build.log of dev-lang/R

build.log (text/plain), 44.25 KB, created by Kamil Kuduk on 2011-06-25 22:04:08 UTC

[32;01m * [39;49;00mPackage:    dev-lang/R-2.13.0
[32;01m * [39;49;00mRepository: gentoo
[32;01m * [39;49;00mMaintainer: [e-mail]
[32;01m * [39;49;00mUSE:        X amd64 bash-completion cairo elibc_glibc jpeg kernel_linux lapack multilib nls openmp perl png readline userland_GNU
[32;01m * [39;49;00mFEATURES:   preserve-libs sandbox
>>> Unpacking source...
>>> Unpacking R-2.13.0.tar.gz to /var/tmp/portage/dev-lang/R-2.13.0/work
>>> Unpacking R.bash_completion.bz2 to /var/tmp/portage/dev-lang/R-2.13.0/work
>>> Source unpacked in /var/tmp/portage/dev-lang/R-2.13.0/work
>>> Preparing source in /var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0 ...
 [32;01m*[0m Applying R-2.11.1-parallel.patch ...
[A[162C [34;01m[ [32;01mok[34;01m ][0m
 [32;01m*[0m Applying R-2.12.1-ldflags.patch ...
[A[162C [34;01m[ [32;01mok[34;01m ][0m
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0 ...
 * econf: updating R-2.13.0/tools/config.guess with /usr/share/gnuconfig/config.guess
 * econf: updating R-2.13.0/tools/config.sub with /usr/share/gnuconfig/config.sub
./configure --prefix=/usr --build=x86_64-pc-linux-gnu --host=x86_64-pc-linux-gnu --mandir=/usr/share/man --infodir=/usr/share/info --datadir=/usr/share --sysconfdir=/etc --localstatedir=/var/lib --libdir=/usr/lib64 --enable-R-shlib --with-system-zlib --with-system-bzlib --with-system-pcre --enable-byte-compiled-packages --with-blas=-L/usr/lib64/blas/reference -lblas   --docdir=/usr/share/doc/R-2.13.0 rdocdir=/usr/share/doc/R-2.13.0 --enable-openmp --enable-nls --disable-R-profiling --disable-memory-profiling --disable-static --disable-R-static-lib --with-lapack --without-tcltk --with-jpeglib --with-recommended-packages --with-libpng --with-readline --with-cairo --with-x
checking build system type... x86_64-pc-linux-gnu
checking host system type... x86_64-pc-linux-gnu
loading site script './config.site'
loading build-specific script './config.site'
checking for pwd... /bin/pwd
checking whether builddir is srcdir... yes
checking for working aclocal... found
checking for working autoconf... found
checking for working automake... found
checking for working autoheader... found
checking for gawk... gawk
checking whether ln -s works... yes
checking for bison... bison -y
checking for ar... ar
checking for a BSD-compatible install... /usr/bin/install -c
checking for sed... /bin/sed
checking for which... /usr/bin/which
checking for /usr/bin/less... /usr/bin/less
checking for gtar... no
checking for gnutar... no
checking for tar... /bin/tar
checking for tex... /usr/bin/tex
checking for latex... /usr/bin/latex
checking for pdftex... /usr/bin/pdftex
checking for pdflatex... /usr/bin/pdflatex
checking for makeindex... /usr/bin/makeindex
checking for makeinfo... /usr/bin/makeinfo
checking whether makeinfo version is at least 4.7... yes
checking for install-info... /usr/bin/install-info
checking for texi2dvi... /usr/bin/texi2dvi
checking for unzip... /usr/bin/unzip
checking for zip... /usr/bin/zip
checking for gzip... /bin/gzip
checking for bzip2... /bin/bzip2
using default browser ... /usr/bin/xdg-open
checking for /usr/bin/xdg-open... /usr/bin/xdg-open
checking for notangle... /usr/bin/notangle
checking for pkg-config... /usr/bin/pkg-config
checking for x86_64-pc-linux-gnu-gcc... x86_64-pc-linux-gnu-gcc
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 x86_64-pc-linux-gnu-gcc accepts -g... yes
checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89... none needed
checking how to run the C preprocessor... x86_64-pc-linux-gnu-gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking whether x86_64-pc-linux-gnu-gcc needs -traditional... no
checking how to run the C preprocessor... x86_64-pc-linux-gnu-gcc -E
checking for gfortran... gfortran
checking for x86_64-pc-linux-gnu-g77... (cached) gfortran
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran accepts -g... yes
checking for x86_64-pc-linux-gnu-g++... x86_64-pc-linux-gnu-g++
checking whether we are using the GNU C++ compiler... yes
checking whether x86_64-pc-linux-gnu-g++ accepts -g... yes
checking how to run the C++ preprocessor... x86_64-pc-linux-gnu-g++ -E
checking whether __attribute__((visibility())) is supported... yes
checking whether x86_64-pc-linux-gnu-gcc accepts -fvisibility... yes
checking whether gfortran accepts -fvisibility... yes
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 minix/config.h usability... no
checking minix/config.h presence... no
checking for minix/config.h... no
checking whether it is safe to define __EXTENSIONS__... yes
