 -o testp testp.c
OK
Obtaining the C++ compiler version:
g++ -v
The version is
./configure_at: line 509: [: too many arguments
OK
Testing the g77 compiler:
g77 -O2 -fno-automatic -finit-local-zero -o testp testp.f
./configure_at: line 538: g77: command not found
./configure_at: line 539: ./testp: No such file or directory
Unable to compile a Fortran program using g77 -O2 -fno-automatic -finit-local-zero
Testing the gfortran compiler:
gfortran -O1 -fno-automatic -o testp testp.f
OK
Testing flex:
./configure_at: line 583: flex: command not found
Unable to run flex; this is recommended for NAB
Please check your PATH, or install the program
We will try to solider on with precompiled files
cp: cannot stat `lex.*.c': No such file or directory
Configuring netcdf; (may be time-consuming)
netcdf configure returned 127
NETCDF configure failed! Check the netcdf_config.log file
i would nee help in this regard that what should i do to resolve this problem? either flex was not installed on the system correctly or what steps should i follow to install it correctly on my system?
looking forward for you’re response:
regards,
Nyla Zaman
M.phil student Bioinformatics
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Received on Thu Jul 14 2011 - 05:00:03 PDT
