Build log

ssm-1.1:20110723-155636.log (text/plain), 21.61 KB, created by Diego Elio Pettenò (RETIRED) on 2011-07-23 17:22:14 UTC

 * Package:    sci-libs/ssm-1.1
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        elibc_glibc kernel_linux test userland_GNU x86
 * FEATURES:   sandbox test userpriv usersandbox
>>> Unpacking source...
>>> Unpacking ssm-1.1.tar.gz to /var/tmp/portage/sci-libs/ssm-1.1/work
>>> Source unpacked in /var/tmp/portage/sci-libs/ssm-1.1/work
>>> Preparing source in /var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1 ...
 * Applying ssm-1.1-mmdb.patch ...
 [ ok ]
 * Applying ssm-1.1-pc.patch ...
 [ ok ]
 * Running eautoreconf in '/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1' ...
 * Running aclocal -I config ...
 [ ok ]
 * Running libtoolize --copy --force --install --automake ...
 [ ok ]
 * Running aclocal -I config ...
 [ ok ]
 * Running autoconf ...
 [ ok ]
 * Running automake --add-missing --copy ...
 [ ok ]
 * Running elibtoolize in: ssm-1.1/config/
 *   Applying portage-1.2.0.patch ...
 *   Applying sed-1.5.6.patch ...
 *   Applying as-needed-2.2.6.patch ...
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1 ...
 * econf: updating ssm-1.1/config/config.sub with /usr/share/gnuconfig/config.sub
 * econf: updating ssm-1.1/config/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 --disable-dependency-tracking --disable-static
configure: loading site script /usr/share/config.site
configure: loading site script /usr/share/crossdev/include/site/linux
configure: loading site script /usr/share/crossdev/include/site/i686-linux-gnu
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... gawk
checking whether make sets $(MAKE)... yes
checking for i686-pc-linux-gnu-gcc... i686-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 i686-pc-linux-gnu-gcc accepts -g... yes
checking for i686-pc-linux-gnu-gcc option to accept ISO C89... none needed
checking for style of include used by make... GNU
checking dependency style of i686-pc-linux-gnu-gcc... none
checking for i686-pc-linux-gnu-g++... i686-pc-linux-gnu-g++
checking whether we are using the GNU C++ compiler... yes
checking whether i686-pc-linux-gnu-g++ accepts -g... yes
checking dependency style of i686-pc-linux-gnu-g++... none
checking build system type... i686-pc-linux-gnu
checking host system type... i686-pc-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 i686-pc-linux-gnu-gcc... /usr/i686-pc-linux-gnu/bin/ld
checking if the linker (/usr/i686-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 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 i686-pc-linux-gnu file names to i686-pc-linux-gnu format... func_convert_file_noop
checking how to convert i686-pc-linux-gnu file names to toolchain format... func_convert_file_noop
checking for /usr/i686-pc-linux-gnu/bin/ld option to reload object files... -r
checking for i686-pc-linux-gnu-objdump... i686-pc-linux-gnu-objdump
checking how to recognize dependent libraries... pass_all
checking for i686-pc-linux-gnu-dlltool... no
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for i686-pc-linux-gnu-ar... i686-pc-linux-gnu-ar
checking for archiver @FILE support... @
checking for i686-pc-linux-gnu-strip... i686-pc-linux-gnu-strip
checking for i686-pc-linux-gnu-ranlib... i686-pc-linux-gnu-ranlib
checking command to parse /usr/bin/nm -B output from i686-pc-linux-gnu-gcc object... ok
checking for sysroot... no
checking for i686-pc-linux-gnu-mt... no