checking for x86_64-pc-linux-gnu-gcc... x86_64-pc-linux-gnu-gcc
checking whether we are using the GNU Objective C compiler... no
checking whether x86_64-pc-linux-gnu-gcc accepts -g... no
checking for Objective C++ compiler... trying some possibilities
checking whether x86_64-pc-linux-gnu-g++ can compile ObjC++... no
no working compiler found
checking for a sed that does not truncate output... (cached) /bin/sed
checking for fgrep... /bin/grep -F
checking for ld used by x86_64-pc-linux-gnu-gcc... /usr/x86_64-pc-linux-gnu/bin/ld
checking if the linker (/usr/x86_64-pc-linux-gnu/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 the maximum length of command line arguments... 1572864
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking for /usr/x86_64-pc-linux-gnu/bin/ld option to reload object files... -r
checking for x86_64-pc-linux-gnu-objdump... x86_64-pc-linux-gnu-objdump
checking how to recognize dependent libraries... pass_all
checking for x86_64-pc-linux-gnu-ar... (cached) ar
checking for x86_64-pc-linux-gnu-strip... x86_64-pc-linux-gnu-strip
checking for x86_64-pc-linux-gnu-ranlib... x86_64-pc-linux-gnu-ranlib
checking command to parse /usr/bin/nm -B output from x86_64-pc-linux-gnu-gcc object... ok
checking for dlfcn.h... yes
checking whether we are using the GNU C++ compiler... (cached) yes
checking whether x86_64-pc-linux-gnu-g++ accepts -g... (cached) yes
checking how to run the C++ preprocessor... x86_64-pc-linux-gnu-g++ -E
checking for x86_64-pc-linux-gnu-g77... (cached) gfortran
checking whether we are using the GNU Fortran 77 compiler... (cached) yes
checking whether gfortran accepts -g... (cached) yes
checking for objdir... .libs
checking if x86_64-pc-linux-gnu-gcc supports -fno-rtti -fno-exceptions... no
checking for x86_64-pc-linux-gnu-gcc option to produce PIC... -fPIC -DPIC
checking if x86_64-pc-linux-gnu-gcc PIC flag -fPIC -DPIC works... yes
checking if x86_64-pc-linux-gnu-gcc static flag -static works... yes
checking if x86_64-pc-linux-gnu-gcc supports -c -o file.o... yes
checking if x86_64-pc-linux-gnu-gcc supports -c -o file.o... (cached) yes
checking whether the x86_64-pc-linux-gnu-gcc linker (/usr/x86_64-pc-linux-gnu/bin/ld) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
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... yes
checking whether to build static libraries... no
checking for ld used by x86_64-pc-linux-gnu-g++... /usr/x86_64-pc-linux-gnu/bin/ld
checking if the linker (/usr/x86_64-pc-linux-gnu/bin/ld) is GNU ld... yes
checking whether the x86_64-pc-linux-gnu-g++ linker (/usr/x86_64-pc-linux-gnu/bin/ld) supports shared libraries... yes
checking for x86_64-pc-linux-gnu-g++ option to produce PIC... -fPIC -DPIC
checking if x86_64-pc-linux-gnu-g++ PIC flag -fPIC -DPIC works... yes
checking if x86_64-pc-linux-gnu-g++ static flag -static works... yes
checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o... yes
checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o... (cached) yes
checking whether the x86_64-pc-linux-gnu-g++ linker (/usr/x86_64-pc-linux-gnu/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... 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... yes
checking whether to build static libraries... no
checking for gfortran option to produce PIC... -fPIC
checking if gfortran PIC flag -fPIC works... yes
checking if gfortran static flag -static works... yes
checking if gfortran supports -c -o file.o... yes
checking if gfortran supports -c -o file.o... (cached) yes
checking whether the gfortran linker (/usr/x86_64-pc-linux-gnu/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for cos in -lm... yes
checking for sin in -lm... yes
checking for dlopen in -ldl... yes
checking readline/history.h usability... yes
checking readline/history.h presence... yes
checking for readline/history.h... yes
checking readline/readline.h usability... yes
checking readline/readline.h presence... yes
checking for readline/readline.h... yes
checking for rl_callback_read_char in -lreadline... yes
checking for history_truncate_file... yes
checking whether rl_completion_matches exists and is declared... yes
checking for ANSI C header files... (cached) yes
checking whether time.h and sys/time.h may both be included... yes
checking for dirent.h that defines DIR... yes
checking for library containing opendir... none required
checking for sys/wait.h that is POSIX.1 compatible... yes
checking arpa/inet.h usability... yes
checking arpa/inet.h presence... yes
checking for arpa/inet.h... yes
checking dl.h usability... no
checking dl.h presence... no
checking for dl.h... no
checking for dlfcn.h... (cached) yes
checking elf.h usability... yes
checking elf.h presence... yes
