* CPV: sci-biology/vaal-1.2-r1 * REPO: gentoo * USE: amd64 elibc_glibc kernel_linux multilib userland_GNU >>> Unpacking source... >>> Unpacking VAAL.1.2.tgz to /var/tmp/portage/sci-biology/vaal-1.2-r1/work >>> Unpacking VAAL_manual.doc to /var/tmp/portage/sci-biology/vaal-1.2-r1/work unpack VAAL_manual.doc: file format not recognized. Ignoring. >>> Source unpacked in /var/tmp/portage/sci-biology/vaal-1.2-r1/work >>> Preparing source in /var/tmp/portage/sci-biology/vaal-1.2-r1/work/VAAL ... * Applying vaal-1.2-gcc-x86-no-autocast.patch ...  [ ok ] * Applying vaal-1.2-as-needed.patch ...  [ ok ] * Applying vaal-1.2-respect-flags.patch ...  [ ok ] >>> Source prepared. >>> Configuring source in /var/tmp/portage/sci-biology/vaal-1.2-r1/work/VAAL ... ./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 checking for gawk... gawk checking for a sed that does not truncate output... /bin/sed checking for bison... bison -y checking for x86_64-pc-linux-gnu-g++... x86_64-pc-linux-gnu-g++ checking for C++ compiler default output file name... a.out checking whether the C++ compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether x86_64-pc-linux-gnu-g++ accepts -g... yes checking for x86_64-pc-linux-gnu-gcc... x86_64-pc-linux-gnu-gcc 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 for flex... flex checking lex output file root... lex.yy checking lex library... -lfl checking whether yytext is a pointer... yes checking whether ln -s works... yes checking whether make sets $(MAKE)... yes checking to see if we need to include the Boost libraries... yes checking to see if we need to include the Xerces libraries... no checking to see if we need to include the GMP libraries... no checking for dirent.h that defines DIR... yes checking for library containing opendir... none required 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 for ANSI C header files... yes checking for sys/wait.h that is POSIX.1 compatible... 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 fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking float.h usability... yes checking float.h presence... yes checking for float.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking locale.h usability... yes checking locale.h presence... yes checking for locale.h... yes checking for memory.h... (cached) yes checking netinet/in.h usability... yes checking netinet/in.h presence... yes checking for netinet/in.h... 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 strings.h... (cached) yes checking sys/file.h usability... yes checking sys/file.h presence... yes checking for sys/file.h... yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking for unistd.h... (cached) yes checking wchar.h usability... yes checking wchar.h presence... yes checking for wchar.h... yes configure: VENDOR wasn't set, setting to a default checking for getline in -lm... yes checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for mode_t... yes checking for off_t... yes checking for pid_t... yes checking for C/C++ restrict keyword... __restrict checking for size_t... yes checking for ssize_t... yes checking whether time.h and sys/time.h may both be included... yes checking whether struct tm is in sys/time.h or time.h... time.h checking for uint16_t... yes checking for uint32_t... yes checking for uint64_t... yes checking for uint8_t... yes checking for working volatile... yes checking for ptrdiff_t... yes checking for ulong... yes checking whether closedir returns void... no checking for error_at_line... yes checking vfork.h usability... no checking vfork.h presence... no checking for vfork.h... no checking for fork... yes checking for vfork... yes checking for working fork... yes checking for working vfork... (cached) yes checking whether x86_64-pc-linux-gnu-gcc needs -traditional... no checking whether lstat dereferences a symlink specified with a trailing slash... yes checking whether lstat accepts an empty string... no checking whether lstat dereferences a symlink specified with a trailing slash... (cached) yes checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for working memcmp... yes checking for stdlib.h... (cached) yes checking for unistd.h... (cached) yes checking for getpagesize... yes checking for working mmap... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... 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 types of arguments for select... int,fd_set *,struct timeval * checking return type of signal handlers... void checking whether stat accepts an empty string... no checking for strftime... yes checking for alarm... yes checking for atexit... yes checking for bzero... yes checking for dup2... yes checking for floor... no checking for ftruncate... yes checking for getcwd... yes checking for gethostname... yes checking for getpagesize... (cached) yes checking for gettimeofday... yes checking for memchr... yes checking for memmove... yes checking for memset... yes checking for mkdir... yes checking for mkfifo... yes checking for munmap... yes checking for pow... no checking for putenv... yes checking for realpath... yes checking for regcomp... yes checking for rint... no checking for rmdir... yes checking for select... yes checking for setenv... yes checking for setlocale... yes checking for sqrt... no checking for strcasecmp... yes checking for strchr... yes checking for strdup... yes checking for strerror... yes checking for strncasecmp... yes checking for strrchr... yes checking for strstr... yes checking for strtol... yes checking for strtoul... yes checking for uname... yes checking to see that gcc is at least version 4.3.2... Yes, gcc version 4.4.3 is fine checking for boostlib >= 1.37.0... yes found boost version checking for boost library name... Failed... configure: Configure failed with the error message: Failed to resolve boost library name configure: configure: Common error conditions in the build process are documented on our wiki page, configure: http://www.broad.mit.edu/crd/wiki/index.php/Build_FAQ configure: We also offer email support at crdhelp@broad.mit.edu configure: error: in `/var/tmp/portage/sci-biology/vaal-1.2-r1/work/VAAL': configure: error: configure failed. See `config.log' for more details. !!! Please attach the following file when seeking support: !!! /var/tmp/portage/sci-biology/vaal-1.2-r1/work/VAAL/config.log * ERROR: sci-biology/vaal-1.2-r1 failed: * econf failed * * Call stack: * ebuild.sh, line 54: Called src_configure * environment, line 2436: Called base_src_configure * environment, line 239: Called econf * ebuild.sh, line 544: Called die * The specific snippet of code: * die "econf failed" * * If you need support, post the output of 'emerge --info =sci-biology/vaal-1.2-r1', * the complete build log and the output of 'emerge -pqv =sci-biology/vaal-1.2-r1'. * The complete build log is located at '/var/tmp/portage/sci-biology/vaal-1.2-r1/temp/build.log'. * The ebuild environment file is located at '/var/tmp/portage/sci-biology/vaal-1.2-r1/temp/environment'. * S: '/var/tmp/portage/sci-biology/vaal-1.2-r1/work/VAAL'