[Dune] an installation problem

[Arya Fallahi]

Dear Dune,

while trying to upgrade my installed dune to a new version, I faced with
some installation problems. I could not solve it on my own yet. Therefore,
I thought sending an email to the group may help.

I have used git to install the last repository version. I simply removed my
previous version, since it was the old svn repository and did git clone for
dune-common dune-grid and dune-geometry.

my opt file is as follows:

CONFIGURE_FLAGS="       MPICC='/opt/openmpi-1.6.4/bin/mpicc'
                        CC=gcc-4.7
                        CFLAGS='-O3 -g0 --no-strict-aliasing'
                        CPP=cpp-4.7
                        CPPFLAGS='-O3 -g0 --no-strict-aliasing'
                        CXX=g++-4.7
                        CXXFLAGS='-O3 -g0 --no-strict-aliasing'
                        F77=gfortran-4.7
                        FFLAGS='-O3 -g0 --no-strict-aliasing'
                        FC=gfortran-4.7
                        FCFLAGS='-O3 -g0 --no-strict-aliasing'
                        --enable-parallel
                        --prefix='/opt/cyrus'
                        --with-metis='/opt/metis-5.1.0'
                        --with-alugrid='/opt/ALUGrid-1.52' "

when I try to complie my project I get the following message:

arya at arya-ThinkPad-W520:~/workspace$ ./dune-common/bin/dunecontrol
--opts=cyrus.opts all
----- using default flags $CONFIGURE_FLAGS from
/home/arya/workspace/cyrus.opts -----
--- going to build dune-common dune-geometry dune-grid cyrus  ---
--- calling all for dune-common ---
--- calling vcsetup for dune-common ---
--- calling autogen for dune-common ---
Found am directory /home/arya/workspace/dune-common/am
--> dunedoxynize...
Generating doc/doxygen/Doxyfile.in from
    global style
    and dune-common config
    ... done
--> libtoolize...
libtoolize: putting auxiliary files in `.'.
libtoolize: linking file `./ltmain.sh'
libtoolize: Remember to add `LT_INIT' to configure.ac.
libtoolize: Consider adding `AC_CONFIG_MACRO_DIR([m4])' to configure.ac and
libtoolize: rerunning libtoolize, to keep the correct libtool macros
in-tree.
libtoolize: Consider adding `-I m4' to ACLOCAL_AMFLAGS in Makefile.am.
--> writing /home/arya/workspace/dune-common/dependencies.m4
    for dune-common 2.4-git dune-devel at dune-project.org
        requires
        suggests
--> aclocal...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_common.m4:1: DUNE_COMMON_CHECKS is
expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_common.m4:1: DUNE_COMMON_CHECKS is
expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
--> autoheader...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:10981: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11204: DUNE_COMMON_CHECKS is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:10981: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
--> automake...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:10981: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11204: DUNE_COMMON_CHECKS is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:10981: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
am/top-rules:22: warning: user target 'distclean-libtool' defined here ...
Makefile.am:14:   'am/top-rules' included from here
/opt/autotools/share/automake-1.13/am/libtool.am: ... overrides Automake
target 'distclean-libtool' defined here
--> autoconf...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:10981: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11204: DUNE_COMMON_CHECKS is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:10981: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
Now run ./configure to setup dune-common
--- calling configure for dune-common ---
----- using default flags $CONFIGURE_FLAGS from
/home/arya/workspace/cyrus.opts -----
./configure MPICC='/opt/openmpi-1.6.4/bin/mpicc' CC=gcc-4.7 CFLAGS='-O3 -g0
--no-strict-aliasing' CPP=cpp-4.7 CPPFLAGS='-O3 -g0 --no-strict-aliasing'
CXX=g++-4.7 CXXFLAGS='-O3 -g0 --no-strict-aliasing' F77=gfortran-4.7
FFLAGS='-O3 -g0 --no-strict-aliasing' FC=gfortran-4.7 FCFLAGS='-O3 -g0
--no-strict-aliasing' --enable-parallel --prefix='/opt/cyrus'
--with-metis='/opt/metis-5.1.0' --with-alugrid='/opt/ALUGrid-1.52'
ACLOCAL_AMFLAGS="-I . -I m4"
configure: WARNING: unrecognized options: --with-metis, --with-alugrid
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... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking how to create a pax tar archive... gnutar
checking whether make supports nested variables... (cached) yes
checking for inkscape... no
checking for doxygen... no
checking for latex... no
checking for bibtex... no
checking for dvipdf... dvipdf
checking for dvips... no
checking for wml... no
checking for dot... no
checking for perl... perl
checking for convert... convert
/home/arya/workspace/dune-common/configure: line 4399: PKG_PROG_PKG_CONFIG:
command not found
checking for style of include used by make... GNU
checking for gcc... gcc-4.7
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... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc-4.7 accepts -g... yes
checking for gcc-4.7 option to accept ISO C89... none needed
checking dependency style of gcc-4.7... gcc3
checking how to run the C preprocessor... cpp-4.7
checking whether we are using the GNU C++ compiler... yes
checking whether g++-4.7 accepts -g... yes
checking dependency style of g++-4.7... gcc3
checking how to run the C++ preprocessor... g++-4.7 -E
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran-4.7 accepts -g... yes
checking whether we are using the GNU Fortran compiler... yes
checking whether gfortran-4.7 accepts -g... yes
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking how to print strings... printf
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by gcc-4.7... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert x86_64-unknown-linux-gnu file names to
x86_64-unknown-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-unknown-linux-gnu file names to toolchain
format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc-4.7 object... ok
checking for sysroot... no
checking for mt... mt
checking if mt is a manifest tool... no
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 for dlfcn.h... yes
checking for objdir... .libs
checking if gcc-4.7 supports -fno-rtti -fno-exceptions... no
checking for gcc-4.7 option to produce PIC... -fPIC -DPIC
checking if gcc-4.7 PIC flag -fPIC -DPIC works... yes
checking if gcc-4.7 static flag -static works... yes
checking if gcc-4.7 supports -c -o file.o... yes
checking if gcc-4.7 supports -c -o file.o... (cached) yes
checking whether the gcc-4.7 linker (/usr/bin/ld -m elf_x86_64) supports
shared libraries... yes
checking dynamic linker characteristics... GNU/Linux ld.so
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
checking how to run the C++ preprocessor... g++-4.7 -E
checking for ld used by g++-4.7... /usr/bin/ld -m elf_x86_64
checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
checking whether the g++-4.7 linker (/usr/bin/ld -m elf_x86_64) supports
shared libraries... yes
checking for g++-4.7 option to produce PIC... -fPIC -DPIC
checking if g++-4.7 PIC flag -fPIC -DPIC works... yes
checking if g++-4.7 static flag -static works... yes
checking if g++-4.7 supports -c -o file.o... yes
checking if g++-4.7 supports -c -o file.o... (cached) yes
checking whether the g++-4.7 linker (/usr/bin/ld -m elf_x86_64) supports
shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... no
checking whether to build static libraries... yes
checking for gfortran-4.7 option to produce PIC... -fPIC
checking if gfortran-4.7 PIC flag -fPIC works... yes
checking if gfortran-4.7 static flag -static works... yes
checking if gfortran-4.7 supports -c -o file.o... yes
checking if gfortran-4.7 supports -c -o file.o... (cached) yes
checking whether the gfortran-4.7 linker (/usr/bin/ld -m elf_x86_64)
supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... no
checking whether to build static libraries... yes
checking for gfortran-4.7 option to produce PIC... -fPIC
checking if gfortran-4.7 PIC flag -fPIC works... yes
checking if gfortran-4.7 static flag -static works... yes
checking if gfortran-4.7 supports -c -o file.o... yes
checking if gfortran-4.7 supports -c -o file.o... (cached) yes
checking whether the gfortran-4.7 linker (/usr/bin/ld -m elf_x86_64)
supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
/home/arya/workspace/dune-common/configure: line 22710:
PKG_PROG_PKG_CONFIG: command not found
checking for ranlib... (cached) ranlib
checking how to get verbose linking output from gfortran-4.7... -v
checking for Fortran 77 libraries of gfortran-4.7...
 -L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3
-L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3/../../../../lib64
-L/lib/x86_64-linux-gnu -L/lib/../lib64 -L/usr/lib/x86_64-linux-gnu
-L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3/../../.. -lgfortran
-lm -lquadmath
checking for dummy main to link with Fortran 77 libraries... none
checking for Fortran 77 name-mangling scheme... lower case, underscore, no
extra underscore
checking for sgemm_... no
checking for ATL_xerbla in -latlas... no
checking for sgemm_ in -lblas... no
checking for sgemm_ in -lcxml... no
checking for sgemm_ in -ldxml... no
checking for sgemm_ in -lscs... no
checking for sgemm_ in -lcomplib.sgimath... no
checking for sgemm_ in -lblas... (cached) no
checking for sgemm_ in -lblas... (cached) no
checking how to get verbose linking output from gfortran-4.7... -v
checking for Fortran libraries of gfortran-4.7...
 -L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3
-L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3/../../../../lib64
-L/lib/x86_64-linux-gnu -L/lib/../lib64 -L/usr/lib/x86_64-linux-gnu
-L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3/../../.. -lgfortran
-lm -lquadmath
checking for dummy main to link with Fortran libraries... none
checking for Fortran name-mangling scheme... lower case, underscore, no
extra underscore
checking whether compiler is officially supported by DUNE... yes
checking whether g++-4.7 accepts -std=c++11... yes
checking whether nullptr is supported... yes
checking for C++11 constexpr... yes
checking for C++11 noexcept specifier... yes
checking for C++11 range-based for... yes
checking for boostlib >= 1.20.0... configure: We could not detect the boost
libraries (version 1.20 or higher). If you have a staged boost library
(still not installed) please specify $BOOST_ROOT in your environment and do
not give a PATH to --with-boost option.  If you are sure you have boost
installed, then check your version number looking in <boost/version.hpp>.
See http://randspringer.de/boost for more documentation.
checking whether compiling C++ code works... yes
checking whether linking C++ objects works... yes
checking for __attribute__((deprecated))... yes
checking for __attribute__((deprecated("message")))... yes
checking for C++11 keyword 'final'... yes
checking for __attribute__((unused))... yes
checking for abi::__cxa_demangle... yes
checking rpc/rpc.h usability... yes
checking rpc/rpc.h presence... yes
checking for rpc/rpc.h... yes
checking for mpicc... /opt/openmpi-1.6.4/bin/mpicc
checking for MPI_Init... yes
checking for mpi.h... yes
configure: Trying to identify the version of MPI compiler
/opt/openmpi-1.6.4/bin/mpicc
checking for lam... no
checking for mpich... no
checking for OpenMPI... yes
checking whether compiling with OpenMPI works... yes
checking whether MPI is recent enough (MPI-2.1)... yes
configure: WARNING: Disabled test whether running with OpenMPI works.
checking for MPI_Finalized in -lm... yes
checking sys/mman.h usability... yes
checking sys/mman.h presence... yes
checking for sys/mman.h... yes
checking for an ANSI C-conforming const... yes
checking for inline... inline
checking for size_t... yes
checking whether struct tm is in sys/time.h or time.h... time.h
checking for GMP... configure: searching for GMP in /usr...
checking gmpxx.h usability... no
checking gmpxx.h presence... no
checking for gmpxx.h... no
configure: WARNING: gmpxx.h not found in /usr
configure: searching for GMP in /usr/local...
checking for gmpxx.h... (cached) no
configure: WARNING: gmpxx.h not found in /usr/local
no
checking malloc.h usability... yes
checking malloc.h presence... yes
checking for malloc.h... yes
checking for string.h... (cached) yes
checking for pow in -lm... yes
checking for sqrt... yes
checking for strchr... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating lib/Makefile
config.status: creating bin/Makefile
config.status: creating cmake/Makefile
config.status: creating cmake/modules/Makefile
config.status: creating cmake/scripts/Makefile
config.status: creating cmake/pkg/Makefile
config.status: creating dune/Makefile
config.status: creating dune/common/Makefile
config.status: creating dune/common/test/Makefile
config.status: creating dune/common/parallel/Makefile
config.status: creating dune/common/parallel/test/Makefile
config.status: creating dune/common/std/Makefile
config.status: creating doc/Makefile
config.status: creating doc/comm/Makefile
config.status: creating doc/comm/figures/Makefile
config.status: creating doc/doxygen/Makefile
config.status: creating doc/doxygen/Doxyfile
config.status: creating doc/buildsystem/Makefile
config.status: creating m4/Makefile
config.status: creating am/Makefile
config.status: creating share/Makefile
config.status: creating share/bash-completion/Makefile
config.status: creating share/bash-completion/completions/Makefile
config.status: creating dune-common.pc
config.status: creating bin/check-log-store
config.status: creating config.h
config.status: config.h is unchanged
config.status: executing depfiles commands
config.status: executing libtool commands
configure: WARNING: unrecognized options: --with-metis, --with-alugrid