checking for mt... mt
checking if mt is a manifest tool... no
checking how to run the C preprocessor... i686-pc-linux-gnu-gcc -E
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 i686-pc-linux-gnu-gcc supports -fno-rtti -fno-exceptions... no
checking for i686-pc-linux-gnu-gcc option to produce PIC... -fPIC -DPIC
checking if i686-pc-linux-gnu-gcc PIC flag -fPIC -DPIC works... yes
checking if i686-pc-linux-gnu-gcc static flag -static works... yes
checking if i686-pc-linux-gnu-gcc supports -c -o file.o... yes
checking if i686-pc-linux-gnu-gcc supports -c -o file.o... (cached) yes
checking whether the i686-pc-linux-gnu-gcc linker (/usr/i686-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 how to run the C++ preprocessor... i686-pc-linux-gnu-g++ -E
checking for ld used by i686-pc-linux-gnu-g++... /usr/i686-pc-linux-gnu/bin/ld
checking if the linker (/usr/i686-pc-linux-gnu/bin/ld) is GNU ld... yes
checking whether the i686-pc-linux-gnu-g++ linker (/usr/i686-pc-linux-gnu/bin/ld) supports shared libraries... yes
checking for i686-pc-linux-gnu-g++ option to produce PIC... -fPIC -DPIC
checking if i686-pc-linux-gnu-g++ PIC flag -fPIC -DPIC works... yes
checking if i686-pc-linux-gnu-g++ static flag -static works... yes
checking if i686-pc-linux-gnu-g++ supports -c -o file.o... yes
checking if i686-pc-linux-gnu-g++ supports -c -o file.o... (cached) yes
checking whether the i686-pc-linux-gnu-g++ linker (/usr/i686-pc-linux-gnu/bin/ld) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking whether struct tm is in sys/time.h or time.h... time.h
checking for i686-pc-linux-gnu-pkg-config... no
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for MMDB... yes
checking for working strtod... yes
checking for floor... no
checking for sqrt... no
checking for strcasecmp... yes
checking for strchr... yes
checking for strrchr... yes
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating test/Makefile
config.status: creating ssm.pc
config.status: creating ssm.spec
config.status: creating ssm.info
config.status: executing depfiles commands
config.status: executing libtool commands
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1 ...
make -j14 
Making all in src
make[1]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/src'
/bin/sh ../libtool --tag=CXX   --mode=compile i686-pc-linux-gnu-g++ -DPACKAGE_NAME=\"ssm\" -DPACKAGE_TARNAME=\"ssm\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"ssm\ 1.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ssm\" -DVERSION=\"1.1\" -DSTDC_HEADERS=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_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRCASECMP=1 -DHAVE_STRCHR=1 -DHAVE_STRRCHR=1 -DSSM_PREFIX=\"/usr\" -I.  -I/usr/include/mmdb     -O2 -pipe -c -o ss_csia.lo ss_csia.cpp
/bin/sh ../libtool --tag=CXX   --mode=compile i686-pc-linux-gnu-g++ -DPACKAGE_NAME=\"ssm\" -DPACKAGE_TARNAME=\"ssm\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"ssm\ 1.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ssm\" -DVERSION=\"1.1\" -DSTDC_HEADERS=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_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRCASECMP=1 -DHAVE_STRCHR=1 -DHAVE_STRRCHR=1 -DSSM_PREFIX=\"/usr\" -I.  -I/usr/include/mmdb     -O2 -pipe -c -o ssm_align.lo ssm_align.cpp
