Dear Justin, I'm new to Gromacs. I attached the config.log file to the mail. Could you please explain what the neccessary files or operations I should do ?
Sincerely --- On Fri, 2/27/09, Justin A. Lemkul <[email protected]> wrote: From: Justin A. Lemkul <[email protected]> Subject: Re: [gmx-users] install Gromacs 4.0.4 on Linux Fedora 8 To: "Discussion list for GROMACS users" <[email protected]> Date: Friday, February 27, 2009, 9:07 AM oguz gurbulak wrote: > Dear All, > > I'm trying to install Gromacs 4.0.4 on Linux Fedora 8 . But I got this > error in therminal: > > [r...@fencevrepc-84-23 gromacs-4.0.4]# ./configure > --prefix=/usr/local/gromacs-4.0.4 --disable-float --program-suffix="" > checking build system type... i686-pc-linux-gnu > checking host system type... i686-pc-linux-gnu > checking for a BSD-compatible install... /usr/bin/install -c > checking whether build environment is sane... yes > checking for a thread-safe mkdir -p... /bin/mkdir -p > checking for gawk... gawk > checking whether make sets $(MAKE)... yes > checking how to create a ustar tar archive... gnutar > checking for cc... cc > checking for C compiler default output file name... > configure: error: C compiler cannot create executables > See `config.log' for more details. > So what do you find in config.log? You are probably missing some other prerequisites (libraries, headers, etc). -Justin > What should I do to pass this error ? Could you please help me to install > Gromacs successfully to my pc ? And Is there a complete source about > installing Gromacs to Linux Fedora ? > > Thank you very much for your attention. > > > Sincerely > > > > ------------------------------------------------------------------------ > > _______________________________________________ > gmx-users mailing list [email protected] > http://www.gromacs.org/mailman/listinfo/gmx-users > Please search the archive at http://www.gromacs.org/search before posting! > Please don't post (un)subscribe requests to the list. Use the www interface > or send it to [email protected]. > Can't post? Read http://www.gromacs.org/mailing_lists/users.php -- ======================================== Justin A. Lemkul Graduate Research Assistant Department of Biochemistry Virginia Tech Blacksburg, VA jalemkul[at]vt.edu | (540) 231-9080 http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin ======================================== _______________________________________________ gmx-users mailing list [email protected] http://www.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to [email protected]. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
This file contains any messages produced by compilers while running configure, to aid debugging if configure makes a mistake. It was created by gromacs configure 4.0.4, which was generated by GNU Autoconf 2.61. Invocation command line was $ ./configure --prefix=/usr/local/gromacs-4.0.4 --disable-float --program-suffix= ## --------- ## ## Platform. ## ## --------- ## hostname = fencevrepc-84-23.ege.edu.tr uname -m = i686 uname -r = 2.6.26.8-57.fc8 uname -s = Linux