Dear Amber administrators,
I am new to install amber10 on unbunta.
I wonder if I have to do "./configure gcc" and do "make -f Makefile_at", and then do another compilation with gfortran again with the following commands lines "./configure gfortran" and do "make -f clean Makefile_at" again to compile all the units in Amber tools?
I also wonder if we should "tar xvfj AmberTools.tar.bz2" under root or sudo command.
I know X11 library is needed to install amber on red hat linux. Do i need to define any library location in .bashrc when I do the installation on ubunta?
Attached is the ./config.h file I created with ./configure gcc only. However, I tried many times, the sleap tests still have error that "find not found" (all other tests are OK). I am wondering if I have not compile the sleap properly with the right compiler or I should not extract the files as a root or I did not define the necessary library correctly.
Pls kindly help. Many thanks in advance.
Best regards,
Cat
========================================================================================================
>
> # AmberTools configuration file, created with: ./configure_at gcc
>
> ###############################################################################
>
> # (1) Location of the installation
>
> BINDIR=/home/annie/Amber10/amber10/bin
> LIBDIR=/home/annie/Amber10/amber10/lib
> INCDIR=/home/annie/Amber10/amber10/include
> DATDIR=/home/annie/Amber10/amber10/dat
> NABHOME=/home/annie/Amber10/amber10/dat
>
> ###############################################################################
>
>
> # (2) If you want to search additional libraries by default, add them
> # to the FLIBS variable here. (External libraries can also be linked into
> # NAB programs simply by including them on the command line; libraries
> # included in FLIBS are always searched.)
>
> FLIBS= $(LIBDIR)/libsym.a $(LIBDIR)/arpack.a $(LIBDIR)/lapack.a $(LIBDIR)/blas.a $(LIBDIR)/f2c.a
>
> ###############################################################################
>
> # (3) Modify any of the following if you need to change, e.g. to use gcc
> # rather than cc, etc.
>
> SHELL=/bin/sh
>
> # Set the C compiler, etc.
>
> # For GNU: CC-->gcc; LEX-->flex; YACC-->bison -y -t;
> # Note: If your lexer is "really" flex, you need to set
> # LEX=flex below. For example, on many linux distributions,
> # /usr/bin/lex is really just a pointer to /usr/bin/flex,
> # so LEX=flex is necessary. In general, gcc seems to need
> # flex.
>
> CC=gcc
> CXX=g++
> CPLUSPLUS=g++
> CFLAGS= -m32 -DBINTRAJ $(AMBERBUILDFLAGS)
> OCFLAGS=-O3 -m32 -DBINTRAJ $(AMBERBUILDFLAGS)
> NABFLAGS=
> LDFLAGS=
>
> LEX= flex
> YACC= $(BINDIR)/yacc
> AR= ar rv
> M4= m4
> RANLIB=ranlib
>
> # Set the C-preprocessor. Code for a small preprocessor is in
> # uccp-1.3; it gets installed as $(BINDIR)/ucpp;
> # this can generally be used (maybe not on 64-bit machines like altix).
>
> CPP= $(BINDIR)/ucpp -l
>
> # These variables control whether we will use compiled versions of BLAS
> # and LAPACK (which are generally slower), or whether those libraries are
> # already available (presumably in an optimized form).
>
> LAPACK=install
> BLAS=install
> F2C=install
>
> # These variables determine whether builtin versions of certain components
> # can be used, or whether we need to compile our own versions.
>
> UCPP=install
> C9XCOMPLEX=skip
>
> # For Windows/cygwin, set SFX to ".exe"; for Unix/Linux leave it empty:
>
> SFX=
>
> # Information about Fortran compilation:
>
> FC= gfortran
> FFLAGS= -O1 -fno-automatic $(LOCALFLAGS) $(AMBERBUILDFLAGS)
> FREEFORMAT_FLAG= -ffree-form
> LM=-lm
>
> BUILD_SLEAP=install_sleap
> XHOME= /usr/X11R6
> XLIBS= -L/usr/X11R6/lib
> MAKE_XLEAP=install_xleap
>
> NETCDF=netcdf.mod
> NETCDFLIB=../netcdf/lib/libnetcdf.a
> G77=hasG77
>
> # default rules for Fortran and C compilation:
>
> .f.o:
> $(FC) -c $(FFLAGS) -o $. $<
>
> .c.o:
> $(CC) -c $(CFLAGS) -o $. $<
>
> ~
> ~
> ===============================================================================================================
>
>
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Received on Wed Jun 09 2010 - 09:00:03 PDT