/bin/sh ../libtool --tag=CXX   --mode=compile i686-pc-linux-gnu-g++ -DPACKAGE_NAME=\"ssm\" -DPACKAGE_TARNAME=\"ssm\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"ssm\ 1.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ssm\" -DVERSION=\"1.1\" -DSTDC_HEADERS=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_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRCASECMP=1 -DHAVE_STRCHR=1 -DHAVE_STRRCHR=1 -DSSM_PREFIX=\"/usr\" -I.  -I/usr/include/mmdb     -O2 -pipe -c -o ss_vxedge.lo ss_vxedge.cpp
/bin/sh ../libtool --tag=CXX   --mode=compile i686-pc-linux-gnu-g++ -DPACKAGE_NAME=\"ssm\" -DPACKAGE_TARNAME=\"ssm\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"ssm\ 1.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ssm\" -DVERSION=\"1.1\" -DSTDC_HEADERS=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_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRCASECMP=1 -DHAVE_STRCHR=1 -DHAVE_STRRCHR=1 -DSSM_PREFIX=\"/usr\" -I.  -I/usr/include/mmdb     -O2 -pipe -c -o ss_graph.lo ss_graph.cpp
/bin/sh ../libtool --tag=CXX   --mode=compile i686-pc-linux-gnu-g++ -DPACKAGE_NAME=\"ssm\" -DPACKAGE_TARNAME=\"ssm\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"ssm\ 1.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ssm\" -DVERSION=\"1.1\" -DSTDC_HEADERS=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_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRCASECMP=1 -DHAVE_STRCHR=1 -DHAVE_STRRCHR=1 -DSSM_PREFIX=\"/usr\" -I.  -I/usr/include/mmdb     -O2 -pipe -c -o ssm_superpose.lo ssm_superpose.cpp
libtool: compile:  i686-pc-linux-gnu-g++ -DPACKAGE_NAME=\"ssm\" -DPACKAGE_TARNAME=\"ssm\" -DPACKAGE_VERSION=\"1.1\" "-DPACKAGE_STRING=\"ssm 1.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ssm\" -DVERSION=\"1.1\" -DSTDC_HEADERS=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_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRCASECMP=1 -DHAVE_STRCHR=1 -DHAVE_STRRCHR=1 -DSSM_PREFIX=\"/usr\" -I. -I/usr/include/mmdb -O2 -pipe -c ssm_align.cpp  -fPIC -DPIC -o .libs/ssm_align.o
libtool: compile:  i686-pc-linux-gnu-g++ -DPACKAGE_NAME=\"ssm\" -DPACKAGE_TARNAME=\"ssm\" -DPACKAGE_VERSION=\"1.1\" "-DPACKAGE_STRING=\"ssm 1.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ssm\" -DVERSION=\"1.1\" -DSTDC_HEADERS=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_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRCASECMP=1 -DHAVE_STRCHR=1 -DHAVE_STRRCHR=1 -DSSM_PREFIX=\"/usr\" -I. -I/usr/include/mmdb -O2 -pipe -c ssm_superpose.cpp  -fPIC -DPIC -o .libs/ssm_superpose.o
libtool: compile:  i686-pc-linux-gnu-g++ -DPACKAGE_NAME=\"ssm\" -DPACKAGE_TARNAME=\"ssm\" -DPACKAGE_VERSION=\"1.1\" "-DPACKAGE_STRING=\"ssm 1.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ssm\" -DVERSION=\"1.1\" -DSTDC_HEADERS=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_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRCASECMP=1 -DHAVE_STRCHR=1 -DHAVE_STRRCHR=1 -DSSM_PREFIX=\"/usr\" -I. -I/usr/include/mmdb -O2 -pipe -c ss_csia.cpp  -fPIC -DPIC -o .libs/ss_csia.o
libtool: compile:  i686-pc-linux-gnu-g++ -DPACKAGE_NAME=\"ssm\" -DPACKAGE_TARNAME=\"ssm\" -DPACKAGE_VERSION=\"1.1\" "-DPACKAGE_STRING=\"ssm 1.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ssm\" -DVERSION=\"1.1\" -DSTDC_HEADERS=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_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRCASECMP=1 -DHAVE_STRCHR=1 -DHAVE_STRRCHR=1 -DSSM_PREFIX=\"/usr\" -I. -I/usr/include/mmdb -O2 -pipe -c ss_graph.cpp  -fPIC -DPIC -o .libs/ss_graph.o