Found the following Dune-components:

----------------------------------------

GMP.....................: no
MPI.....................: yes (OpenMPI)

----------------------------------------

See ./configure --help and config.log for reasons why a component wasn't
found

--- calling make for dune-common ---
make
(CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/bash
/home/arya/workspace/dune-common/missing autoheader)
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:10981: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11204: DUNE_COMMON_CHECKS is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:10981: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
rm -f stamp-h1
touch config.h.in
cd . && /bin/bash ./config.status config.h
config.status: creating config.h
config.status: config.h is unchanged
make  all-recursive
make[1]: Entering directory `/home/arya/workspace/dune-common'
Making all in cmake
make[2]: Entering directory `/home/arya/workspace/dune-common/cmake'
Making all in modules
make[3]: Entering directory `/home/arya/workspace/dune-common/cmake/modules'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/home/arya/workspace/dune-common/cmake/modules'
Making all in pkg
make[3]: Entering directory `/home/arya/workspace/dune-common/cmake/pkg'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/home/arya/workspace/dune-common/cmake/pkg'
Making all in scripts
make[3]: Entering directory `/home/arya/workspace/dune-common/cmake/scripts'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/home/arya/workspace/dune-common/cmake/scripts'
make[3]: Entering directory `/home/arya/workspace/dune-common/cmake'
make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/home/arya/workspace/dune-common/cmake'
make[2]: Leaving directory `/home/arya/workspace/dune-common/cmake'
Making all in dune
make[2]: Entering directory `/home/arya/workspace/dune-common/dune'
Making all in common
make[3]: Entering directory `/home/arya/workspace/dune-common/dune/common'
Making all in .
make[4]: Entering directory `/home/arya/workspace/dune-common/dune/common'
make[4]: Nothing to be done for `all-am'.
make[4]: Leaving directory `/home/arya/workspace/dune-common/dune/common'
Making all in test
make[4]: Entering directory
`/home/arya/workspace/dune-common/dune/common/test'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory
`/home/arya/workspace/dune-common/dune/common/test'
Making all in parallel
make[4]: Entering directory
`/home/arya/workspace/dune-common/dune/common/parallel'
Making all in test
make[5]: Entering directory
`/home/arya/workspace/dune-common/dune/common/parallel/test'
make[5]: Nothing to be done for `all'.
make[5]: Leaving directory
`/home/arya/workspace/dune-common/dune/common/parallel/test'
make[5]: Entering directory
`/home/arya/workspace/dune-common/dune/common/parallel'
make[5]: Nothing to be done for `all-am'.
make[5]: Leaving directory
`/home/arya/workspace/dune-common/dune/common/parallel'
make[4]: Leaving directory
`/home/arya/workspace/dune-common/dune/common/parallel'
Making all in std
make[4]: Entering directory
`/home/arya/workspace/dune-common/dune/common/std'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory
`/home/arya/workspace/dune-common/dune/common/std'
make[3]: Leaving directory `/home/arya/workspace/dune-common/dune/common'
make[3]: Entering directory `/home/arya/workspace/dune-common/dune'
make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/home/arya/workspace/dune-common/dune'
make[2]: Leaving directory `/home/arya/workspace/dune-common/dune'
Making all in lib
make[2]: Entering directory `/home/arya/workspace/dune-common/lib'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/arya/workspace/dune-common/lib'
Making all in share
make[2]: Entering directory `/home/arya/workspace/dune-common/share'
Making all in bash-completion
make[3]: Entering directory
`/home/arya/workspace/dune-common/share/bash-completion'
Making all in completions
make[4]: Entering directory
`/home/arya/workspace/dune-common/share/bash-completion/completions'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory
`/home/arya/workspace/dune-common/share/bash-completion/completions'
make[4]: Entering directory
`/home/arya/workspace/dune-common/share/bash-completion'
make[4]: Nothing to be done for `all-am'.
make[4]: Leaving directory
`/home/arya/workspace/dune-common/share/bash-completion'
make[3]: Leaving directory
`/home/arya/workspace/dune-common/share/bash-completion'
make[3]: Entering directory `/home/arya/workspace/dune-common/share'
make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/home/arya/workspace/dune-common/share'
make[2]: Leaving directory `/home/arya/workspace/dune-common/share'
Making all in doc
make[2]: Entering directory `/home/arya/workspace/dune-common/doc'
Making all in doxygen
make[3]: Entering directory `/home/arya/workspace/dune-common/doc/doxygen'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/home/arya/workspace/dune-common/doc/doxygen'
Making all in buildsystem
make[3]: Entering directory
