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Gentoo's Bugzilla – Attachment 521734 Details for
Bug 649252
sys-devel/gcc add USE=static-libs
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config.log
config.log (text/plain), 66.16 KB, created by
Martin Mokrejš
on 2018-03-01 17:52:46 UTC
(
hide
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Description:
config.log
Filename:
MIME Type:
Creator:
Martin Mokrejš
Created:
2018-03-01 17:52:46 UTC
Size:
66.16 KB
patch
obsolete
>This file contains any messages produced by compilers while >running configure, to aid debugging if configure makes a mistake. > >It was created by EMBOSS configure 6.6.0, which was >generated by GNU Autoconf 2.69. Invocation command line was > > $ ./configure --prefix=/apps/gentoo/usr --build=x86_64-pc-linux-gnu --host=x86_64-pc-linux-gnu --mandir=/apps/gentoo/usr/share/man --infodir=/apps/gentoo/usr/share/info --datadir=/apps/gentoo/usr/share --sysconfdir=/apps/gentoo/etc --localstatedir=/apps/gentoo/var/lib --disable-dependency-tracking --disable-silent-rules --docdir=/apps/gentoo/usr/share/doc/emboss-6.6.0-r1 --htmldir=/apps/gentoo/usr/share/doc/emboss-6.6.0-r1/html --libdir=/apps/gentoo/usr/lib64 --enable-shared --enable-static --without-x --without-pngdriver --without-hpdf --without-mysql --without-postgresql --enable-large --without-java --enable-systemlibs > >## --------- ## >## Platform. ## >## --------- ## > >hostname = login1 >uname -m = x86_64 >uname -r = 2.6.32-696.20.1.el6.x86_64 >uname -s = Linux >uname -v = #1 SMP Fri Jan 26 17:51:45 UTC 2018 > >/usr/bin/uname -p = unknown >/bin/uname -X = unknown > >/bin/arch = x86_64 >/usr/bin/arch -k = unknown >/usr/convex/getsysinfo = unknown >/usr/bin/hostinfo = unknown >/bin/machine = unknown >/usr/bin/oslevel = unknown >/bin/universe = unknown > >PATH: /apps/gentoo/usr/lib/portage/python2.7/ebuild-helpers/unprivileged >PATH: /apps/gentoo/usr/lib/portage/python2.7/ebuild-helpers >PATH: /apps/gentoo/usr/local/sbin >PATH: /apps/gentoo/usr/local/bin >PATH: /apps/gentoo/usr/sbin >PATH: /apps/gentoo/usr/bin >PATH: /apps/gentoo/sbin >PATH: /apps/gentoo/bin >PATH: /usr/local/sbin >PATH: /usr/local/bin >PATH: /usr/sbin >PATH: /usr/bin >PATH: /sbin >PATH: /bin >PATH: /apps/gentoo/usr/x86_64-pc-linux-gnu/gcc-bin/7.3.0 >PATH: /apps/gentoo/usr/lib/llvm/5/bin >PATH: /apps/gentoo/usr/lib/llvm/4/bin >PATH: /apps/gentoo/usr/local/sbin >PATH: /apps/gentoo/usr/local/bin >PATH: /apps/gentoo/usr/sbin >PATH: /apps/gentoo/usr/bin >PATH: /apps/gentoo/sbin >PATH: /apps/gentoo/bin >PATH: /apps/gentoo/opt/bin >PATH: /usr/sbin >PATH: /sbin >PATH: /usr/bin >PATH: /bin > > >## ----------- ## >## Core tests. ## >## ----------- ## > >configure:2597: checking for gawk >configure:2613: found /apps/gentoo/usr/bin/gawk >configure:2624: result: gawk >configure:2645: checking for x86_64-pc-linux-gnu-icc >configure:2675: result: no >configure:2645: checking for x86_64-pc-linux-gnu-gcc >configure:2661: found /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-gcc >configure:2672: result: x86_64-pc-linux-gnu-gcc >configure:2747: checking for C compiler version >configure:2756: x86_64-pc-linux-gnu-gcc --version >&5 >x86_64-pc-linux-gnu-gcc (Gentoo 7.3.0 p1.0) 7.3.0 >Copyright (C) 2017 Free Software Foundation, Inc. >This is free software; see