uname -v = #1 SMP Thu Dec 18 19:19:45 EST 2008 /usr/bin/uname -p = unknown /bin/uname -X = unknown /bin/arch = i686 /usr/bin/arch -k = unknown /usr/convex/getsysinfo = unknown /usr/bin/hostinfo = unknown /bin/machine = unknown /usr/bin/oslevel = unknown /bin/universe = unknown PATH: /usr/kerberos/sbin PATH: /usr/kerberos/bin PATH: /usr/lib/ccache PATH: /usr/local/sbin PATH: /usr/local/bin PATH: /sbin PATH: /bin PATH: /usr/sbin PATH: /usr/bin PATH: /usr/X11R6/bin PATH: /usr/local/amber9/exe PATH: /usr/local/c32b2/exec/gnu PATH: /root/bin PATH: /usr/local/amber9/exe PATH: /usr/local/c32b2/exec/gnu ## ----------- ## ## Core tests. ## ## ----------- ## configure:2087: checking build system type configure:2105: result: i686-pc-linux-gnu configure:2127: checking host system type configure:2142: result: i686-pc-linux-gnu configure:2180: checking for a BSD-compatible install configure:2236: result: /usr/bin/install -c configure:2247: checking whether build environment is sane configure:2290: result: yes configure:2318: checking for a thread-safe mkdir -p configure:2357: result: /bin/mkdir -p configure:2370: checking for gawk configure:2386: found /bin/gawk configure:2397: result: gawk configure:2408: checking whether make sets $(MAKE) configure:2429: result: yes configure:2612: checking how to create a ustar tar archive configure:2625: tar --version tar (GNU tar) 1.17 Copyright (C) 2007 Free Software Foundation, Inc. License GPLv2+: GNU GPL version 2 or later <http://gnu.org/licenses/gpl.html> This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the extent permitted by law. Written by John Gilmore and Jay Fenlason. configure:2628: $? = 0 configure:2668: tardir=conftest.dir && eval tar --format=ustar -chf - "$tardir" >conftest.tar configure:2671: $? = 0 configure:2675: tar -xf - <conftest.tar configure:2678: $? = 0 configure:2691: result: gnutar configure:3297: checking for cc configure:3313: found /usr/lib/ccache/cc configure:3324: result: cc configure:3360: checking for C compiler version configure:3367: cc --version >&5 cc (GCC) 4.1.2 20070925 (Red Hat 4.1.2-33) Copyright (C) 2006 Free Software Foundation, Inc. This is free software; see the source for copying conditions. There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. configure:3370: $? = 0 configure:3377: cc -v >&5 Using built-in specs. Target: i386-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-languages=c,c++,objc,obj-c++,java,fortran,ada --enable-java-awt=gtk --disable-dssi --enable-plugin --with-java-home=/usr/lib/jvm/java-1.5.0-gcj-1.5.0.0/jre --enable-libgcj-multifile --enable-java-maintainer-mode --with-ecj-jar=/usr/share/java/eclipse-ecj.jar --with-cpu=generic --host=i386-redhat-linux Thread model: posix gcc version 4.1.2 20070925 (Red Hat 4.1.2-33) configure:3380: $? = 0 configure:3387: cc -V >&5 cc: '-V' option must have argument configure:3390: $? = 1 configure:3413: checking for C compiler default output file name configure:3440: cc conftest.c >&5 /usr/local/bin/ld: unrecognized option '--build-id' /usr/local/bin/ld: use the --help option for usage