`/home/arya/workspace/dune-common/doc/buildsystem'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory
`/home/arya/workspace/dune-common/doc/buildsystem'
Making all in comm
make[3]: Entering directory `/home/arya/workspace/dune-common/doc/comm'
Making all in figures
make[4]: Entering directory
`/home/arya/workspace/dune-common/doc/comm/figures'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory
`/home/arya/workspace/dune-common/doc/comm/figures'
make[4]: Entering directory `/home/arya/workspace/dune-common/doc/comm'
make[4]: Nothing to be done for `all-am'.
make[4]: Leaving directory `/home/arya/workspace/dune-common/doc/comm'
make[3]: Leaving directory `/home/arya/workspace/dune-common/doc/comm'
make[3]: Entering directory `/home/arya/workspace/dune-common/doc'
make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/home/arya/workspace/dune-common/doc'
make[2]: Leaving directory `/home/arya/workspace/dune-common/doc'
Making all in bin
make[2]: Entering directory `/home/arya/workspace/dune-common/bin'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/arya/workspace/dune-common/bin'
Making all in m4
make[2]: Entering directory `/home/arya/workspace/dune-common/m4'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/arya/workspace/dune-common/m4'
Making all in am
make[2]: Entering directory `/home/arya/workspace/dune-common/am'
make[3]: Entering directory `/home/arya/workspace/dune-common/am'
make[3]: Leaving directory `/home/arya/workspace/dune-common/am'
make[3]: Entering directory `/home/arya/workspace/dune-common/am'
make[4]: Entering directory `/home/arya/workspace/dune-common/am'
make[4]: Leaving directory `/home/arya/workspace/dune-common/am'
make[3]: Leaving directory `/home/arya/workspace/dune-common/am'
make[2]: Leaving directory `/home/arya/workspace/dune-common/am'
make[2]: Entering directory `/home/arya/workspace/dune-common'
make[2]: Leaving directory `/home/arya/workspace/dune-common'
make[1]: Leaving directory `/home/arya/workspace/dune-common'
--- dune-common done ---
--- calling all for dune-geometry ---
--- calling vcsetup for dune-geometry ---
--- calling autogen for dune-geometry ---
Found am directory /home/arya/workspace/dune-common/am
--> dunedoxynize...
Generating doc/doxygen/Doxyfile.in from
    global style
    and dune-geometry config
    ... done
--> libtoolize...
libtoolize: putting auxiliary files in `.'.
libtoolize: linking file `./ltmain.sh'
libtoolize: Remember to add `LT_INIT' to configure.ac.
libtoolize: Consider adding `AC_CONFIG_MACRO_DIR([m4])' to configure.ac and
libtoolize: rerunning libtoolize, to keep the correct libtool macros
in-tree.
libtoolize: Consider adding `-I m4' to ACLOCAL_AMFLAGS in Makefile.am.
--> writing /home/arya/workspace/dune-geometry/dependencies.m4
    for dune-geometry 2.4-git dune-devel at dune-project.org
        requires  dune-common >= 2.4
        suggests
--> aclocal...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_common.m4:1: DUNE_COMMON_CHECKS is
expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune.m4:275: DUNE_CHECK_MODULES is
expanded from...
/home/arya/workspace/dune-common/m4/dune_common.m4:75:
DUNE_COMMON_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_common.m4:1: DUNE_COMMON_CHECKS is
expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune.m4:275: DUNE_CHECK_MODULES is
expanded from...
/home/arya/workspace/dune-common/m4/dune_common.m4:75:
DUNE_COMMON_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
--> linking dune-common/am...
--> autoheader...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11199: DUNE_COMMON_CHECKS is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:10742: DUNE_CHECK_MODULES is expanded from...
aclocal.m4:11273: DUNE_COMMON_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
--> automake...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11199: DUNE_COMMON_CHECKS is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:10742: DUNE_CHECK_MODULES is expanded from...
aclocal.m4:11273: DUNE_COMMON_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
am/top-rules:22: warning: user target 'distclean-libtool' defined here ...
Makefile.am:15:   'am/top-rules' included from here
/opt/autotools/share/automake-1.13/am/libtool.am: ... overrides Automake
target 'distclean-libtool' defined here
--> autoconf...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11199: DUNE_COMMON_CHECKS is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:10742: DUNE_CHECK_MODULES is expanded from...
aclocal.m4:11273: DUNE_COMMON_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
Now run ./configure to setup dune-geometry
--- calling configure for dune-geometry ---
----- using default flags $CONFIGURE_FLAGS from
/home/arya/workspace/cyrus.opts -----
./configure MPICC='/opt/openmpi-1.6.4/bin/mpicc' CC=gcc-4.7 CFLAGS='-O3 -g0
--no-strict-aliasing' CPP=cpp-4.7 CPPFLAGS='-O3 -g0 --no-strict-aliasing'
CXX=g++-4.7 CXXFLAGS='-O3 -g0 --no-strict-aliasing' F77=gfortran-4.7
FFLAGS='-O3 -g0 --no-strict-aliasing' FC=gfortran-4.7 FCFLAGS='-O3 -g0