the source for copying conditions. There is NO >warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. > >configure:2767: $? = 0 >configure:2756: x86_64-pc-linux-gnu-gcc -v >&5 >Using built-in specs. >COLLECT_GCC=/apps/gentoo/usr/x86_64-pc-linux-gnu/gcc-bin/7.3.0/x86_64-pc-linux-gnu-gcc >COLLECT_LTO_WRAPPER=/apps/gentoo/usr/libexec/gcc/x86_64-pc-linux-gnu/7.3.0/lto-wrapper >Target: x86_64-pc-linux-gnu >Configured with: /apps/gentoo/var/tmp/portage/sys-devel/gcc-7.3.0/work/gcc-7.3.0/configure --host=x86_64-pc-linux-gnu --build=x86_64-pc-linux-gnu --prefix=/apps/gentoo/usr --bindir=/apps/gentoo/usr/x86_64-pc-linux-gnu/gcc-bin/7.3.0 --includedir=/apps/gentoo/usr/lib/gcc/x86_64-pc-linux-gnu/7.3.0/include --datadir=/apps/gentoo/usr/share/gcc-data/x86_64-pc-linux-gnu/7.3.0 --mandir=/apps/gentoo/usr/share/gcc-data/x86_64-pc-linux-gnu/7.3.0/man --infodir=/apps/gentoo/usr/share/gcc-data/x86_64-pc-linux-gnu/7.3.0/info --with-gxx-include-dir=/apps/gentoo/usr/lib/gcc/x86_64-pc-linux-gnu/7.3.0/include/g++-v7 --with-python-dir=/share/gcc-data/x86_64-pc-linux-gnu/7.3.0/python --enable-languages=c,c++,objc,fortran --enable-obsolete --enable-secureplt --disable-werror --with-system-zlib --enable-nls --without-included-gettext --enable-checking=release --with-bugurl=https://bugs.gentoo.org/ --with-pkgversion='Gentoo 7.3.0 p1.0' --disable-esp --enable-libstdcxx-time --enable-shared --enable-threads=posix --enable-__cxa_atexit --enable-clocale=gnu --disable-multilib --with-multilib-list=m64 --disable-altivec --disable-fixed-point --enable-targets=all --disable-libgcj --enable-libgomp --disable-libmudflap --disable-libssp --disable-libcilkrts --disable-libmpx --enable-vtable-verify --enable-libvtv --enable-lto --without-isl --enable-libsanitizer --enable-default-pie --enable-default-ssp --with-sysroot=/apps/gentoo >Thread model: posix >gcc version 7.3.0 (Gentoo 7.3.0 p1.0) >configure:2767: $? = 0 >configure:2756: x86_64-pc-linux-gnu-gcc -V >&5 >x86_64-pc-linux-gnu-gcc: error: unrecognized command line option '-V' >x86_64-pc-linux-gnu-gcc: fatal error: no input files >compilation terminated. >configure:2767: $? = 1 >configure:2756: x86_64-pc-linux-gnu-gcc -qversion >&5 >x86_64-pc-linux-gnu-gcc: error: unrecognized command line option '-qversion'; did you mean '--version'? >x86_64-pc-linux-gnu-gcc: fatal error: no input files >compilation terminated. >configure:2767: $? = 1 >configure:2787: checking whether the C compiler works >configure:2809: x86_64-pc-linux-gnu-gcc -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >configure:2813: $? = 0 >configure:2861: result: yes >configure:2864: checking for C compiler default output file name >configure:2866: result: a.out >configure:2872: checking for suffix of executables >configure:2879: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >configure:2883: $? = 0 >configure:2905: result: >configure:2927: checking whether we are cross compiling >configure:2935: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >configure:2939: $? = 0 >configure:2946: ./conftest >configure:2950: $? = 0 >configure:2965: result: no >configure:2970: checking for suffix of object files >configure:2992: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:2996: $? = 0 >configure:3017: result: o >configure:3021: checking whether we are