checking for elf.h... yes
checking fcntl.h usability... yes
checking fcntl.h presence... yes
checking for fcntl.h... yes
checking floatingpoint.h usability... no
checking floatingpoint.h presence... no
checking for floatingpoint.h... no
checking fpu_control.h usability... yes
checking fpu_control.h presence... yes
checking for fpu_control.h... yes
checking glob.h usability... yes
checking glob.h presence... yes
checking for glob.h... yes
checking grp.h usability... yes
checking grp.h presence... yes
checking for grp.h... yes
checking locale.h usability... yes
checking locale.h presence... yes
checking for locale.h... yes
checking netdb.h usability... yes
checking netdb.h presence... yes
checking for netdb.h... yes
checking netinet/in.h usability... yes
checking netinet/in.h presence... yes
checking for netinet/in.h... yes
checking pwd.h usability... yes
checking pwd.h presence... yes
checking for pwd.h... yes
checking for strings.h... (cached) yes
checking sys/param.h usability... yes
checking sys/param.h presence... yes
checking for sys/param.h... yes
checking sys/select.h usability... yes
checking sys/select.h presence... yes
checking for sys/select.h... yes
checking sys/socket.h usability... yes
checking sys/socket.h presence... yes
checking for sys/socket.h... yes
checking for sys/stat.h... (cached) yes
checking sys/resource.h usability... yes
checking sys/resource.h presence... yes
checking for sys/resource.h... yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking sys/times.h usability... yes
checking sys/times.h presence... yes
checking for sys/times.h... yes
checking sys/utsname.h usability... yes
checking sys/utsname.h presence... yes
checking for sys/utsname.h... yes
checking time.h usability... yes
checking time.h presence... yes
checking for time.h... yes
checking for unistd.h... (cached) yes
checking errno.h usability... yes
checking errno.h presence... yes
checking for errno.h... yes
checking for inttypes.h... (cached) yes
checking limits.h usability... yes
checking limits.h presence... yes
checking for limits.h... yes
checking stdarg.h usability... yes
checking stdarg.h presence... yes
checking for stdarg.h... yes
checking stdbool.h usability... yes
checking stdbool.h presence... yes
checking for stdbool.h... yes
checking for stdint.h... (cached) yes
checking for string.h... (cached) yes
checking whether setjmp.h is POSIX.1 compatible... yes
checking whether sigsetjmp is declared... yes
checking whether siglongjmp is declared... yes
checking for GNU C library with version >= 2... yes
checking return type of signal handlers... void
checking for pid_t... yes
checking for size_t... yes
checking whether SIZE_MAX is declared... yes
checking for blkcnt_t... yes
checking for type of socket length... socklen_t *
checking for stack_t... yes
checking for intptr_t... yes
checking for uintptr_t... yes
checking whether byte ordering is bigendian... no
checking for an ANSI C-conforming const... yes
checking for x86_64-pc-linux-gnu-gcc option to accept ISO C99... -std=gnu99
checking for x86_64-pc-linux-gnu-gcc -std=gnu99 option to accept ISO Standard C... (cached) -std=gnu99
checking for inline... inline
checking size of int... 4
checking size of long... 8
checking size of long long... 8
checking size of double... 8
checking size of long double... 16
checking size of size_t... 8
checking whether we can compute C Make dependencies... yes, using x86_64-pc-linux-gnu-gcc -std=gnu99 -MM
checking whether x86_64-pc-linux-gnu-gcc -std=gnu99 supports -c -o FILE.lo... yes
checking for x86_64-pc-linux-gnu-gcc -std=gnu99 option to support OpenMP... -fopenmp
checking how to get verbose linking output from gfortran... -v
checking for Fortran 77 libraries of gfortran...  -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.2 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.2/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.2/../../.. -lgfortran -lm
checking how to get verbose linking output from x86_64-pc-linux-gnu-gcc -std=gnu99... -v
checking for C libraries of x86_64-pc-linux-gnu-gcc -std=gnu99...  -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.2 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.2/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.2/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.2/../../.. -lgcc_s
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 whether gfortran appends underscores to external names... yes
checking whether gfortran appends extra underscores to external names... no
checking whether mixed C/Fortran code can be run... yes
checking whether gfortran and x86_64-pc-linux-gnu-gcc -std=gnu99 agree on int and double... yes