--no-strict-aliasing' --enable-parallel --prefix='/opt/cyrus'
--with-metis='/opt/metis-5.1.0' --with-alugrid='/opt/ALUGrid-1.52'
"--with-dune-common=/home/arya/workspace/dune-common/" ACLOCAL_AMFLAGS="-I
. -I m4 -I /home/arya/workspace/dune-common/m4"
configure: WARNING: unrecognized options: --with-metis, --with-alugrid
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... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking how to create a pax tar archive... gnutar
checking whether make supports nested variables... (cached) yes
checking for inkscape... no
checking for doxygen... no
checking for latex... no
checking for bibtex... no
checking for dvipdf... dvipdf
checking for dvips... no
checking for wml... no
checking for dot... no
checking for perl... perl
checking for convert... convert
/home/arya/workspace/dune-geometry/configure: line 4361:
PKG_PROG_PKG_CONFIG: command not found
checking for style of include used by make... GNU
checking for gcc... gcc-4.7
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... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc-4.7 accepts -g... yes
checking for gcc-4.7 option to accept ISO C89... none needed
checking dependency style of gcc-4.7... gcc3
checking how to run the C preprocessor... cpp-4.7
checking whether we are using the GNU C++ compiler... yes
checking whether g++-4.7 accepts -g... yes
checking dependency style of g++-4.7... gcc3
checking how to run the C++ preprocessor... g++-4.7 -E
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran-4.7 accepts -g... yes
checking whether we are using the GNU Fortran compiler... yes
checking whether gfortran-4.7 accepts -g... yes
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking how to print strings... printf
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by gcc-4.7... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert x86_64-unknown-linux-gnu file names to
x86_64-unknown-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-unknown-linux-gnu file names to toolchain
format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc-4.7 object... ok
checking for sysroot... no
checking for mt... mt
checking if mt is a manifest tool... no
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 for dlfcn.h... yes
checking for objdir... .libs
checking if gcc-4.7 supports -fno-rtti -fno-exceptions... no
checking for gcc-4.7 option to produce PIC... -fPIC -DPIC
checking if gcc-4.7 PIC flag -fPIC -DPIC works... yes
checking if gcc-4.7 static flag -static works... yes
checking if gcc-4.7 supports -c -o file.o... yes
checking if gcc-4.7 supports -c -o file.o... (cached) yes
checking whether the gcc-4.7 linker (/usr/bin/ld -m elf_x86_64) supports
shared libraries... yes
checking dynamic linker characteristics... GNU/Linux ld.so
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
checking how to run the C++ preprocessor... g++-4.7 -E
checking for ld used by g++-4.7... /usr/bin/ld -m elf_x86_64
checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
checking whether the g++-4.7 linker (/usr/bin/ld -m elf_x86_64) supports
shared libraries... yes
checking for g++-4.7 option to produce PIC... -fPIC -DPIC
checking if g++-4.7 PIC flag -fPIC -DPIC works... yes
checking if g++-4.7 static flag -static works... yes
checking if g++-4.7 supports -c -o file.o... yes
checking if g++-4.7 supports -c -o file.o... (cached) yes
checking whether the g++-4.7 linker (/usr/bin/ld -m elf_x86_64) supports
shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... no
checking whether to build static libraries... yes
checking for gfortran-4.7 option to produce PIC... -fPIC
checking if gfortran-4.7 PIC flag -fPIC works... yes
checking if gfortran-4.7 static flag -static works... yes
checking if gfortran-4.7 supports -c -o file.o... yes
checking if gfortran-4.7 supports -c -o file.o... (cached) yes
checking whether the gfortran-4.7 linker (/usr/bin/ld -m elf_x86_64)
supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... no
checking whether to build static libraries... yes
checking for gfortran-4.7 option to produce PIC... -fPIC
checking if gfortran-4.7 PIC flag -fPIC works... yes
checking if gfortran-4.7 static flag -static works... yes
checking if gfortran-4.7 supports -c -o file.o... yes
checking if gfortran-4.7 supports -c -o file.o... (cached) yes
checking whether the gfortran-4.7 linker (/usr/bin/ld -m elf_x86_64)
supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
/home/arya/workspace/dune-geometry/configure: line 22672:
PKG_PROG_PKG_CONFIG: command not found
checking for ranlib... (cached) ranlib
checking how to get verbose linking output from gfortran-4.7... -v
checking for Fortran 77 libraries of gfortran-4.7...
 -L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3
-L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3/../../../../lib64
-L/lib/x86_64-linux-gnu -L/lib/../lib64 -L/usr/lib/x86_64-linux-gnu
-L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3/../../.. -lgfortran
-lm -lquadmath
