emerge log

sci-biology-emboss-6.0.1-20150304-130113.log (text/plain), 31.91 KB, created by Toralf Förster on 2015-03-05 16:48:27 UTC

 * Package:    sci-biology/emboss-6.0.1
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        X abi_x86_64 amd64 elibc_glibc kernel_linux png userland_GNU
 * FEATURES:   preserve-libs sandbox userpriv usersandbox
 * Applying emboss-5.0.0-as-needed.patch ...
 [ ok ]
checking for a BSD-compatible install... /usr/lib/portage/python2.7/ebuild-helpers/xattr/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 gawk... (cached) gawk
checking for x86_64-pc-linux-gnu-gcc... x86_64-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 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 style of include used by make... GNU
checking dependency style of x86_64-pc-linux-gnu-gcc... gcc3
checking how to run the C preprocessor... x86_64-pc-linux-gnu-gcc -E
checking build system type... x86_64-pc-linux-gnu
checking host system type... x86_64-pc-linux-gnu
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
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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 /usr/x86_64-pc-linux-gnu/bin/ld option to reload object files... -r
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checking dependency style of x86_64-pc-linux-gnu-g++... gcc3
checking how to run the C++ preprocessor... x86_64-pc-linux-gnu-g++ -E
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checking whether we are using the GNU Fortran 77 compiler... yes
checking whether x86_64-pc-linux-gnu-gfortran accepts -g... yes
checking the maximum length of command line arguments... 1572864
checking command to parse /usr/bin/nm -B output from x86_64-pc-linux-gnu-gcc object... ok
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checking how to hardcode library paths into programs... immediate
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configure: creating libtool
appending configuration tag "CXX" to libtool
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checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
appending configuration tag "F77" to libtool
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for x86_64-pc-linux-gnu-gfortran option to produce PIC... -fPIC
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checking if x86_64-pc-linux-gnu-gfortran static flag -static works... yes
checking if x86_64-pc-linux-gnu-gfortran supports -c -o file.o... yes
checking whether the x86_64-pc-linux-gnu-gfortran linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether byte ordering is bigendian... no
checking for a BSD-compatible install... /usr/lib/portage/python2.7/ebuild-helpers/xattr/install -c
checking whether ln -s works... yes
checking whether make sets $(MAKE)... (cached) yes
checking for x86_64-pc-linux-gnu-ranlib... (cached) x86_64-pc-linux-gnu-ranlib
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PNG libraries found
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configure: creating ./config.status
config.status: creating plplot/Makefile
config.status: creating plplot/lib/Makefile
config.status: creating nucleus/Makefile
config.status: creating ajax/Makefile
config.status: creating emboss/Makefile
config.status: creating emboss/acd/Makefile
config.status: creating test/Makefile
config.status: creating test/data/Makefile
config.status: creating test/embl/Makefile
config.status: creating test/genbank/Makefile
config.status: creating test/gb/Makefile
config.status: creating test/pir/Makefile
config.status: creating test/swiss/Makefile
config.status: creating test/swnew/Makefile
config.status: creating test/testdb/Makefile
config.status: creating test/wormpep/Makefile
config.status: creating emboss/data/Makefile
config.status: creating emboss/data/AAINDEX/Makefile
config.status: creating emboss/data/CODONS/Makefile
config.status: creating emboss/data/REBASE/Makefile
config.status: creating emboss/data/JASPAR_CORE/Makefile
config.status: creating emboss/data/JASPAR_FAM/Makefile
config.status: creating emboss/data/JASPAR_PHYLOFACTS/Makefile
config.status: creating emboss/data/JASPAR_CNE/Makefile
config.status: creating emboss/data/JASPAR_POLII/Makefile
config.status: creating emboss/data/JASPAR_SPLICE/Makefile
config.status: creating emboss/data/PRINTS/Makefile
config.status: creating emboss/data/PROSITE/Makefile
config.status: creating doc/Makefile
config.status: creating doc/manuals/Makefile
config.status: creating doc/tutorials/Makefile
config.status: creating doc/programs/Makefile
config.status: creating doc/programs/html/Makefile
config.status: creating doc/programs/text/Makefile
config.status: creating jemboss/Makefile
config.status: creating jemboss/api/Makefile
config.status: creating jemboss/api/org/Makefile
config.status: creating jemboss/api/org/emboss/Makefile