libtool: compile:  i686-pc-linux-gnu-g++ -DPACKAGE_NAME=\"ssm\" -DPACKAGE_TARNAME=\"ssm\" -DPACKAGE_VERSION=\"1.1\" "-DPACKAGE_STRING=\"ssm 1.1\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ssm\" -DVERSION=\"1.1\" -DSTDC_HEADERS=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_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRCASECMP=1 -DHAVE_STRCHR=1 -DHAVE_STRRCHR=1 -DSSM_PREFIX=\"/usr\" -I. -I/usr/include/mmdb -O2 -pipe -c ss_vxedge.cpp  -fPIC -DPIC -o .libs/ss_vxedge.o
/bin/sh ../libtool --tag=CXX   --mode=link i686-pc-linux-gnu-g++  -O2 -pipe  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libssm.la -rpath /usr/lib ss_csia.lo ssm_align.lo ss_vxedge.lo ss_graph.lo ssm_superpose.lo  -lmmdb  
libtool: link: i686-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/i686-pc-linux-gnu/4.6.0/../../../crti.o /usr/lib/gcc/i686-pc-linux-gnu/4.6.0/crtbeginS.o  .libs/ss_csia.o .libs/ssm_align.o .libs/ss_vxedge.o .libs/ss_graph.o .libs/ssm_superpose.o   -Wl,--as-needed /usr/lib/libmmdb.so -L/opt/intel/Compiler/11.1/072/lib/ia32 -L/usr/lib/gcc/i686-pc-linux-gnu/4.6.0 -L/usr/lib/gcc/i686-pc-linux-gnu/4.6.0/../../../../i686-pc-linux-gnu/lib -L/usr/lib/gcc/i686-pc-linux-gnu/4.6.0/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/i686-pc-linux-gnu/4.6.0/crtendS.o /usr/lib/gcc/i686-pc-linux-gnu/4.6.0/../../../crtn.o  -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libssm.so.0 -o .libs/libssm.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libssm.so.0" && ln -s "libssm.so.0.0.0" "libssm.so.0")
libtool: link: (cd ".libs" && rm -f "libssm.so" && ln -s "libssm.so.0.0.0" "libssm.so")
libtool: link: ( cd ".libs" && rm -f "libssm.la" && ln -s "../libssm.la" "libssm.la" )
make[1]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/src'
Making all in test
make[1]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/test'
i686-pc-linux-gnu-g++ -DPACKAGE_NAME=\"ssm\" -DPACKAGE_TARNAME=\"ssm\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"ssm\ 1.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"ssm\" -DVERSION=\"1.1\" -DSTDC_HEADERS=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_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_STRCASECMP=1 -DHAVE_STRCHR=1 -DHAVE_STRRCHR=1 -DSSM_PREFIX=\"/usr\" -I.    -I../src -O2 -pipe -c -o superpose.o superpose.cpp
/bin/sh ../libtool --tag=CXX   --mode=link i686-pc-linux-gnu-g++ -I../src -O2 -pipe ../src/libssm.la -lmmdb -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o superpose superpose.o  
libtool: link: i686-pc-linux-gnu-g++ -I../src -O2 -pipe -Wl,-O1 -Wl,--hash-style=gnu -o .libs/superpose superpose.o  ../src/.libs/libssm.so /usr/lib/libmmdb.so -Wl,--as-needed
make[1]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/test'
make[1]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1'
make[1]: Nothing to be done for `all-am'.
make[1]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1'
>>> Source compiled.
>>> Test phase [check]: sci-libs/ssm-1.1
 * Tinderbox QA Notice: 'make' called by _eapi0_src_test
make -j14 -j14 -j1 check 
Making check in src
make[1]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/src'
make[1]: Nothing to be done for `check'.
make[1]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/src'
Making check in test
make[1]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/test'
make[1]: Nothing to be done for `check'.
make[1]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/test'
make[1]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1'
make[1]: Nothing to be done for `check-am'.