checking for dummy main to link with Fortran 77 libraries... none
checking for Fortran 77 name-mangling scheme... lower case, underscore, no
extra underscore
checking for sgemm_... no
checking for ATL_xerbla in -latlas... no
checking for sgemm_ in -lblas... no
checking for sgemm_ in -lcxml... no
checking for sgemm_ in -ldxml... no
checking for sgemm_ in -lscs... no
checking for sgemm_ in -lcomplib.sgimath... no
checking for sgemm_ in -lblas... (cached) no
checking for sgemm_ in -lblas... (cached) no
checking how to get verbose linking output from gfortran-4.7... -v
checking for Fortran libraries of gfortran-4.7...
 -L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3
-L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3/../../../../lib64
-L/lib/x86_64-linux-gnu -L/lib/../lib64 -L/usr/lib/x86_64-linux-gnu
-L/opt/gcc-4.7.3/lib/gcc/x86_64-unknown-linux-gnu/4.7.3/../../.. -lgfortran
-lm -lquadmath
checking for dummy main to link with Fortran libraries... none
checking for Fortran name-mangling scheme... lower case, underscore, no
extra underscore
checking whether compiler is officially supported by DUNE... yes
checking whether g++-4.7 accepts -std=c++11... yes
checking whether nullptr is supported... yes
checking for C++11 constexpr... yes
checking for C++11 noexcept specifier... yes
checking for C++11 range-based for... yes
checking for boostlib >= 1.20.0... configure: We could not detect the boost
libraries (version 1.20 or higher). If you have a staged boost library
(still not installed) please specify $BOOST_ROOT in your environment and do
not give a PATH to --with-boost option.  If you are sure you have boost
installed, then check your version number looking in <boost/version.hpp>.
See http://randspringer.de/boost for more documentation.
checking whether compiling C++ code works... yes
checking whether linking C++ objects works... yes
checking for __attribute__((deprecated))... yes
checking for __attribute__((deprecated("message")))... yes
checking for C++11 keyword 'final'... yes
checking for __attribute__((unused))... yes
checking for abi::__cxa_demangle... yes
checking rpc/rpc.h usability... yes
checking rpc/rpc.h presence... yes
checking for rpc/rpc.h... yes
checking for mpicc... /opt/openmpi-1.6.4/bin/mpicc
checking for MPI_Init... yes
checking for mpi.h... yes
configure: Trying to identify the version of MPI compiler
/opt/openmpi-1.6.4/bin/mpicc
checking for lam... no
checking for mpich... no
checking for OpenMPI... yes
checking whether compiling with OpenMPI works... yes
checking whether MPI is recent enough (MPI-2.1)... yes
configure: WARNING: Disabled test whether running with OpenMPI works.
checking for MPI_Finalized in -lm... yes
checking sys/mman.h usability... yes
checking sys/mman.h presence... yes
checking for sys/mman.h... yes
checking for an ANSI C-conforming const... yes
checking for inline... inline
checking for size_t... yes
checking whether struct tm is in sys/time.h or time.h... time.h
checking for GMP... configure: searching for GMP in /usr...
checking gmpxx.h usability... no
checking gmpxx.h presence... no
checking for gmpxx.h... no
configure: WARNING: gmpxx.h not found in /usr
configure: searching for GMP in /usr/local...
checking for gmpxx.h... (cached) no
configure: WARNING: gmpxx.h not found in /usr/local
no
checking malloc.h usability... yes
checking malloc.h presence... yes
checking for malloc.h... yes
checking for string.h... (cached) yes
checking for pow in -lm... yes
checking for sqrt... yes
checking for strchr... yes
/home/arya/workspace/dune-geometry/configure: line 28371:
PKG_PROG_PKG_CONFIG: command not found
configure: creating ./config.lt
config.lt: creating libtool
checking for dune-common installation or source tree... testing
/home/arya/workspace/dune-common/CMakeCache.txt
found in /home/arya/workspace/dune-common
checking dune/common/stdstreams.hh usability... yes
checking dune/common/stdstreams.hh presence... yes
checking for dune/common/stdstreams.hh... yes
checking for libdunecommon... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating lib/Makefile
config.status: creating doc/Makefile
config.status: creating doc/appl/Makefile
config.status: creating doc/appl/refelements/Makefile
config.status: creating doc/doxygen/Makefile
config.status: creating doc/doxygen/Doxyfile
config.status: creating doc/refinement/Makefile
config.status: creating dune/Makefile
config.status: creating dune/geometry/Makefile
config.status: creating dune/geometry/test/Makefile
config.status: creating dune/geometry/genericgeometry/Makefile
config.status: creating dune/geometry/genericgeometry/test/Makefile
config.status: creating dune/geometry/quadraturerules/Makefile
config.status: creating dune/geometry/refinement/Makefile
config.status: creating m4/Makefile
config.status: creating dune-geometry.pc
config.status: creating config.h
config.status: config.h is unchanged
config.status: executing depfiles commands
config.status: executing libtool commands
configure: WARNING: unrecognized options: --with-metis, --with-alugrid