checking whether gfortran and x86_64-pc-linux-gnu-gcc -std=gnu99 agree on double complex... yes
checking for gfortran option to support OpenMP... -fopenmp
checking whether x86_64-pc-linux-gnu-g++ accepts -M for generating dependencies... yes
checking for x86_64-pc-linux-gnu-g++ option to support OpenMP... -fopenmp
checking whether we can compute ObjC Make dependencies... no
checking for ObjC runtime library... none
checking whether C runtime needs -D__NO_MATH_INLINES... no
checking for xmkmf... no
checking for off_t... yes
checking for working alloca.h... yes
checking for alloca... yes
checking whether alloca is declared... yes
checking whether expm1 exists and is declared... yes
checking whether hypot exists and is declared... yes
checking whether log1p exists and is declared... yes
checking whether log2 exists and is declared... yes
checking whether log10 exists and is declared... yes
checking whether nearbyint exists and is declared... yes
checking whether nearbyintl exists and is declared... yes
checking whether powl exists and is declared... yes
checking whether rint exists and is declared... yes
checking whether rintl exists and is declared... yes
checking whether va_copy exists and is declared... yes
checking for isblank... yes
checking whether time exists and is declared... yes
checking for fseeko... yes
checking for ftello... yes
checking for matherr... yes
checking whether fcntl exists and is declared... yes
checking whether getgrgid exists and is declared... yes
checking whether getpwuid exists and is declared... yes
checking whether sigaction exists and is declared... yes
checking whether sigaltstack exists and is declared... yes
checking whether sigemptyset exists and is declared... yes
checking whether fdopen exists and is declared... yes
checking whether popen exists and is declared... yes
checking whether setenv exists and is declared... yes
checking whether unsetenv exists and is declared... yes
checking whether getrlimit exists and is declared... yes
checking whether getrusage exists and is declared... yes
checking whether chmod exists and is declared... yes
checking whether mkfifo exists and is declared... yes
checking whether stat exists and is declared... yes
checking whether umask exists and is declared... yes
checking whether gettimeofday exists and is declared... yes
checking whether times exists and is declared... yes
checking whether access exists and is declared... yes
checking whether chdir exists and is declared... yes
checking whether execv exists and is declared... yes
checking whether ftruncate exists and is declared... yes
checking whether getcwd exists and is declared... yes
checking whether getuid exists and is declared... yes
checking whether link exists and is declared... yes
checking whether readlink exists and is declared... yes
checking whether symlink exists and is declared... yes
checking whether sysconf exists and is declared... yes
checking for putenv... yes
checking whether putenv is declared... yes
checking for vasprintf... yes
checking whether vasprintf is declared... yes
checking for mempcpy... yes
checking for realpath... yes
checking whether realpath is declared... yes
checking whether glob exists and is declared... yes
checking for isnan... yes
checking whether isfinite is declared... yes
checking whether isnan is declared... yes
checking whether you have IEEE 754 floating-point arithmetic... yes
checking whether putenv("FOO") can unset an environment variable... yes
checking whether putenv("FOO=") can unset an environment variable... no
checking for nl_langinfo and CODESET... yes
checking for acosh... yes
checking for asinh... yes
checking for atanh... yes
checking for mkdtemp... yes
checking for snprintf... yes
checking for strdup... yes
checking for strncasecmp... yes
checking for vsnprintf... yes
checking whether acosh is declared... yes
checking whether asinh is declared... yes
checking whether atanh is declared... yes
checking whether mkdtemp is declared... yes
checking whether snprintf is declared... yes
checking whether strdup is declared... yes
checking whether strncasecmp is declared... yes
checking whether vsnprintf is declared... yes
checking for library containing connect... none required
checking for library containing gethostbyname... none required
checking for library containing xdr_string... no
checking for __setfpucw... no
checking for working calloc... yes
checking for working isfinite... yes
checking for working log1p... yes
checking whether ftell works correctly on files opened for append... yes
checking for working sigaction... yes
checking whether mktime sets errno... no
checking whether C99 double complex is supported... 