config.status: creating jemboss/api/org/emboss/jemboss/Makefile
config.status: creating jemboss/api/org/emboss/jemboss/gui/Makefile
config.status: creating jemboss/api/org/emboss/jemboss/gui/filetree/Makefile
config.status: creating jemboss/api/org/emboss/jemboss/gui/form/Makefile
config.status: creating jemboss/api/org/emboss/jemboss/gui/sequenceChooser/Makefile
config.status: creating jemboss/api/org/emboss/jemboss/gui/startup/Makefile
config.status: creating jemboss/api/org/emboss/jemboss/parser/Makefile
config.status: creating jemboss/api/org/emboss/jemboss/parser/acd/Makefile
config.status: creating jemboss/api/org/emboss/jemboss/programs/Makefile
config.status: creating jemboss/api/org/emboss/jemboss/soap/Makefile
config.status: creating jemboss/images/Makefile
config.status: creating jemboss/lib/Makefile
config.status: creating jemboss/lib/axis/Makefile
config.status: creating jemboss/org/Makefile
config.status: creating jemboss/org/emboss/Makefile
config.status: creating jemboss/org/emboss/jemboss/Makefile
config.status: creating jemboss/org/emboss/jemboss/graphics/Makefile
config.status: creating jemboss/org/emboss/jemboss/gui/Makefile
config.status: creating jemboss/org/emboss/jemboss/gui/filetree/Makefile
config.status: creating jemboss/org/emboss/jemboss/gui/form/Makefile
config.status: creating jemboss/org/emboss/jemboss/gui/startup/Makefile
config.status: creating jemboss/org/emboss/jemboss/gui/sequenceChooser/Makefile
config.status: creating jemboss/org/emboss/jemboss/parser/Makefile
config.status: creating jemboss/org/emboss/jemboss/parser/acd/Makefile
config.status: creating jemboss/org/emboss/jemboss/programs/Makefile
config.status: creating jemboss/org/emboss/jemboss/server/Makefile
config.status: creating jemboss/org/emboss/jemboss/soap/Makefile
config.status: creating jemboss/org/emboss/jemboss/editor/Makefile
config.status: creating jemboss/org/emboss/jemboss/draw/Makefile
config.status: creating jemboss/resources/Makefile
config.status: creating jemboss/utils/Makefile
config.status: creating Makefile
config.status: executing depfiles commands
Making all in plplot
make[1]: Entering directory '/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1/plplot'
Making all in lib
make[2]: Entering directory '/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1/plplot/lib'
make[2]: Nothing to be done for 'all'.
make[2]: Leaving directory '/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1/plplot/lib'
make[2]: Entering directory '/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1/plplot'
/bin/sh ../libtool --tag=CC   --mode=compile x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I.  -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\"  -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE  -DLENDIAN -DNO_AUTH -lX11  -lgd -lpng16  -march=native -O2 -pipe -Wformat -Werror=format-security  -O2 -D__amd64__ -MT pdfutils.lo -MD -MP -MF .deps/pdfutils.Tpo -c -o pdfutils.lo pdfutils.c
mkdir .libs
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -lX11 -lgd -lpng16 -march=native -O2 -pipe -Wformat -Werror=format-security -O2 -D__amd64__ -MT pdfutils.lo -MD -MP -MF .deps/pdfutils.Tpo -c pdfutils.c  -fPIC -DPIC -o .libs/pdfutils.o
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -lX11 -lgd -lpng16 -march=native -O2 -pipe -Wformat -Werror=format-security -O2 -D__amd64__ -MT pdfutils.lo -MD -MP -MF .deps/pdfutils.Tpo -c pdfutils.c -o pdfutils.o >/dev/null 2>&1
mv -f .deps/pdfutils.Tpo .deps/pdfutils.Plo
/bin/sh ../libtool --tag=CC   --mode=compile x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I.  -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\"  -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE  -DLENDIAN -DNO_AUTH -lX11  -lgd -lpng16  -march=native -O2 -pipe -Wformat -Werror=format-security  -O2 -D__amd64__ -MT plargs.lo -MD -MP -MF .deps/plargs.Tpo -c -o plargs.lo plargs.c
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -lX11 -lgd -lpng16 -march=native -O2 -pipe -Wformat -Werror=format-security -O2 -D__amd64__ -MT plargs.lo -MD -MP -MF .deps/plargs.Tpo -c plargs.c  -fPIC -DPIC -o .libs/plargs.o
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -lX11 -lgd -lpng16 -march=native -O2 -pipe -Wformat -Werror=format-security -O2 -D__amd64__ -MT plargs.lo -MD -MP -MF .deps/plargs.Tpo -c plargs.c -o plargs.o >/dev/null 2>&1
mv -f .deps/plargs.Tpo .deps/plargs.Plo
/bin/sh ../libtool --tag=CC   --mode=compile x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I.  -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\"  -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE  -DLENDIAN -DNO_AUTH -lX11  -lgd -lpng16  -march=native -O2 -pipe -Wformat -Werror=format-security  -O2 -D__amd64__ -MT plbox.lo -MD -MP -MF .deps/plbox.Tpo -c -o plbox.lo plbox.c
