Build log

yass-1.14:20100621-064830.log (text/plain), 19.99 KB, created by Diego Elio Pettenò (RETIRED) on 2010-06-21 14:08:25 UTC

 * CPV:  sci-biology/yass-1.14
 * REPO: gentoo
 * USE:  elibc_glibc kernel_linux test userland_GNU x86
>>> Unpacking source...
>>> Unpacking yass-1.14.tar.gz to /var/tmp/portage/sci-biology/yass-1.14/work
>>> Source unpacked in /var/tmp/portage/sci-biology/yass-1.14/work
>>> Preparing source in /var/tmp/portage/sci-biology/yass-1.14/work/yass-1.14 ...
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-biology/yass-1.14/work/yass-1.14 ...
 * econf: updating yass-1.14/build/config.sub with /usr/share/gnuconfig/config.sub
 * econf: updating yass-1.14/build/config.guess with /usr/share/gnuconfig/config.guess
./configure --prefix=/usr --build=i686-pc-linux-gnu --host=i686-pc-linux-gnu --mandir=/usr/share/man --infodir=/usr/share/info --datadir=/usr/share --sysconfdir=/etc --localstatedir=/var/lib
configure: loading site script /usr/share/config.site
configure: loading site script /usr/share/crossdev/include/site/linux
checking build system type... i686-pc-linux-gnu
checking host system type... i686-pc-linux-gnu
checking target system type... i686-pc-linux-gnu
checking whether make sets $(MAKE)... yes
checking for i686-pc-linux-gnu-gcc... i686-pc-linux-gnu-gcc
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 i686-pc-linux-gnu-gcc accepts -g... yes
checking for i686-pc-linux-gnu-gcc option to accept ISO C89... none needed
checking for a BSD-compatible install... /usr/bin/install -c
checking how to run the C preprocessor... i686-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 whether time.h and sys/time.h may both be included... 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 stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking assert.h usability... yes
checking assert.h presence... yes
checking for assert.h... yes
checking math.h usability... yes
checking math.h presence... yes
checking for math.h... yes
checking errno.h usability... yes
checking errno.h presence... yes
checking for errno.h... yes
checking for inline... inline
checking for error_at_line... yes
checking for stdlib.h... (cached) yes
checking for GNU libc compatible malloc... yes
checking for working strtod... yes
checking for floor... no
checking for memset... yes
checking for clock... yes
checking for pow... no
checking for sqrt... no
checking for strchr... yes
checking for strdup... yes
checking for strtol... yes
checking for strtoul... yes
detected memory parameter : plain memory
checking if malloc debugging is wanted... no
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... gawk
checking for style of include used by make... GNU
checking dependency style of i686-pc-linux-gnu-gcc... gcc3
configure: creating ./config.status
config.status: creating Makefile
config.status: creating doc/Makefile
config.status: creating src/Makefile
config.status: executing depfiles commands
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-biology/yass-1.14/work/yass-1.14 ...
make -j14 
Making all in src
make[1]: Entering directory `/var/tmp/portage/sci-biology/yass-1.14/work/yass-1.14/src'
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT align.o -MD -MP -MF .deps/align.Tpo -c -o align.o align.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT assemble.o -MD -MP -MF .deps/assemble.Tpo -c -o assemble.o assemble.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT avl.o -MD -MP -MF .deps/avl.Tpo -c -o avl.o avl.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT display.o -MD -MP -MF .deps/display.Tpo -c -o display.o display.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT global_var.o -MD -MP -MF .deps/global_var.Tpo -c -o global_var.o global_var.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT hash.o -MD -MP -MF .deps/hash.Tpo -c -o hash.o hash.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT kword.o -MD -MP -MF .deps/kword.Tpo -c -o kword.o kword.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT list.o -MD -MP -MF .deps/list.Tpo -c -o list.o list.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o main.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT prdyn.o -MD -MP -MF .deps/prdyn.Tpo -c -o prdyn.o prdyn.c
align.c: In function ‘AlignTuples’:
align.c:307:6: warning: ISO C90 forbids mixed declarations and code
mv -f .deps/global_var.Tpo .deps/global_var.Po