checking complex.h usability... yes
checking complex.h presence... yes
checking for complex.h... yes
checking for double complex... yes
yes
checking whether cabs exists and is declared... yes
checking whether carg exists and is declared... yes
checking whether cexp exists and is declared... yes
checking whether clog exists and is declared... yes
checking whether csqrt exists and is declared... yes
checking whether cpow exists and is declared... yes
checking whether ccos exists and is declared... yes
checking whether csin exists and is declared... yes
checking whether ctan exists and is declared... yes
checking whether cacos exists and is declared... yes
checking whether casin exists and is declared... yes
checking whether catan exists and is declared... yes
checking whether ccosh exists and is declared... yes
checking whether csinh exists and is declared... yes
checking whether ctanh exists and is declared... yes
checking for cblas_cdotu_sub in vecLib framework... no
checking for dgemm_ in -L/usr/lib64/blas/reference -lblas  ... yes
checking whether double complex BLAS can be used... yes
checking whether the BLAS is complete... yes
checking for zgeev_... no
checking for zgeev_ in -L/usr/lib64/blas/reference -llapack -lblas  ... yes
checking iconv.h usability... yes
checking iconv.h presence... yes
checking for iconv.h... yes
checking for iconv... yes
checking whether iconv accepts "UTF-8", "latin1", "ASCII" and "UCS-*"... yes
checking for iconvlist... no
checking for iconv... yes
checking for iconv declaration... install-shextern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft);
checking wchar.h usability... yes
checking wchar.h presence... yes
checking for wchar.h... yes
checking wctype.h usability... yes
checking wctype.h presence... yes
checking for wctype.h... yes
checking whether mbrtowc exists and is declared... yes
checking whether wcrtomb exists and is declared... yes
checking whether wcscoll exists and is declared... yes
checking whether wcsftime exists and is declared... yes
checking whether wcstod exists and is declared... yes
checking whether mbstowcs exists and is declared... yes
checking whether wcstombs exists and is declared... yes
checking whether wctrans exists and is declared... yes
checking whether iswblank exists and is declared... yes
checking whether wctype exists and is declared... yes
checking whether iswctype exists and is declared... yes
checking for wctrans_t... yes
checking for mbstate_t... yes
checking for ICU... yes
checking for X... libraries , headers 
checking for gethostbyname... yes
checking for connect... yes
checking for remove... yes
checking for shmat... yes
checking for IceConnectionNumber in -lICE... yes
checking X11/Intrinsic.h usability... yes
checking X11/Intrinsic.h presence... yes
checking for X11/Intrinsic.h... yes
checking for XtToolkitInitialize in -lXt... yes
using X11 ... yes
checking for KeySym... yes
checking X11/Xmu/Atoms.h usability... yes
checking X11/Xmu/Atoms.h presence... yes
checking for X11/Xmu/Atoms.h... yes
checking for XmuInternAtom in -lXmu... yes
checking whether pkg-config knows about cairo and pango... yes
checking whether cairo including pango is >= 1.2 and works... yes
checking for BSD networking... yes
checking if jpeglib version >= 6b... yes
checking for jpeg_destroy_compress in -ljpeg... yes
checking for main in -lz... yes
checking if libpng version >= 1.2.7... yes
checking for png_create_write_struct in -lpng... yes
checking tiffio.h usability... yes
checking tiffio.h presence... yes
checking for tiffio.h... yes
checking for TIFFOpen in -ltiff... yes
checking rpc/types.h usability... no
checking rpc/types.h presence... no
checking for rpc/types.h... no
checking for XDR support... no
checking for gzeof in -lz... yes
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking if zlib version >= 1.2.3... yes
checking whether zlib support needs to be compiled... no
checking for BZ2_bzlibVersion in -lbz2... yes
checking bzlib.h usability... yes
checking bzlib.h presence... yes
checking for bzlib.h... yes
checking if bzip2 version >= 1.0.6... yes
checking whether bzip2 support needs to be compiled... no
checking for lzma_version_number in -llzma... yes
checking lzma.h usability... yes
checking lzma.h presence... yes
checking for lzma.h... yes
checking if lzma version >= 4.999... yes
checking for pcre_fullinfo in -lpcre... yes
checking pcre.h usability... yes
checking pcre.h presence... yes
checking for pcre.h... yes
checking pcre/pcre.h usability... no
checking pcre/pcre.h presence... no
checking for pcre/pcre.h... no
checking if PCRE version >= 7.6... yes
checking whether PCRE support needs to be compiled... no
checking whether leap seconds are treated according to POSIX... yes
checking for special C compiler options needed for large files... no
checking for _FILE_OFFSET_BITS value needed for large files... no
checking for _LARGEFILE_SOURCE value needed for large files... no
checking whether KERN_USRSTACK sysctl is supported... no
checking for visible __lib_stack_end... yes
checking for lpr... lpr
checking for paperconf... /usr/bin/paperconf
