Hi, I am trying to build libmesh with parmesh on our RHEL 6 server with petsc 3.4.3 and I get the following error.
checking for style of include used by make... GNU checking for mpicxx... mpicxx checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... configure: error: in `/home/mauve/a/ssadasiv/software/libmesh': configure: error: cannot run C++ compiled programs. If you meant to cross compile, use `--host' I've attached the config.log file here. I am unable to figure out what the problem is as I have built libmesh on this machine with the same petsc builds earlier. Thanks, Subramanya
This file contains any messages produced by compilers while running configure, to aid debugging if configure makes a mistake. It was created by libmesh configure 1.0.0-pre, which was generated by GNU Autoconf 2.69. Invocation command line was $ ./configure --enable-parmesh --disable-trilinos ## --------- ## ## Platform. ## ## --------- ## hostname = mauve.ecn.purdue.edu uname -m = x86_64 uname -r = 2.6.32-431.3.1.el6.x86_64 uname -s = Linux uname -v = #1 SMP Fri Dec 13 06:58:20 EST 2013 /usr/bin/uname -p = unknown /bin/uname -X = unknown /bin/arch = x86_64 /usr/bin/arch -k = unknown /usr/convex/getsysinfo = unknown /usr/bin/hostinfo = unknown /bin/machine = unknown /usr/bin/oslevel = unknown /bin/universe = unknown PATH: /home/mauve/a/ssadasiv/software/petsc/gcc-48-opt/bin PATH: /home/mauve/a/ssadasiv/software/petsc/bin PATH: /usr/lib64/qt-3.3/bin PATH: /usr/NX/bin PATH: /usr/local/bin PATH: /bin PATH: /usr/bin PATH: /usr/opt/bin PATH: /usr/site/me/bin PATH: . PATH: /home/mauve/a/ssadasiv/Code/new_diff_code_abq_multi_joint ## ----------- ## ## Core tests. ## ## ----------- ## configure:3500: result: --------------------------------------------- configure:3502: result: ----------- Configuring libMesh ------------- configure:3504: result: --------------------------------------------- configure:3548: checking build system type configure:3562: result: x86_64-unknown-linux-gnu configure:3582: checking host system type configure:3595: result: x86_64-unknown-linux-gnu configure:3615: checking target system type configure:3628: result: x86_64-unknown-linux-gnu configure:3701: checking for a BSD-compatible install configure:3769: result: /usr/bin/install -c configure:3780: checking whether build environment is sane configure:3835: result: yes configure:3986: checking for a thread-safe mkdir -p configure:4025: result: /bin/mkdir -p configure:4032: checking for gawk configure:4048: found /bin/gawk configure:4059: result: gawk configure:4070: checking whether make sets $(MAKE) configure:4092: result: yes configure:4173: checking how to create a ustar tar archive configure:4186: tar --version tar (GNU tar) 1.23 Copyright (C) 2010 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 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:4189: $? = 0 configure:4229: tardir=conftest.dir && eval tar --format=ustar -chf - "$tardir" >conftest.tar configure:4232: $? = 0 configure:4236: tar -xf - <conftest.tar configure:4239: $? = 0 configure:4252: result: gnutar configure:4272: checking whether make supports nested variables configure:4289: result: yes configure:4305: checking whether to enable maintainer-specific portions of Makefiles configure:4314: result: yes configure:4334: checking for src/base/libmesh.C configure:4347: result: yes configure:4394: checking for style of include used by make configure:4422: result: GNU configure:4542: checking for mpicxx configure:4558: found /home/mauve/a/ssadasiv/software/petsc/gcc-48-opt/bin/mpicxx configure:4569: result: mpicxx configure:4596: checking for C++ compiler version configure:4605: mpicxx --version >&5 g++ (GCC) 4.4.7 20120313 (Red Hat 4.4.7-4) Copyright (C) 2010 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:4616: $? = 0 configure:4605: mpicxx -v >&5 mpicxx for MPICH version 3.0.4 Using built-in specs. Target: x86_64-redhat-linux Configured with: ../configure --prefix=/usr --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=http://bugzilla.redhat.com/bugzilla --enable-bootstrap --enable-shared --enable-threads=posix --enable-checking=release --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions --enable-gnu-unique-object --enable-languages=c,c++,objc,obj-c++,java,fortran,ada --enable-java-awt=gtk --disable-dssi --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 --disable-libjava-multilib --with-ppl --with-cloog --with-tune=generic --with-arch_32=i686 --build=x86_64-redhat-linux Thread model: posix gcc version 4.4.7 20120313 (Red Hat 4.4.7-4) (GCC) configure:4616: $? = 0 configure:4605: mpicxx -V >&5 g++: '-V' must come at the start of the command line configure:4616: $? = 1 configure:4605: mpicxx -qversion >&5 g++: unrecognized option '-qversion' /usr/bin/ld: warning: libquadmath.so.0, needed by /home/mauve/a/ssadasiv/software/petsc/gcc-48-opt/lib/libmpich.so, not found (try using -rpath or -rpath-link) /usr/lib/gcc/x86_64-redhat-linux/4.4.7/../../../../lib64/crt1.o: In function `_start': (.text+0x20): undefined reference to `main' collect2: ld returned 1 exit status configure:4616: $? = 1 configure:4636: checking whether the C++ compiler works configure:4658: mpicxx conftest.cpp >&5 /usr/bin/ld: warning: libquadmath.so.0, needed by /home/mauve/a/ssadasiv/software/petsc/gcc-48-opt/lib/libmpich.so, not found (try using -rpath or -rpath-link) configure:4662: $? = 0 configure:4710: result: yes configure:4713: checking for C++ compiler default output file name configure:4715: result: a.out configure:4721: checking for suffix of executables configure:4728: mpicxx -o conftest conftest.cpp >&5 /usr/bin/ld: warning: libquadmath.so.0, needed by /home/mauve/a/ssadasiv/software/petsc/gcc-48-opt/lib/libmpich.so, not found (try using -rpath or -rpath-link) configure:4732: $? = 0 configure:4754: result: configure:4776: checking whether we are cross compiling configure:4784: mpicxx -o conftest conftest.cpp >&5 /usr/bin/ld: warning: libquadmath.so.0, needed by /home/mauve/a/ssadasiv/software/petsc/gcc-48-opt/lib/libmpich.so, not found (try using -rpath or -rpath-link) configure:4788: $? = 0 configure:4795: ./conftest ./conftest: error while loading shared libraries: libquadmath.so.0: cannot open shared object file: No such file or directory configure:4799: $? = 127 configure:4806: error: in `/home/mauve/a/ssadasiv/software/libmesh': configure:4808: error: cannot run C++ compiled programs. If you meant to cross compile, use `--host'. See `config.log' for more details ## ---------------- ## ## Cache variables. ## ## ---------------- ## ac_cv_build=x86_64-unknown-linux-gnu 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_FCFLAGS_set= ac_cv_env_FCFLAGS_value= ac_cv_env_FC_set= ac_cv_env_FC_value= ac_cv_env_FFLAGS_set= ac_cv_env_FFLAGS_value= ac_cv_env_HDF5_DIR_set= ac_cv_env_HDF5_DIR_value= ac_cv_env_LDFLAGS_set= ac_cv_env_LDFLAGS_value= ac_cv_env_LIBS_set= ac_cv_env_LIBS_value= ac_cv_env_METHODS_set= ac_cv_env_METHODS_value= ac_cv_env_PETSC_ARCH_set=set ac_cv_env_PETSC_ARCH_value=gcc-opt ac_cv_env_PETSC_DIR_set=set ac_cv_env_PETSC_DIR_value=/home/mauve/a/ssadasiv/software/petsc ac_cv_env_SLEPC_DIR_set= ac_cv_env_SLEPC_DIR_value= ac_cv_env_TRILINOS_DIR_set= ac_cv_env_TRILINOS_DIR_value= ac_cv_env_VTK_DIR_set= ac_cv_env_VTK_DIR_value= ac_cv_env_VTK_INCLUDE_set= ac_cv_env_VTK_INCLUDE_value= ac_cv_env_YACC_set= ac_cv_env_YACC_value= ac_cv_env_YFLAGS_set= ac_cv_env_YFLAGS_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_libmesh_CFLAGS_set= ac_cv_env_libmesh_CFLAGS_value= ac_cv_env_libmesh_CPPFLAGS_set= ac_cv_env_libmesh_CPPFLAGS_value= ac_cv_env_libmesh_CXXFLAGS_set= ac_cv_env_libmesh_CXXFLAGS_value= ac_cv_env_target_alias_set= ac_cv_env_target_alias_value= ac_cv_file_src_base_libmesh_C=yes ac_cv_host=x86_64-unknown-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_CXX=mpicxx ac_cv_prog_make_make_set=yes ac_cv_target=x86_64-unknown-linux-gnu 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LIBMESH_ENABLE_EXODUS_FALSE='' LIBMESH_ENABLE_EXODUS_TRUE='' LIBMESH_ENABLE_EXODUS_V509_FALSE='' LIBMESH_ENABLE_EXODUS_V509_TRUE='' LIBMESH_ENABLE_EXODUS_V522_FALSE='' LIBMESH_ENABLE_EXODUS_V522_TRUE='' LIBMESH_ENABLE_FPARSER_FALSE='' LIBMESH_ENABLE_FPARSER_TRUE='' LIBMESH_ENABLE_GLIBCXX_DEBUGGING_FALSE='' LIBMESH_ENABLE_GLIBCXX_DEBUGGING_TRUE='' LIBMESH_ENABLE_GLPK_FALSE='' LIBMESH_ENABLE_GLPK_TRUE='' LIBMESH_ENABLE_GMV_FALSE='' LIBMESH_ENABLE_GMV_TRUE='' LIBMESH_ENABLE_GZSTREAMS_FALSE='' LIBMESH_ENABLE_GZSTREAMS_TRUE='' LIBMESH_ENABLE_HDF5_FALSE='' LIBMESH_ENABLE_HDF5_TRUE='' LIBMESH_ENABLE_INFINITE_ELEMENTS_FALSE='' LIBMESH_ENABLE_INFINITE_ELEMENTS_TRUE='' LIBMESH_ENABLE_LASPACK_FALSE='' LIBMESH_ENABLE_LASPACK_TRUE='' LIBMESH_ENABLE_LIBHILBERT_FALSE='' LIBMESH_ENABLE_LIBHILBERT_TRUE='' LIBMESH_ENABLE_METIS_FALSE='' LIBMESH_ENABLE_METIS_TRUE='' LIBMESH_ENABLE_NANOFLANN_FALSE='' LIBMESH_ENABLE_NANOFLANN_TRUE='' LIBMESH_ENABLE_NEMESIS_FALSE='' LIBMESH_ENABLE_NEMESIS_TRUE='' LIBMESH_ENABLE_NEMESIS_V309_FALSE='' LIBMESH_ENABLE_NEMESIS_V309_TRUE='' LIBMESH_ENABLE_NEMESIS_V522_FALSE='' LIBMESH_ENABLE_NEMESIS_V522_TRUE='' LIBMESH_ENABLE_NETCDF_FALSE='' LIBMESH_ENABLE_NETCDF_TRUE='' LIBMESH_ENABLE_NETCDF_V3_FALSE='' LIBMESH_ENABLE_NETCDF_V3_TRUE='' LIBMESH_ENABLE_NETCDF_V4_FALSE='' LIBMESH_ENABLE_NETCDF_V4_TRUE='' LIBMESH_ENABLE_PARMETIS_FALSE='' LIBMESH_ENABLE_PARMETIS_TRUE='' LIBMESH_ENABLE_PETSC_FALSE='' LIBMESH_ENABLE_PETSC_TRUE='' LIBMESH_ENABLE_SFC_FALSE='' LIBMESH_ENABLE_SFC_TRUE='' LIBMESH_ENABLE_SLEPC_FALSE='' LIBMESH_ENABLE_SLEPC_TRUE='' LIBMESH_ENABLE_TECIO_FALSE='' LIBMESH_ENABLE_TECIO_TRUE='' LIBMESH_ENABLE_TECPLOT_FALSE='' LIBMESH_ENABLE_TECPLOT_TRUE='' LIBMESH_ENABLE_TETGEN_FALSE='' LIBMESH_ENABLE_TETGEN_TRUE='' LIBMESH_ENABLE_TRIANGLE_FALSE='' LIBMESH_ENABLE_TRIANGLE_TRUE='' LIBMESH_ENABLE_VTK_FALSE='' LIBMESH_ENABLE_VTK_TRUE='' LIBMESH_INSTALL_INTERNAL_BOOST_FALSE='' LIBMESH_INSTALL_INTERNAL_BOOST_TRUE='' LIBMESH_INSTALL_INTERNAL_EIGEN_FALSE='' LIBMESH_INSTALL_INTERNAL_EIGEN_TRUE='' LIBMESH_OPROF_MODE_FALSE='' LIBMESH_OPROF_MODE_TRUE='' LIBMESH_OPT_MODE_FALSE='' LIBMESH_OPT_MODE_TRUE='' LIBMESH_PROF_MODE_FALSE='' LIBMESH_PROF_MODE_TRUE='' LIBMESH_VPATH_BUILD_FALSE='' LIBMESH_VPATH_BUILD_TRUE='#' LIBOBJS='' LIBS='' LIBTOOL='' LIPO='' LN_S='' LTLIBOBJS='' MAINT='' MAINTAINER_MODE_FALSE='#' MAINTAINER_MODE_TRUE='' MAKEINFO='${SHELL} /home/mauve/a/ssadasiv/software/libmesh/build-aux/missing --run makeinfo' MANIFEST_TOOL='' METHOD='' METHODS='' METIS_INCLUDE='' METIS_LIB='' MKDIR_P='/bin/mkdir -p' ML_INCLUDES='' ML_LIBS='' ML_MAKEFILE_EXPORT='' MPCXX='' MPI='' MPI_IMPL='' MPI_INCLUDES_PATH='' MPI_INCLUDES_PATHS='' MPI_LIBS='' MPI_LIBS_PATH='' MPI_LIBS_PATHS='' NANOFLANN_INCLUDE='' NEMESIS_INCLUDE='' NETCDF_INCLUDE='' NM='' NMEDIT='' NODEPRECATEDFLAG='' NOX_INCLUDES='' NOX_LIBS='' NOX_MAKEFILE_EXPORT='' OBJDUMP='' OBJEXT='' OPENMP_CFLAGS='' OPENMP_CXXFLAGS='' OPENMP_FFLAGS='' OPROFILE_FLAGS='' OTOOL64='' OTOOL='' PACKAGE='libmesh' PACKAGE_BUGREPORT='[email protected]' PACKAGE_NAME='libmesh' PACKAGE_STRING='libmesh 1.0.0-pre' PACKAGE_TARNAME='libmesh' PACKAGE_URL='http://libmesh.sourceforge.net' PACKAGE_VERSION='1.0.0-pre' PARMETIS_INCLUDE='' PARMETIS_LIB='' PATH_SEPARATOR=':' PERL='' PETSCARCH='' PETSCINCLUDEDIRS='' PETSCLINKLIBS='' PETSC_ARCH='gcc-opt' PETSC_CC_INCLUDES='' PETSC_DIR='/home/mauve/a/ssadasiv/software/petsc' PETSC_FC_INCLUDES='' PKG_CONFIG='' PROFILING_FLAGS='' PTHREAD_CC='' PTHREAD_CFLAGS='' PTHREAD_LIBS='' PWD='/home/mauve/a/ssadasiv/software/libmesh' RANLIB='' RPATHFLAG='' SED='' SET_MAKE='' SFC_INCLUDE='' SFC_LIB='' SHELL='/bin/sh' SLEPC_DIR='' SLEPC_INCLUDE='' SLEPC_LIBS='' STRIP='' TBB_INCLUDE='' TBB_LIBRARY='' TECIO_CPPFLAGS='' TECIO_INCLUDE='' TETGEN_INCLUDE='' TETGEN_LIBRARY='' TPETRA_INCLUDES='' TPETRA_LIBS='' TPETRA_MAKEFILE_EXPORT='' TRIANGLE_INCLUDE='' TRIANGLE_LIBRARY='' TRILINOS_DIR='' TRILINOS_INCLUDES='' TRILINOS_LIBS='' TRILINOS_MAKEFILE_EXPORT='' VERSION='1.0.0-pre' VTK_DIR='' VTK_INCLUDE='' VTK_LIBRARY='' XZ='' YACC='' YFLAGS='' ac_ct_AR='' ac_ct_CC='' ac_ct_CXX='mpicxx' ac_ct_DUMPBIN='' ac_ct_F77='' ac_ct_FC='' am__EXEEXT_FALSE='' am__EXEEXT_TRUE='' am__fastdepCC_FALSE='' am__fastdepCC_TRUE='' am__fastdepCXX_FALSE='' am__fastdepCXX_TRUE='' am__include='include' am__isrc='' am__leading_dot='.' am__nodep='_no' am__quote='' am__tar='tar --format=ustar -chf - "$$tardir"' am__untar='tar -xf -' ax_pthread_config='' bindir='${exec_prefix}/bin' build='x86_64-unknown-linux-gnu' build_alias='' build_cpu='x86_64' build_os='linux-gnu' build_vendor='unknown' datadir='${datarootdir}' datarootdir='${prefix}/share' docdir='${datarootdir}/doc/${PACKAGE_TARNAME}' dvidir='${docdir}' enabledefaultcommworld='' enablelegacyincludepaths='' enablepetsc='' enablewarnings='' exec_prefix='NONE' gitquery='' have_gcov='' host='x86_64-unknown-linux-gnu' host_alias='' host_cpu='x86_64' host_os='linux-gnu' host_vendor='unknown' htmldir='${docdir}' includedir='${prefix}/include' infodir='${datarootdir}/info' install_sh='${SHELL} /home/mauve/a/ssadasiv/software/libmesh/build-aux/install-sh' libdir='${exec_prefix}/lib' libexecdir='${exec_prefix}/libexec' libmesh_CFLAGS='' libmesh_CPPFLAGS='' libmesh_CXXFLAGS='' libmesh_LDFLAGS='' libmesh_contrib_INCLUDES='' libmesh_installed_LIBS='' libmesh_optional_INCLUDES='' libmesh_optional_LIBS='' libmesh_pkgconfig_requires='' localedir='${datarootdir}/locale' localstatedir='${prefix}/var' mandir='${datarootdir}/man' mkdir_p='$(MKDIR_P)' oldincludedir='/usr/include' pdfdir='${docdir}' petscmajor='' petscmajorminor='' petscversion='' prefix='NONE' program_transform_name='s,x,x,' psdir='${docdir}' sbindir='${exec_prefix}/sbin' sharedstatedir='${prefix}/com' subdirs='' sysconfdir='${prefix}/etc' target='x86_64-unknown-linux-gnu' target_alias='' target_cpu='x86_64' target_os='linux-gnu' target_vendor='unknown' vtkbuild='' vtkmajor='' vtkversion='' ## ----------- ## ## confdefs.h. ## ## ----------- ## /* confdefs.h */ #define PACKAGE_NAME "libmesh" #define PACKAGE_TARNAME "libmesh" #define PACKAGE_VERSION "1.0.0-pre" #define PACKAGE_STRING "libmesh 1.0.0-pre" #define PACKAGE_BUGREPORT "[email protected]" #define PACKAGE_URL "http://libmesh.sourceforge.net"; #define CONFIGURE_INFO "./configure '--enable-parmesh' '--disable-trilinos' 'PETSC_DIR=/home/mauve/a/ssadasiv/software/petsc' 'PETSC_ARCH=gcc-opt'" #define PACKAGE "libmesh" #define VERSION "1.0.0-pre" configure: exit 1
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