information collect2: ld returned 1 exit status configure:3443: $? = 1 configure:3481: result: configure: failed program was: | /* confdefs.h. */ | #define PACKAGE_NAME "gromacs" | #define PACKAGE_TARNAME "gromacs" | #define PACKAGE_VERSION "4.0.4" | #define PACKAGE_STRING "gromacs 4.0.4" | #define PACKAGE_BUGREPORT "[email protected]" | #define PACKAGE "gromacs" | #define VERSION "4.0.4" | #define GMX_DOUBLE | #define GMX_SOFTWARE_SQRT | #define GMX_QMMM_GAUSSIAN | #define BUILD_TIME "Fri Feb 27 17:09:01 EET 2009" | #define BUILD_USER "[email protected]" | #define BUILD_MACHINE "Linux 2.6.26.8-57.fc8 i686" | /* end confdefs.h. */ | | int | main () | { | | ; | return 0; | } configure:3488: error: C compiler cannot create executables See `config.log' for more details. ## ---------------- ## ## Cache variables. ## ## ---------------- ## ac_cv_build=i686-pc-linux-gnu ac_cv_env_CCASFLAGS_set= ac_cv_env_CCASFLAGS_value= ac_cv_env_CCAS_set= ac_cv_env_CCAS_value= ac_cv_env_CCC_set= ac_cv_env_CCC_value= ac_cv_env_CC_set= ac_cv_env_CC_value= ac_cv_env_CFLAGS_set= ac_cv_env_CFLAGS_value= ac_cv_env_CPPFLAGS_set= ac_cv_env_CPPFLAGS_value= ac_cv_env_CPP_set= ac_cv_env_CPP_value= ac_cv_env_CXXCPP_set= ac_cv_env_CXXCPP_value= ac_cv_env_CXXFLAGS_set= ac_cv_env_CXXFLAGS_value= ac_cv_env_CXX_set= ac_cv_env_CXX_value= ac_cv_env_F77_set= ac_cv_env_F77_value= ac_cv_env_FFLAGS_set= ac_cv_env_FFLAGS_value= ac_cv_env_LDFLAGS_set= ac_cv_env_LDFLAGS_value= ac_cv_env_LIBS_set= ac_cv_env_LIBS_value= ac_cv_env_XMKMF_set= ac_cv_env_XMKMF_value= ac_cv_env_build_alias_set= ac_cv_env_build_alias_value= ac_cv_env_host_alias_set= ac_cv_env_host_alias_value= ac_cv_env_target_alias_set= ac_cv_env_target_alias_value= ac_cv_host=i686-pc-linux-gnu ac_cv_path_install='/usr/bin/install -c' ac_cv_path_mkdir=/bin/mkdir ac_cv_prog_AWK=gawk ac_cv_prog_ac_ct_CC=cc ac_cv_prog_make_make_set=yes am_cv_prog_tar_ustar=gnutar ## ----------------- ## ## Output variables. ## ## ----------------- ## ACLOCAL='${SHELL} /usr/local/gromacs-4.0.4/config/missing --run aclocal-1.10' AMDEPBACKSLASH='' AMDEP_FALSE='' AMDEP_TRUE='' AMTAR='${SHELL} /usr/local/gromacs-4.0.4/config/missing --run tar' AR='' AS='' ASFLAGS='' AUTOCONF='${SHELL} /usr/local/gromacs-4.0.4/config/missing --run autoconf' AUTOHEADER='${SHELL} /usr/local/gromacs-4.0.4/config/missing --run autoheader' AUTOMAKE='${SHELL} /usr/local/gromacs-4.0.4/config/missing --run automake-1.10' AWK='gawk' CC='cc' CCAS='' CCASDEPMODE='' CCASFLAGS='' CCDEPMODE='' CC_FOR_BUILD='' CFLAGS='' CPP='' CPPFLAGS='' CXX='' CXXCPP='' CXXDEPMODE='' CXXFLAGS='' CYGPATH_W='echo' DEFS='' DEPDIR='' DLLTOOL='' ECHO='echo' ECHO_C='' ECHO_N='-n' ECHO_T='' EGREP='' EXEEXT='' F77='' F77LINK='$(LINK)' FFLAGS='' FLIBS='' GMXANA_LIBOBJS='' GMXLIB_LIBOBJS='' GMX_BLUEGENE_FALSE='' GMX_BLUEGENE_TRUE='' GMX_DOUBLE_FALSE='#' GMX_DOUBLE_TRUE='' GMX_EXTERNAL_BLAS_FALSE='' GMX_EXTERNAL_BLAS_TRUE='#' GMX_EXTERNAL_LAPACK_FALSE='' GMX_EXTERNAL_LAPACK_TRUE='#' GMX_FORTRAN_FALSE='' GMX_FORTRAN_TRUE='#' GMX_IA32_3DNOW_FALSE='' GMX_IA32_3DNOW_TRUE='' GMX_IA32_SSE2_FALSE='' GMX_IA32_SSE2_TRUE='' GMX_IA32_SSE_FALSE='' GMX_IA32_SSE_TRUE='' GMX_IA64_ASM_DOUBLE_FALSE='' GMX_IA64_ASM_DOUBLE_TRUE='' GMX_IA64_ASM_SINGLE_FALSE='' GMX_IA64_ASM_SINGLE_TRUE='' GMX_POWERPC_SQRT_FALSE='' GMX_POWERPC_SQRT_SINGLE_ITERATION_FALSE='' GMX_POWERPC_SQRT_SINGLE_ITERATION_TRUE='#' GMX_POWERPC_SQRT_TRUE='#' GMX_PPC_ALTIVEC_FALSE='' GMX_PPC_ALTIVEC_TRUE='' GMX_PREFETCH_FORCES_FALSE='' GMX_PREFETCH_FORCES_TRUE='#' GMX_SOFTWARE_SQRT_FALSE='#' GMX_SOFTWARE_SQRT_TRUE='' GMX_X86_64_SSE2_FALSE='' GMX_X86_64_SSE2_TRUE='' GMX_X86_64_SSE_FALSE='' GMX_X86_64_SSE_TRUE='' GREP='' INCLUDES='' INSTALL_DATA='${INSTALL} -m 644' INSTALL_PROGRAM='${INSTALL}' INSTALL_SCRIPT='${INSTALL}' INSTALL_STRIP_PROGRAM='$(install_sh) -c -s' LDFLAGS='' LIBOBJS='' LIBS='' LIBSUFFIX='' LIBTOOL='' LN_S='' LTLIBOBJS='' MAKEINFO='${SHELL} /usr/local/gromacs-4.0.4/config/missing --run makeinfo' MDLIB_LIBOBJS=' qm_gaussian.lo' MPICC='' OBJDUMP='' OBJEXT='' PACKAGE='gromacs' PACKAGE_BUGREPORT='[email protected]' PACKAGE_NAME='gromacs' PACKAGE_STRING='gromacs 4.0.4' PACKAGE_TARNAME='gromacs' PACKAGE_VERSION='4.0.4' PATH_SEPARATOR=':' RANLIB='' RPM='' SET_MAKE='' SHARED_VERSION_INFO='5:0:0' SHELL='/bin/sh' STRIP='' USE_X11_FALSE='' USE_X11_TRUE='' VERSION='4.0.4' XMKMF='' X_CFLAGS='' X_EXTRA_LIBS='' X_LIBS='' X_PRE_LIBS='' ac_ct_CC='cc' ac_ct_CXX='' ac_ct_F77='' am__fastdepCCAS_FALSE='' am__fastdepCCAS_TRUE='' am__fastdepCC_FALSE='' am__fastdepCC_TRUE='' am__fastdepCXX_FALSE='' am__fastdepCXX_TRUE='' am__include='' am__isrc='' am__leading_dot='.' am__quote='' am__tar='tar --format=ustar -chf - "$$tardir"' am__untar='tar -xf -' bindir='${exec_prefix}/bin' build='i686-pc-linux-gnu' build_alias='' build_cpu='i686' build_os='linux-gnu' build_vendor='pc' datadir='${datarootdir}' datarootdir='${prefix}/share' docdir='${datarootdir}/doc/${PACKAGE_TARNAME}' dvidir='${docdir}' exec_prefix='NONE' host='i686-pc-linux-gnu' host_alias='' host_cpu='i686' host_os='linux-gnu' host_vendor='pc' htmldir='${docdir}' includedir='${prefix}/include' infodir='${datarootdir}/info' install_sh='$(SHELL) /usr/local/gromacs-4.0.4/config/install-sh' libdir='${exec_prefix}/lib' libexecdir='${exec_prefix}/libexec' localedir='${datarootdir}/locale' localstatedir='${prefix}/var' mandir='${datarootdir}/man' mkdir_p='/bin/mkdir -p' oldincludedir='/usr/include' pdfdir='${docdir}' prefix='/usr/local/gromacs-4.0.4' program_transform_name='s&$$&&' psdir='${docdir}' sbindir='${exec_prefix}/sbin' sharedstatedir='${prefix}/com' sysconfdir='${prefix}/etc' target_alias='' ## ----------- ## ## confdefs.h. ## ## ----------- ## #define PACKAGE_NAME "gromacs" #define PACKAGE_TARNAME "gromacs" #define PACKAGE_VERSION "4.0.4" #define PACKAGE_STRING "gromacs 4.0.4" #define PACKAGE_BUGREPORT "[email protected]" #define PACKAGE "gromacs" #define VERSION "4.0.4" #define GMX_DOUBLE #define GMX_SOFTWARE_SQRT #define GMX_QMMM_GAUSSIAN #define BUILD_TIME "Fri Feb 27 17:09:01 EET 2009" #define BUILD_USER "[email protected]" #define BUILD_MACHINE "Linux 2.6.26.8-57.fc8 i686" configure: exit 77
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