checking for java... /etc/java-config-2/current-system-vm/jre/bin/java
checking for javac... /etc/java-config-2/current-system-vm/bin/javac
checking for javah... /etc/java-config-2/current-system-vm/bin/javah
checking for jar... /etc/java-config-2/current-system-vm/bin/jar
checking whether Java compiler works... yes
checking whether Java compiler works for version 1.4... yes
checking whether Java interpreter works... yes
checking Java environment... /etc/java-config-2/current-system-vm
checking for cached Java settings... no
checking whether JNI programs can be compiled... yes
checking for x86_64-pc-linux-gnu-gfortran... x86_64-pc-linux-gnu-gfortran
checking whether we are using the GNU Fortran compiler... yes
checking whether x86_64-pc-linux-gnu-gfortran accepts -g... yes
checking for x86_64-pc-linux-gnu-gfortran... (cached) x86_64-pc-linux-gnu-gfortran
checking whether we are using the GNU Fortran compiler... (cached) yes
checking whether x86_64-pc-linux-gnu-gfortran accepts -g... (cached) yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... no
checking for x86_64-pc-linux-gnu-gfortran option to produce PIC... -fPIC
checking if x86_64-pc-linux-gnu-gfortran PIC flag -fPIC works... yes
checking if x86_64-pc-linux-gnu-gfortran static flag -static works... no
checking if x86_64-pc-linux-gnu-gfortran supports -c -o file.o... yes
checking if x86_64-pc-linux-gnu-gfortran supports -c -o file.o... (cached) yes
checking whether the x86_64-pc-linux-gnu-gfortran linker (/usr/x86_64-pc-linux-gnu/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for Fortran flag to compile .f90 files... none
checking for Fortran flag to compile .f95 files... none
checking for x86_64-pc-linux-gnu-gfortran option to support OpenMP... -fopenmp
checking for recommended packages... yes
checking whether NLS is requested... yes

Configuring src/extra/intl directory
checking whether make sets $(MAKE)... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for msgfmt... /usr/bin/msgfmt
checking for gmsgfmt... /usr/bin/gmsgfmt
checking for xgettext... /usr/bin/xgettext
checking for msgmerge... /usr/bin/msgmerge
checking whether we are using the GNU C Library 2 or newer... yes
checking for x86_64-pc-linux-gnu-ranlib... (cached) x86_64-pc-linux-gnu-ranlib
checking for simple visibility declarations... yes
checking for inline... inline
checking for stdint.h... yes
checking for stdlib.h... (cached) yes
checking for unistd.h... (cached) yes
checking for sys/param.h... (cached) yes
checking for getpagesize... yes
checking for working mmap... yes
checking whether integer division by zero raises SIGFPE... yes
checking for inttypes.h... yes
checking for unsigned long long int... yes
checking for inttypes.h... (cached) yes
checking whether the inttypes.h PRIxNN macros are broken... no
checking whether imported symbols can be declared weak... yes
checking for multithread API to use... none
checking argz.h usability... yes
checking argz.h presence... yes
checking for argz.h... yes
checking for inttypes.h... (cached) yes
checking for limits.h... (cached) yes
checking for unistd.h... (cached) yes
checking for sys/param.h... (cached) yes
checking for getcwd... yes
checking for getegid... yes
checking for geteuid... yes
checking for getgid... yes
checking for getuid... yes
checking for mempcpy... (cached) yes
checking for munmap... yes
checking for stpcpy... yes
checking for strcasecmp... yes
checking for strdup... (cached) yes
checking for strtoul... yes
checking for tsearch... yes
checking for argz_count... yes
checking for argz_stringify... yes
checking for argz_next... yes
checking for __fsetlocking... yes
checking whether feof_unlocked is declared... yes
checking whether fgets_unlocked is declared... yes
checking for iconv... (cached) yes
checking for iconv declaration... (cached) install-shextern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft);
checking for NL_LOCALE_NAME macro... yes
checking for bison... bison
checking version of bison... 2.5, ok
checking for long long int... yes
checking for long double... yes
checking for wchar_t... yes
checking for wint_t... yes
checking for intmax_t... yes
checking whether printf() supports POSIX/XSI format strings... yes
checking whether we are using the GNU C Library 2.1 or newer... yes
checking for stdint.h... (cached) yes
checking for SIZE_MAX... yes
checking for stdint.h... (cached) yes
checking for CFPreferencesCopyAppValue... no
checking for CFLocaleCopyCurrent... no
checking for ptrdiff_t... yes
checking stddef.h usability... yes
checking stddef.h presence... yes
checking for stddef.h... yes
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking for asprintf... yes
checking for fwprintf... yes
checking for putenv... (cached) yes
checking for setenv... yes
checking for setlocale... yes
checking for snprintf... (cached) yes
checking for wcslen... yes
checking whether _snprintf is declared... no
checking whether _snwprintf is declared... no
checking whether getc_unlocked is declared... yes
checking for nl_langinfo and CODESET... (cached) yes
checking for LC_MESSAGES... yes
checking for shared library run path origin... done
checking for CFPreferencesCopyAppValue... (cached) no
