Hi,
I am trying to install amber10 on a mac and am running into a bit of trouble. I successfully install ambertools and the bigfixes for both ambertools and amber10. However when i configure amber10 with gfortran i encounter this message.
./configure_amber gfortran
Setting AMBERHOME to /Applications/Amber10/amber10
Setting up Amber configuration file for architecture: gfortran
Using parallel communications library: none
Using Apple Accelerate Framework for g95.
Testing the C compiler:
gcc -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -O2 -m32 -o testp testp.c
OK
Testing the Fortran compiler:
gfortran -O0 -fno-range-check -fno-second-underscore -o testp testp.f
OK
------ Configuring the netCDF libraries: --------
Configuring netcdf; (may be time-consuming)
./configure_amber: line 1211: cd: netcdf/src: No such file or directory
netcdf configure returned 1
NETCDF configure failed! Check the netcdf_config.log file
So i check the log file however i have no clue what its saying. Here it is,
configure: netCDF 3.6.2
checking build system type... i386-apple-darwin8.11.1
checking host system type... i386-apple-darwin8.11.1
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for gawk... no
checking for mawk... no
checking for nawk... no
checking for awk... awk
checking whether make sets $(MAKE)... yes
checking whether to enable maintainer-specific portions of Makefiles... no
configure: checking user options
checking whether CXX is set to ''... no
checking whether FC is set to ''... no
checking whether F90 is set to ''... no
checking whether documentation is to be installed... no
checking whether Fortran compiler(s) should be tested during configure... yes
checking whether configure should try to set compiler flags... yes
checking whether FFIO will be used... no
checking whether to skip C++, F77, or F90 APIs if compiler is broken... yes
checking whether only the C library is desired... no
checking whether examples should be built... yes
checking whether F77 API is desired... no
checking whether F90 API is desired... no
checking whether fortran type sizes should be checked... yes
checking whether C API is desired... yes
checking where to get netCDF C-only library for separate fortran libraries...
checking whether CXX API is desired... no
checking whether v2 netCDF API should be built... yes
checking whether the ncgen/ncdump should be built... yes
checking whether large file (> 2GB) tests should be run... no
checking whether extreme numbers should be used in tests... yes
checking where to put large temp files if large file tests are run... .
checking whether a win32 DLL is desired... no
checking whether separate fortran libs are desired... no
configure: finding C compiler
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for style of include used by make... GNU
checking dependency style of gcc... gcc3
checking whether gcc and cc understand -c and -o together... yes
checking for an ANSI C-conforming const... yes
configure: finding Fortran compiler (will not be used if Fortran API is not desired)
checking for xlf90... no
checking for fort... no
checking for xlf95... no
checking for ifort... no
checking for ifc... no
checking for efc... no
checking for pgf95... no
checking for lf95... no
checking for gfortran... gfortran
checking whether we are using the GNU Fortran compiler... yes
checking whether gfortran accepts -g... yes
checking for xlf... no
checking for fort... no
checking for xlf95... no
checking for ifort... no
checking for ifc... no
checking for efc... no
checking for pgf77... no
checking for lf95... no
checking for gfortran... gfortran
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran accepts -g... yes
configure: finding C++ compiler (will not be used if C++ API is not desired)
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... gcc3
checking for a sed that does not truncate output... /usr/bin/sed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for ld used by gcc... /usr/libexec/gcc/i686-apple-darwin8/4.0.1/ld
checking if the linker (/usr/libexec/gcc/i686-apple-darwin8/4.0.1/ld) is GNU ld... no
checking for /usr/libexec/gcc/i686-apple-darwin8/4.0.1/ld option to reload object files... -r
checking for BSD-compatible nm... /usr/bin/nm -p
checking whether ln -s works... yes
checking how to recognize dependent libraries... pass_all
checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking dlfcn.h usability... yes
checking dlfcn.h presence... yes
checking for dlfcn.h... yes
checking how to run the C++ preprocessor... g++ -E
checking the maximum length of command line arguments... 196608
checking command to parse /usr/bin/nm -p output from gcc object... ok
checking for objdir... .libs
checking for ar... ar
checking for ranlib... ranlib
checking for strip... strip
checking for dsymutil... dsymutil
checking for nmedit... nmedit
checking for -single_module linker flag... yes
checking for -exported_symbols_list linker flag... yes
checking for correct ltmain.sh version... yes
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fno-common
checking if gcc PIC flag -fno-common works... yes