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -lX11 -lgd -lpng16 -march=native -O2 -pipe -Wformat -Werror=format-security -O2 -D__amd64__ -MT plbox.lo -MD -MP -MF .deps/plbox.Tpo -c plbox.c  -fPIC -DPIC -o .libs/plbox.o
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -lX11 -lgd -lpng16 -march=native -O2 -pipe -Wformat -Werror=format-security -O2 -D__amd64__ -MT plbox.lo -MD -MP -MF .deps/plbox.Tpo -c plbox.c -o plbox.o >/dev/null 2>&1
mv -f .deps/plbox.Tpo .deps/plbox.Plo
/bin/sh ../libtool --tag=CC   --mode=compile x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I.  -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\"  -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE  -DLENDIAN -DNO_AUTH -lX11  -lgd -lpng16  -march=native -O2 -pipe -Wformat -Werror=format-security  -O2 -D__amd64__ -MT plcont.lo -MD -MP -MF .deps/plcont.Tpo -c -o plcont.lo plcont.c
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -lX11 -lgd -lpng16 -march=native -O2 -pipe -Wformat -Werror=format-security -O2 -D__amd64__ -MT plcont.lo -MD -MP -MF .deps/plcont.Tpo -c plcont.c  -fPIC -DPIC -o .libs/plcont.o
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -lX11 -lgd -lpng16 -march=native -O2 -pipe -Wformat -Werror=format-security -O2 -D__amd64__ -MT plcont.lo -MD -MP -MF .deps/plcont.Tpo -c plcont.c -o plcont.o >/dev/null 2>&1
mv -f .deps/plcont.Tpo .deps/plcont.Plo
/bin/sh ../libtool --tag=CC   --mode=compile x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I.  -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\"  -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE  -DLENDIAN -DNO_AUTH -lX11  -lgd -lpng16  -march=native -O2 -pipe -Wformat -Werror=format-security  -O2 -D__amd64__ -MT plcore.lo -MD -MP -MF .deps/plcore.Tpo -c -o plcore.lo plcore.c
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -lX11 -lgd -lpng16 -march=native -O2 -pipe -Wformat -Werror=format-security -O2 -D__amd64__ -MT plcore.lo -MD -MP -MF .deps/plcore.Tpo -c plcore.c  -fPIC -DPIC -o .libs/plcore.o
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -lX11 -lgd -lpng16 -march=native -O2 -pipe -Wformat -Werror=format-security -O2 -D__amd64__ -MT plcore.lo -MD -MP -MF .deps/plcore.Tpo -c plcore.c -o plcore.o >/dev/null 2>&1
mv -f .deps/plcore.Tpo .deps/plcore.Plo
/bin/sh ../libtool --tag=CC   --mode=compile x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I.  -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\"  -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE  -DLENDIAN -DNO_AUTH -lX11  -lgd -lpng16  -march=native -O2 -pipe -Wformat -Werror=format-security  -O2 -D__amd64__ -MT plctrl.lo -MD -MP -MF .deps/plctrl.Tpo -c -o plctrl.lo plctrl.c
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -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 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I./ -I/usr/include/gd -DPREFIX=\"/usr\" -DBUILD_DIR=\".\" -DDRV_DIR=\".\" -DEMBOSS_TOP=\"/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1\" -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -lX11 -lgd -lpng16 -march=native -O2 -pipe -Wformat -Werror=format-security -O2 -D__amd64__ -MT plctrl.lo -MD -MP -MF .deps/plctrl.Tpo -c plctrl.c  -fPIC -DPIC -o .libs/plctrl.o
plctrl.c: In function 'plGetInt':
plctrl.c:1835:2: error: format not a string literal and no format arguments [-Werror=format-security]
  fprintf(stdout, s);
  ^
plctrl.c: In function 'plGetFlt':
plctrl.c:1866:2: error: format not a string literal and no format arguments [-Werror=format-security]
  fprintf(stdout, s);
  ^
cc1: some warnings being treated as errors
Makefile:374: recipe for target 'plctrl.lo' failed
make[2]: *** [plctrl.lo] Error 1
make[2]: Leaving directory '/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1/plplot'
Makefile:410: recipe for target 'all-recursive' failed
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory '/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1/plplot'
Makefile:264: recipe for target 'all-recursive' failed
make: *** [all-recursive] Error 1
emake failed
 * ERROR: sci-biology/emboss-6.0.1::gentoo failed (compile phase):
 *   (no error message)
 * 
 * Call stack:
 *     ebuild.sh, line  93:  Called src_compile
 *   environment, line 1973:  Called die
 * The specific snippet of code:
 *       emake || die
 * 
 * If you need support, post the output of `emerge --info '=sci-biology/emboss-6.0.1::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-biology/emboss-6.0.1::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-biology:emboss-6.0.1:20150304-130113.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/emboss-6.0.1/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-biology/emboss-6.0.1/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1'
 * S: '/var/tmp/portage/sci-biology/emboss-6.0.1/work/EMBOSS-6.0.1'