Found the following Dune-components:

----------------------------------------

dune-common.............: version 2.4-git
GMP.....................: no
MPI.....................: yes (OpenMPI)

----------------------------------------

See ./configure --help and config.log for reasons why a component wasn't
found

--- calling make for dune-geometry ---
make
(CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/bash
/home/arya/workspace/dune-geometry/missing autoheader)
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:11199: DUNE_COMMON_CHECKS is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:10742: DUNE_CHECK_MODULES is expanded from...
aclocal.m4:11273: DUNE_COMMON_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:11004: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
rm -f stamp-h1
touch config.h.in
cd . && /bin/bash ./config.status config.h
config.status: creating config.h
config.status: config.h is unchanged
make  all-recursive
make[1]: Entering directory `/home/arya/workspace/dune-geometry'
Making all in m4
make[2]: Entering directory `/home/arya/workspace/dune-geometry/m4'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/arya/workspace/dune-geometry/m4'
Making all in dune
make[2]: Entering directory `/home/arya/workspace/dune-geometry/dune'
Making all in geometry
make[3]: Entering directory
`/home/arya/workspace/dune-geometry/dune/geometry'
Making all in quadraturerules
make[4]: Entering directory
`/home/arya/workspace/dune-geometry/dune/geometry/quadraturerules'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory
`/home/arya/workspace/dune-geometry/dune/geometry/quadraturerules'
Making all in genericgeometry
make[4]: Entering directory
`/home/arya/workspace/dune-geometry/dune/geometry/genericgeometry'
Making all in test
make[5]: Entering directory
`/home/arya/workspace/dune-geometry/dune/geometry/genericgeometry/test'
make[5]: Nothing to be done for `all'.
make[5]: Leaving directory
`/home/arya/workspace/dune-geometry/dune/geometry/genericgeometry/test'
make[5]: Entering directory
`/home/arya/workspace/dune-geometry/dune/geometry/genericgeometry'
make[5]: Nothing to be done for `all-am'.
make[5]: Leaving directory
`/home/arya/workspace/dune-geometry/dune/geometry/genericgeometry'
make[4]: Leaving directory
`/home/arya/workspace/dune-geometry/dune/geometry/genericgeometry'
Making all in refinement
make[4]: Entering directory
`/home/arya/workspace/dune-geometry/dune/geometry/refinement'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory
`/home/arya/workspace/dune-geometry/dune/geometry/refinement'
Making all in test
make[4]: Entering directory
`/home/arya/workspace/dune-geometry/dune/geometry/test'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory
`/home/arya/workspace/dune-geometry/dune/geometry/test'
make[4]: Entering directory
`/home/arya/workspace/dune-geometry/dune/geometry'
make[4]: Nothing to be done for `all-am'.
make[4]: Leaving directory
`/home/arya/workspace/dune-geometry/dune/geometry'
make[3]: Leaving directory
`/home/arya/workspace/dune-geometry/dune/geometry'
make[3]: Entering directory `/home/arya/workspace/dune-geometry/dune'
make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/home/arya/workspace/dune-geometry/dune'
make[2]: Leaving directory `/home/arya/workspace/dune-geometry/dune'
Making all in doc
make[2]: Entering directory `/home/arya/workspace/dune-geometry/doc'
Making all in appl
make[3]: Entering directory `/home/arya/workspace/dune-geometry/doc/appl'
Making all in refelements
make[4]: Entering directory
`/home/arya/workspace/dune-geometry/doc/appl/refelements'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory
`/home/arya/workspace/dune-geometry/doc/appl/refelements'
make[4]: Entering directory `/home/arya/workspace/dune-geometry/doc/appl'
make[4]: Nothing to be done for `all-am'.
make[4]: Leaving directory `/home/arya/workspace/dune-geometry/doc/appl'
make[3]: Leaving directory `/home/arya/workspace/dune-geometry/doc/appl'
Making all in doxygen
make[3]: Entering directory `/home/arya/workspace/dune-geometry/doc/doxygen'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/home/arya/workspace/dune-geometry/doc/doxygen'
make[3]: Entering directory `/home/arya/workspace/dune-geometry/doc'
make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/home/arya/workspace/dune-geometry/doc'
make[2]: Leaving directory `/home/arya/workspace/dune-geometry/doc'
Making all in lib
make[2]: Entering directory `/home/arya/workspace/dune-geometry/lib'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/arya/workspace/dune-geometry/lib'
make[2]: Entering directory `/home/arya/workspace/dune-geometry'
make[2]: Leaving directory `/home/arya/workspace/dune-geometry'
make[1]: Leaving directory `/home/arya/workspace/dune-geometry'