checking if gcc static flag -static works... no
checking if gcc supports -c -o file.o... yes
checking whether the gcc linker (/usr/libexec/gcc/i686-apple-darwin8/4.0.1/ld) supports shared libraries... yes
checking dynamic linker characteristics... darwin8.11.1 dyld
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... no
checking whether to build static libraries... yes
configure: creating libtool
appending configuration tag "CXX" to libtool
checking for ld used by g++... /usr/libexec/gcc/i686-apple-darwin8/4.0.1/ld
checking if the linker (/usr/libexec/gcc/i686-apple-darwin8/4.0.1/ld) is GNU ld... no
checking whether the g++ linker (/usr/libexec/gcc/i686-apple-darwin8/4.0.1/ld) supports shared libraries... yes
checking for g++ option to produce PIC... -fno-common
checking if g++ PIC flag -fno-common works... yes
checking if g++ static flag -static works... no
checking if g++ supports -c -o file.o... yes
checking whether the g++ linker (/usr/libexec/gcc/i686-apple-darwin8/4.0.1/ld) supports shared libraries... yes
checking dynamic linker characteristics... darwin8.11.1 dyld
(cached) (cached) checking how to hardcode library paths into programs... immediate
appending configuration tag "F77" to libtool
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... no
checking whether to build static libraries... yes
checking for gfortran option to produce PIC... -fno-common
checking if gfortran PIC flag -fno-common works... yes
checking if gfortran static flag -static works... no
checking if gfortran supports -c -o file.o... yes
checking whether the gfortran linker (/usr/libexec/gcc/i686-apple-darwin8/4.0.1/ld) supports shared libraries... yes
checking dynamic linker characteristics... darwin8.11.1 dyld
(cached) (cached) checking how to hardcode library paths into programs... immediate
configure: finding other utilities
checking for a BSD-compatible install... /usr/bin/install -c
configure: trying to set flags for this platform
checking if _HPUX_SOURCE should be set... no
checking if Solaris -Xa option is needed... CFLAGS= -m32 -DBINTRAJ
checking if we need to set _LARGE_FILES despite results of previous tests... _LARGE_FILES=
checking for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
configure: displaying some results
checking CPPFLAGS...
checking CC CFLAGS... gcc -m32 -DBINTRAJ
checking type gcc... gcc is hashed (/usr/bin/gcc)
checking CXX... g++
checking CXXFLAGS... -g -O2
checking type g++... g++ is /usr/bin/g++
checking FC... gfortran
checking FFLAGS... -g -O2
checking type gfortran... gfortran is /sw/bin/gfortran
checking F90... unset
checking AR... ar
checking ARFLAGS...
checking type ar... ar is /usr/bin/ar
checking NM... /usr/bin/nm -p
checking NMFLAGS...
configure: checking types, headers, and functions
checking for stdlib.h... (cached) yes
checking for sys/types.h... (cached) yes
checking for strlcat... yes
checking for strerror... yes
checking for working alloca.h... yes
checking for alloca... yes
checking for struct stat.st_blksize... yes
checking for IEEE floating point format... yes
checking for size_t... yes
checking for off_t... yes
checking for ssize_t... yes
checking for ptrdiff_t... yes
checking for uchar... no
checking whether char is unsigned... no
checking whether byte ordering is bigendian... no
checking for short... yes
checking size of short... 2
checking for int... yes
checking size of int... 4
checking for long... yes
checking size of long... 4
checking for float... yes
checking size of float... 4
checking for double... yes
checking size of double... 8
checking for off_t... (cached) yes
checking size of off_t... 8
checking for size_t... (cached) yes
checking size of size_t... 4
checking for catman... no
checking for makewhatis... no
checking for /usr/lib/makewhatis... no
checking for manual-page index command...
checking binary distribution directory... /home/ftp/pub/binary/dummy_system
configure: generating header files and makefiles
configure: creating ./config.status
config.status: creating Makefile
config.status: creating man/Makefile
config.status: creating fortran/Makefile
config.status: creating libsrc/Makefile
config.status: creating nctest/Makefile
config.status: creating nc_test/Makefile
config.status: creating ncdump/Makefile
config.status: creating ncgen/Makefile
config.status: creating nf_test/Makefile
config.status: creating cxx/Makefile
config.status: creating f90/Makefile
config.status: creating examples/Makefile
config.status: creating examples/C/Makefile
config.status: creating examples/CDL/Makefile
config.status: creating examples/CXX/Makefile
config.status: creating examples/F90/Makefile
config.status: creating examples/F77/Makefile
config.status: creating config.h
config.status: creating fortran/nfconfig1.inc
config.status: executing depfiles commands
Thanks for all your help if you can assist me in any way it will be greatly appreciated. Thanks
Andrew
NOTE-i have ambertools inside of the amber10 directory if that makes a difference.
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Received on Fri Feb 20 2009 - 01:09:50 PST