make[1]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1'

>>> Install ssm-1.1 into /var/tmp/portage/sci-libs/ssm-1.1/image/ category sci-libs
make -j14 DESTDIR=/var/tmp/portage/sci-libs/ssm-1.1/image/ install 
Making install in src
make[1]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/src'
make[2]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/src'
test -z "/usr/lib" || /bin/mkdir -p "/var/tmp/portage/sci-libs/ssm-1.1/image//usr/lib"
test -z "/usr/include/ssm" || /bin/mkdir -p "/var/tmp/portage/sci-libs/ssm-1.1/image//usr/include/ssm"
 /bin/sh ../libtool   --mode=install /usr/bin/install -c   libssm.la '/var/tmp/portage/sci-libs/ssm-1.1/image//usr/lib'
 /usr/bin/install -c -m 644 ss_csia.h ss_graph.h ssm_align.h ssm_superpose.h ss_vxedge.h '/var/tmp/portage/sci-libs/ssm-1.1/image//usr/include/ssm'
libtool: install: /usr/bin/install -c .libs/libssm.so.0.0.0 /var/tmp/portage/sci-libs/ssm-1.1/image//usr/lib/libssm.so.0.0.0
libtool: install: (cd /var/tmp/portage/sci-libs/ssm-1.1/image//usr/lib && { ln -s -f libssm.so.0.0.0 libssm.so.0 || { rm -f libssm.so.0 && ln -s libssm.so.0.0.0 libssm.so.0; }; })
libtool: install: (cd /var/tmp/portage/sci-libs/ssm-1.1/image//usr/lib && { ln -s -f libssm.so.0.0.0 libssm.so || { rm -f libssm.so && ln -s libssm.so.0.0.0 libssm.so; }; })
libtool: install: /usr/bin/install -c .libs/libssm.lai /var/tmp/portage/sci-libs/ssm-1.1/image//usr/lib/libssm.la
libtool: install: warning: remember to run `libtool --finish /usr/lib'
make[2]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/src'
make[1]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/src'
Making install in test
make[1]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/test'
make[2]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/test'
make[2]: Nothing to be done for `install-exec-am'.
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/test'
make[1]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1/test'
make[1]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1'
make[2]: Entering directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1'
make[2]: Nothing to be done for `install-exec-am'.
test -z "/usr/lib/pkgconfig" || /bin/mkdir -p "/var/tmp/portage/sci-libs/ssm-1.1/image//usr/lib/pkgconfig"
 /usr/bin/install -c -m 644 ssm.pc '/var/tmp/portage/sci-libs/ssm-1.1/image//usr/lib/pkgconfig'
make[2]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1'
make[1]: Leaving directory `/var/tmp/portage/sci-libs/ssm-1.1/work/ssm-1.1'
>>> Completed installing ssm-1.1 into /var/tmp/portage/sci-libs/ssm-1.1/image/

Fixing .la files
   usr/lib/libssm.la
strip: i686-pc-linux-gnu-strip --strip-unneeded -R .comment
   usr/lib/libssm.so.0.0.0
removing executable bit: usr/lib/libssm.la
 * This package will overwrite one or more files that may belong to other
 * packages (see list below). You can use a command such as `portageq
 * owners / <filename>` to identify the installed package that owns a
 * file. If portageq reports that only one package owns a file then do
 * NOT file a bug report. A bug report is only useful if it identifies at
 * least two or more packages that are known to install the same file(s).
 * If a collision occurs and you can not explain where the file came from
 * then you should simply ignore the collision since there is not enough
 * information to determine if a real problem exists. Please do NOT file
 * a bug report at http://bugs.gentoo.org unless you report exactly which
 * two packages install the same file(s). Once again, please do NOT file
 * a bug report unless you have completely understood the above message.
 * 
 * Detected file collision(s):
 * 
 * 	/usr/lib/libssm.so.0.0.0
 * 	/usr/lib/libssm.la
 * 	/usr/lib/libssm.so
 * 	/usr/lib/libssm.so.0
 * 
 * Searching all installed packages for file collisions...
 * 
 * Press Ctrl-C to Stop
 * 
 * sci-libs/ccp4-libs-6.1.3-r9
 * 	/usr/lib/libssm.la
 * 	/usr/lib/libssm.so
 * 	/usr/lib/libssm.so.0
 * 	/usr/lib/libssm.so.0.0.0
 * 
 * Package 'sci-libs/ssm-1.1' NOT merged due to file collisions. If
 * necessary, refer to your elog messages for the whole content of the
 * above message.