--- dune-geometry done ---
--- calling all for dune-grid ---
--- calling vcsetup for dune-grid ---
--- calling autogen for dune-grid ---
Found am directory /home/arya/workspace/dune-common/am
--> dunedoxynize...
Generating doc/doxygen/Doxyfile.in from
    global style
    and dune-grid config
    ... done
--> libtoolize...
libtoolize: putting auxiliary files in `.'.
libtoolize: linking file `./ltmain.sh'
libtoolize: Remember to add `LT_INIT' to configure.ac.
libtoolize: Consider adding `AC_CONFIG_MACRO_DIR([m4])' to configure.ac and
libtoolize: rerunning libtoolize, to keep the correct libtool macros
in-tree.
libtoolize: Consider adding `-I m4' to ACLOCAL_AMFLAGS in Makefile.am.
--> writing /home/arya/workspace/dune-grid/dependencies.m4
    for dune-grid 2.4-git dune-devel at dune-project.org
        requires  dune-common >= 2.4  dune-geometry >= 2.4
        suggests
--> aclocal...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_common.m4:1: DUNE_COMMON_CHECKS is
expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune.m4:275: DUNE_CHECK_MODULES is
expanded from...
/home/arya/workspace/dune-common/m4/dune_common.m4:75:
DUNE_COMMON_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune.m4:275: DUNE_CHECK_MODULES is
expanded from...
/home/arya/workspace/dune-geometry/m4/dune-geometry.m4:15:
DUNE_GEOMETRY_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune_common.m4:1: DUNE_COMMON_CHECKS is
expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune.m4:275: DUNE_CHECK_MODULES is
expanded from...
/home/arya/workspace/dune-common/m4/dune_common.m4:75:
DUNE_COMMON_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
/home/arya/workspace/dune-common/m4/dune.m4:275: DUNE_CHECK_MODULES is
expanded from...
/home/arya/workspace/dune-geometry/m4/dune-geometry.m4:15:
DUNE_GEOMETRY_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
/home/arya/workspace/dune-common/m4/dune_all.m4:9: DUNE_CHECK_ALL is
expanded from...
configure.ac:12: the top level
--> linking dune-common/am...
--> autoheader...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12894: DUNE_COMMON_CHECKS is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12409: DUNE_CHECK_MODULES is expanded from...
aclocal.m4:12968: DUNE_COMMON_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12409: DUNE_CHECK_MODULES is expanded from...
aclocal.m4:10921: DUNE_GEOMETRY_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
--> automake...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12894: DUNE_COMMON_CHECKS is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12409: DUNE_CHECK_MODULES is expanded from...
aclocal.m4:12968: DUNE_COMMON_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12409: DUNE_CHECK_MODULES is expanded from...
aclocal.m4:10921: DUNE_GEOMETRY_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
am/top-rules:22: warning: user target 'distclean-libtool' defined here ...
Makefile.am:31:   'am/top-rules' included from here
/opt/autotools/share/automake-1.13/am/libtool.am: ... overrides Automake
target 'distclean-libtool' defined here
dune/grid/test/Makefile.am:235: warning: testiteratorranges_SOURCES
multiply defined in condition TRUE ...
dune/grid/test/Makefile.am:216: ... 'testiteratorranges_SOURCES' previously
defined here
--> autoconf...
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12894: DUNE_COMMON_CHECKS is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12409: DUNE_CHECK_MODULES is expanded from...
aclocal.m4:12968: DUNE_COMMON_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure.ac:12: warning: PKG_PROG_PKG_CONFIG is m4_require'd but not
m4_defun'd
aclocal.m4:12409: DUNE_CHECK_MODULES is expanded from...
aclocal.m4:10921: DUNE_GEOMETRY_CHECK_MODULE is expanded from...
dependencies.m4:16: DUNE_CHECK_MOD_DEPENDENCIES is expanded from...
aclocal.m4:12671: DUNE_CHECK_ALL is expanded from...
configure.ac:12: the top level
configure:34476: error: possibly undefined macro: AC_DEFINE
      If this token and others are legitimate, please use m4_pattern_allow.
      See the Autoconf documentation.
configure:34482: error: possibly undefined macro: AC_MSG_RESULT
configure:34484: error: possibly undefined macro: AC_MSG_WARN
--- Failed to build dune-grid ---
Terminating dunecontrol due to previous errors!

I think the error maybe due to auto-tools installation. However, the
versions are all newer than the ones written in the dune website (automake
1.13, autoconf 2.69 and libtool 2.4.2). I am trying to install the software
on ubuntu 14.04LTS.

I appreciate if anyone having an idea of the error source helps me with it.

Thank you for your help,
Arya
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <https://lists.dune-project.org/pipermail/dune/attachments/20141009/71b9ef67/attachment.htm>