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT proba.o -MD -MP -MF .deps/proba.Tpo -c -o proba.o proba.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT red_black.o -MD -MP -MF .deps/red_black.Tpo -c -o red_black.o red_black.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT regroup.o -MD -MP -MF .deps/regroup.Tpo -c -o regroup.o regroup.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT threads.o -MD -MP -MF .deps/threads.Tpo -c -o threads.o threads.c
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT tuple.o -MD -MP -MF .deps/tuple.Tpo -c -o tuple.o tuple.c
mv -f .deps/threads.Tpo .deps/threads.Po
i686-pc-linux-gnu-gcc -DPACKAGE_NAME=\"yass\" -DPACKAGE_TARNAME=\"yass\" -DPACKAGE_VERSION=\"1.14\" -DPACKAGE_STRING=\"yass\ 1.14\" -DPACKAGE_BUGREPORT=\"[e-mail]\" -DPACKAGE_URL=\"\" -DSTDC_HEADERS=1 -DTIME_WITH_SYS_TIME=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_ASSERT_H=1 -DHAVE_MATH_H=1 -DHAVE_ERRNO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_MEMSET=1 -DHAVE_CLOCK=1 -DHAVE_STRCHR=1 -DHAVE_STRDUP=1 -DHAVE_STRTOL=1 -DHAVE_STRTOUL=1 -DPACKAGE=\"yass\" -DVERSION=\"1.14\" -I.     -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer  -MT util.o -MD -MP -MF .deps/util.Tpo -c -o util.o util.c
mv -f .deps/list.Tpo .deps/list.Po
mv -f .deps/hash.Tpo .deps/hash.Po
mv -f .deps/display.Tpo .deps/display.Po
mv -f .deps/avl.Tpo .deps/avl.Po
mv -f .deps/red_black.Tpo .deps/red_black.Po
mv -f .deps/regroup.Tpo .deps/regroup.Po
mv -f .deps/util.Tpo .deps/util.Po
mv -f .deps/align.Tpo .deps/align.Po
mv -f .deps/kword.Tpo .deps/kword.Po
mv -f .deps/tuple.Tpo .deps/tuple.Po
mv -f .deps/main.Tpo .deps/main.Po
mv -f .deps/assemble.Tpo .deps/assemble.Po
mv -f .deps/proba.Tpo .deps/proba.Po
mv -f .deps/prdyn.Tpo .deps/prdyn.Po
i686-pc-linux-gnu-gcc  -O2 -pipe -O3 -Wall -ansi -pedantic -funroll-loops -pipe -fomit-frame-pointer   -Wl,-O1 -lm -o yass align.o assemble.o avl.o display.o global_var.o hash.o kword.o list.o main.o prdyn.o proba.o red_black.o regroup.o threads.o tuple.o util.o  
kword.o: In function `CreateKeyList':
kword.c:(.text+0x1cec): undefined reference to `sqrt'
kword.c:(.text+0x1d3a): undefined reference to `sqrt'
kword.c:(.text+0x1d88): undefined reference to `sqrt'
kword.c:(.text+0x1dd7): undefined reference to `sqrt'
kword.o: In function `Entropy':
kword.c:(.text+0x2c6b): undefined reference to `log'
kword.c:(.text+0x2d14): undefined reference to `log'
kword.c:(.text+0x2d58): undefined reference to `log'
kword.c:(.text+0x2d9c): undefined reference to `log'
kword.c:(.text+0x2de0): undefined reference to `log'
kword.o:kword.c:(.text+0x2e24): more undefined references to `log' follow
proba.o: In function `statistical_bound_of_randomwalk1':
proba.c:(.text+0x134c): undefined reference to `pow'
proba.o: In function `Evalue':
proba.c:(.text+0x15ab): undefined reference to `exp'
proba.o: In function `BitScore':
proba.c:(.text+0x15e3): undefined reference to `log'
proba.o: In function `MinScore':
proba.c:(.text+0x1635): undefined reference to `log'
proba.c:(.text+0x1645): undefined reference to `log'
proba.c:(.text+0x165b): undefined reference to `floor'
proba.o: In function `computeLambda':
proba.c:(.text+0x218b): undefined reference to `exp'
proba.c:(.text+0x21c0): undefined reference to `exp'
proba.c:(.text+0x21eb): undefined reference to `exp'
proba.c:(.text+0x221e): undefined reference to `exp'
proba.c:(.text+0x2249): undefined reference to `exp'
proba.o:proba.c:(.text+0x227e): more undefined references to `exp' follow
proba.o: In function `entropyTriplet':
proba.c:(.text+0x3c0e): undefined reference to `log'
proba.c:(.text+0x3c4d): undefined reference to `log'
proba.c:(.text+0x3c8d): undefined reference to `log'
proba.c:(.text+0x3ccd): undefined reference to `log'
proba.c:(.text+0x3d0d): undefined reference to `log'
proba.o:proba.c:(.text+0x3d4d): more undefined references to `log' follow
collect2: ld returned 1 exit status
make[1]: *** [yass] Error 1
make[1]: Leaving directory `/var/tmp/portage/sci-biology/yass-1.14/work/yass-1.14/src'
make: *** [all-recursive] Error 1
 * ERROR: sci-biology/yass-1.14 failed:
 *   emake failed
 * 
 * Call stack:
 *     ebuild.sh, line  54:  Called src_compile
 *   environment, line 327:  Called _eapi2_src_compile
 *     ebuild.sh, line 646:  Called die
 * The specific snippet of code:
 *   		emake || die "emake failed"
 * 
 * If you need support, post the output of 'emerge --info =sci-biology/yass-1.14',
 * the complete build log and the output of 'emerge -pqv =sci-biology/yass-1.14'.
 * The complete build log is located at '/var/log/portage/build/sci-biology/yass-1.14:20100621-064830.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-biology/yass-1.14/temp/environment'.
 * S: '/var/tmp/portage/sci-biology/yass-1.14/work/yass-1.14'