checking for CFLocaleCopyCurrent... (cached) no
checking whether included gettext is requested... no
checking for GNU gettext in libc... yes
checking whether to use NLS... yes
checking where the gettext function comes from... libc
Finished configuring src/extra/intl directory

using as R_SHELL for scripts ... /bin/sh
configure: creating ./config.status
config.status: creating Makeconf
config.status: creating Makefile
config.status: creating doc/Makefile
config.status: creating doc/html/Makefile
config.status: creating doc/manual/Makefile
config.status: creating etc/Makefile
config.status: creating etc/Makeconf
config.status: creating etc/Renviron
config.status: creating etc/ldpaths
config.status: creating m4/Makefile
config.status: creating po/Makefile.in
config.status: creating share/Makefile
config.status: creating src/Makefile
config.status: creating src/appl/Makefile
config.status: creating src/extra/Makefile
config.status: creating src/extra/blas/Makefile
config.status: creating src/extra/bzip2/Makefile
config.status: creating src/extra/intl/Makefile
config.status: creating src/extra/pcre/Makefile
config.status: creating src/extra/tre/Makefile
config.status: creating src/extra/xdr/Makefile
config.status: creating src/extra/xz/Makefile
config.status: creating src/extra/zlib/Makefile
config.status: creating src/include/Makefile
config.status: creating src/include/Rmath.h0
config.status: creating src/include/R_ext/Makefile
config.status: creating src/library/Recommended/Makefile
config.status: creating src/library/Makefile
config.status: creating src/library/base/DESCRIPTION
config.status: creating src/library/base/Makefile
config.status: creating src/library/compiler/DESCRIPTION
config.status: creating src/library/compiler/Makefile
config.status: creating src/library/datasets/DESCRIPTION
config.status: creating src/library/datasets/Makefile
config.status: creating src/library/graphics/DESCRIPTION
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config.status: creating src/library/grDevices/DESCRIPTION
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config.status: creating src/library/grid/DESCRIPTION
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config.status: creating src/library/methods/DESCRIPTION
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config.status: creating src/library/profile/Makefile
config.status: creating src/library/stats/DESCRIPTION
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config.status: creating src/library/stats4/DESCRIPTION
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config.status: creating src/library/splines/DESCRIPTION
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config.status: creating src/library/splines/src/Makefile
config.status: creating src/library/tcltk/DESCRIPTION
config.status: creating src/library/tcltk/Makefile
config.status: creating src/library/tcltk/src/Makefile
config.status: creating src/library/tools/DESCRIPTION
config.status: creating src/library/tools/Makefile
config.status: creating src/library/tools/src/Makefile
config.status: creating src/library/utils/DESCRIPTION
config.status: creating src/library/utils/Makefile
config.status: creating src/main/Makefile
config.status: creating src/modules/Makefile
config.status: creating src/modules/X11/Makefile
config.status: creating src/modules/internet/Makefile
config.status: creating src/modules/lapack/Makefile
config.status: creating src/modules/vfonts/Makefile
config.status: creating src/nmath/Makefile
config.status: creating src/nmath/standalone/Makefile
config.status: creating src/scripts/Makefile
config.status: creating src/scripts/R.sh
config.status: creating src/scripts/Rcmd
config.status: creating src/scripts/f77_f2c
config.status: creating src/scripts/mkinstalldirs
config.status: creating src/scripts/pager
config.status: creating src/unix/Makefile
config.status: creating tests/Makefile
config.status: creating tests/Embedding/Makefile
config.status: creating tests/Examples/Makefile
config.status: creating tests/Native/Makefile
config.status: creating tools/Makefile
config.status: creating src/include/config.h
config.status: executing libtool commands
config.status: executing po-directories commands
config.status: creating po/POTFILES
config.status: creating po/Makefile
config.status: executing stamp-h commands

R is now configured for x86_64-pc-linux-gnu

  Source directory:          .
  Installation directory:    /usr

  C compiler:                x86_64-pc-linux-gnu-gcc -std=gnu99  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer
  Fortran 77 compiler:       gfortran  

  C++ compiler:              x86_64-pc-linux-gnu-g++  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer
  Fortran 90/95 compiler:    x86_64-pc-linux-gnu-gfortran 
  Obj-C compiler:	     x86_64-pc-linux-gnu-gcc 

  Interfaces supported:      X11
  External libraries:        readline, BLAS(generic), LAPACK(generic), ICU, lzma
  Additional capabilities:   PNG, JPEG, TIFF, NLS, cairo
  Options enabled:           shared R library, Java

  Recommended packages:      yes

>>> Source configured.
>>> Compiling source in /var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0 ...
make -j4 
make[1]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/m4'
make[1]: Nie ma nic do zrobienia w `R'.
make[1]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/m4'
make[1]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/tools'
make[1]: Nie ma nic do zrobienia w `R'.
make[1]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/tools'
make[1]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/doc'
make[2]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/doc/html'
make[2]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/doc/html'
make[2]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/doc/manual'
make[2]: Nie ma nic do zrobienia w `R'.
make[2]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/doc/manual'
make[1]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/doc'
make[1]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/etc'
make[1]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/etc'
make[1]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/share'
make[1]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/share'
make[1]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src'
make[2]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/scripts'
creating src/scripts/R.fe
make[3]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/scripts'
mkdir -p -- ../../bin
make[3]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/scripts'
make[2]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/scripts'
make[2]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/include'
mkdir -p -- ../../include
make[3]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/include/R_ext'
mkdir -p -- ../../../include/R_ext
make[3]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/include/R_ext'
make[2]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/include'
make[2]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/extra'
make[3]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/extra/tre'
make[3]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/extra/xdr'
making xdr.d from xdr.c
make[4]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/extra/tre'
making xdr_float.d from xdr_float.c
making regcomp.d from regcomp.c
making regerror.d from regerror.c
making xdr_mem.d from xdr_mem.c
making regexec.d from regexec.c
making xdr_stdio.d from xdr_stdio.c
making tre-ast.d from tre-ast.c
xdr_mem.c:14:2: error: #error This XDR implementation assumes 4-byte longs
make[3]: *** [xdr_mem.d] Błąd 1
make[3]: *** Oczekiwanie na niezakończone zadania....
making tre-compile.d from tre-compile.c
xdr_stdio.c:6:2: error: #error This XDR implementation assumes 4-byte longs
make[3]: *** [xdr_stdio.d] Błąd 1
make[3]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/extra/xdr'
make[2]: *** [make.xdr] Błąd 2
make[2]: *** Oczekiwanie na niezakończone zadania....
making tre-match-approx.d from tre-match-approx.c
making tre-match-backtrack.d from tre-match-backtrack.c
making tre-match-parallel.d from tre-match-parallel.c
making tre-mem.d from tre-mem.c
making tre-parse.d from tre-parse.c
making tre-stack.d from tre-stack.c
making xmalloc.d from xmalloc.c
make[4]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/extra/tre'
make[4]: Wejście do katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/extra/tre'
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c regcomp.c -o regcomp.o
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c regerror.c -o regerror.o
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c regexec.c -o regexec.o
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c tre-ast.c -o tre-ast.o
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c tre-compile.c -o tre-compile.o
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c tre-match-approx.c -o tre-match-approx.o
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c tre-match-backtrack.c -o tre-match-backtrack.o
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c tre-match-parallel.c -o tre-match-parallel.o
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c tre-mem.c -o tre-mem.o
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c tre-parse.c -o tre-parse.o
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c tre-stack.c -o tre-stack.o
x86_64-pc-linux-gnu-gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H   -fopenmp -fpic  -march=native -O2 -floop-interchange -floop-strip-mine -floop-block -pipe -ftree-vectorize -fomit-frame-pointer -fvisibility=hidden -c xmalloc.c -o xmalloc.o
rm -f libtre.a
ar cr libtre.a regcomp.o regerror.o regexec.o tre-ast.o tre-compile.o tre-match-approx.o tre-match-backtrack.o tre-match-parallel.o tre-mem.o tre-parse.o tre-stack.o xmalloc.o
x86_64-pc-linux-gnu-ranlib libtre.a
make[4]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/extra/tre'
make[3]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/extra/tre'
make[2]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src/extra'
make[1]: *** [R] Błąd 1
make[1]: Opuszczenie katalogu `/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0/src'
make: *** [R] Błąd 1
 [31;01m*[0m ERROR: dev-lang/R-2.13.0 failed (compile phase):
 [31;01m*[0m   emake failed
 [31;01m*[0m 
 [31;01m*[0m If you need support, post the output of 'emerge --info =dev-lang/R-2.13.0',
 [31;01m*[0m the complete build log and the output of 'emerge -pqv =dev-lang/R-2.13.0'.
 [31;01m*[0m The complete build log is located at '/var/tmp/portage/dev-lang/R-2.13.0/temp/build.log'.
 [31;01m*[0m The ebuild environment file is located at '/var/tmp/portage/dev-lang/R-2.13.0/temp/environment'.
 [31;01m*[0m S: '/var/tmp/portage/dev-lang/R-2.13.0/work/R-2.13.0'