using the GNU C compiler >configure:3040: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:3040: $? = 0 >configure:3049: result: yes >configure:3058: checking whether x86_64-pc-linux-gnu-gcc accepts -g >configure:3078: x86_64-pc-linux-gnu-gcc -c -g conftest.c >&5 >configure:3078: $? = 0 >configure:3119: result: yes >configure:3136: checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89 >configure:3199: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:3199: $? = 0 >configure:3212: result: none needed >configure:3269: checking whether x86_64-pc-linux-gnu-gcc understands -c and -o together >configure:3291: x86_64-pc-linux-gnu-gcc -c conftest.c -o conftest2.o >configure:3294: $? = 0 >configure:3291: x86_64-pc-linux-gnu-gcc -c conftest.c -o conftest2.o >configure:3294: $? = 0 >configure:3306: result: yes >configure:3337: checking for x86_64-pc-linux-gnu-icpc >configure:3367: result: no >configure:3337: checking for x86_64-pc-linux-gnu-g++ >configure:3353: found /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-g++ >configure:3364: result: x86_64-pc-linux-gnu-g++ >configure:3435: checking for C++ compiler version >configure:3444: x86_64-pc-linux-gnu-g++ --version >&5 >x86_64-pc-linux-gnu-g++ (Gentoo 7.3.0 p1.0) 7.3.0 >Copyright (C) 2017 Free Software Foundation, Inc. >This is free software; see the source for copying conditions. There is NO >warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. > >configure:3455: $? = 0 >configure:3444: x86_64-pc-linux-gnu-g++ -v >&5 >Using built-in specs. >COLLECT_GCC=/apps/gentoo/usr/x86_64-pc-linux-gnu/gcc-bin/7.3.0/x86_64-pc-linux-gnu-g++ >COLLECT_LTO_WRAPPER=/apps/gentoo/usr/libexec/gcc/x86_64-pc-linux-gnu/7.3.0/lto-wrapper >Target: x86_64-pc-linux-gnu >Configured with: /apps/gentoo/var/tmp/portage/sys-devel/gcc-7.3.0/work/gcc-7.3.0/configure --host=x86_64-pc-linux-gnu --build=x86_64-pc-linux-gnu --prefix=/apps/gentoo/usr --bindir=/apps/gentoo/usr/x86_64-pc-linux-gnu/gcc-bin/7.3.0 --includedir=/apps/gentoo/usr/lib/gcc/x86_64-pc-linux-gnu/7.3.0/include --datadir=/apps/gentoo/usr/share/gcc-data/x86_64-pc-linux-gnu/7.3.0 --mandir=/apps/gentoo/usr/share/gcc-data/x86_64-pc-linux-gnu/7.3.0/man --infodir=/apps/gentoo/usr/share/gcc-data/x86_64-pc-linux-gnu/7.3.0/info --with-gxx-include-dir=/apps/gentoo/usr/lib/gcc/x86_64-pc-linux-gnu/7.3.0/include/g++-v7 --with-python-dir=/share/gcc-data/x86_64-pc-linux-gnu/7.3.0/python --enable-languages=c,c++,objc,fortran --enable-obsolete --enable-secureplt --disable-werror --with-system-zlib --enable-nls --without-included-gettext --enable-checking=release --with-bugurl=https://bugs.gentoo.org/ --with-pkgversion='Gentoo 7.3.0 p1.0' --disable-esp --enable-libstdcxx-time --enable-shared --enable-threads=posix --enable-__cxa_atexit --enable-clocale=gnu --disable-multilib --with-multilib-list=m64 --disable-altivec --disable-fixed-point --enable-targets=all --disable-libgcj --enable-libgomp --disable-libmudflap --disable-libssp --disable-libcilkrts --disable-libmpx --enable-vtable-verify --enable-libvtv --enable-lto --without-isl --enable-libsanitizer --enable-default-pie --enable-default-ssp --with-sysroot=/apps/gentoo >Thread model: posix >gcc version 7.3.0 (Gentoo 7.3.0 p1.0) >configure:3455: $? = 0 >configure:3444: x86_64-pc-linux-gnu-g++ -V >&5 >x86_64-pc-linux-gnu-g++: error: unrecognized command line option '-V' >x86_64-pc-linux-gnu-g++: fatal error: no input files >compilation terminated. >configure:3455: $? = 1 >configure:3444: x86_64-pc-linux-gnu-g++ -qversion >&5 >x86_64-pc-linux-gnu-g++: error: unrecognized command line option '-qversion'; did you mean '--version'? >x86_64-pc-linux-gnu-g++: fatal error: no input files >compilation terminated. >configure:3455: $? = 1 >configure:3459: checking whether we are using the GNU C++ compiler >configure:3478: x86_64-pc-linux-gnu-g++ -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.cpp >&5 >configure:3478: $? = 0 >configure:3487: result: yes >configure:3496: checking whether x86_64-pc-linux-gnu-g++ accepts -g >configure:3516: x86_64-pc-linux-gnu-g++ -c -g conftest.cpp >&5 >configure:3516: $? = 0 >configure:3557: result: yes >configure:3585: checking how to run the C preprocessor >configure:3616: x86_64-pc-linux-gnu-gcc -E conftest.c >configure:3616: $? = 0 >configure:3630: x86_64-pc-linux-gnu-gcc -E conftest.c >conftest.c:9:10: fatal error: ac_nonexistent.h: No such file or directory > #include <ac_nonexistent.h> > ^~~~~~~~~~~~~~~~~~ >compilation terminated. >configure:3630: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| /* end confdefs.h. */ >| #include <ac_nonexistent.h> >configure:3655: result: x86_64-pc-linux-gnu-gcc -E >configure:3675: x86_64-pc-linux-gnu-gcc -E conftest.c >configure:3675: $? = 0 >configure:3689: x86_64-pc-linux-gnu-gcc -E conftest.c >conftest.c:9:10: fatal error: ac_nonexistent.h: No such file or directory > #include <ac_nonexistent.h> > ^~~~~~~~~~~~~~~~~~ >compilation terminated. >configure:3689: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| /* end confdefs.h. */ >| #include <ac_nonexistent.h> >configure:3731: checking for a BSD-compatible install >configure:3799: result: /apps/gentoo/usr/bin/install -c >configure:3810: checking whether ln -s works >configure:3814: result: yes >configure:3821: checking whether make sets $(MAKE) >configure:3843: result: yes >configure:3852: checking for a thread-safe mkdir -p >configure:3891: result: /apps/gentoo/bin/mkdir -p >configure:3897: checking whether build environment is sane >configure:3952: result: yes >configure:4121: checking for style of include used by make >configure:4149: result: GNU >configure:4183: checking whether make supports nested variables >configure:4200: result: yes >configure:4285: checking dependency style of x86_64-pc-linux-gnu-gcc >configure:4396: result: none >configure:4413: checking dependency style of x86_64-pc-linux-gnu-g++ >configure:4524: result: none >configure:4613: checking build system type >configure:4627: result: x86_64-pc-linux-gnu >configure:4647: checking host system type >configure:4660: result: x86_64-pc-linux-gnu >configure:4701: checking how to print strings >configure:4728: result: printf >configure:4749: checking for a sed that does not truncate output >configure:4813: result: /apps/gentoo/bin/sed >configure:4831: checking for grep that handles long lines and -e >configure:4889: result: /apps/gentoo/bin/grep >configure:4894: checking for egrep >configure:4956: result: /apps/gentoo/bin/grep -E >configure:4961: checking for fgrep >configure:5023: result: /apps/gentoo/bin/grep -F >configure:5058: checking for ld used by x86_64-pc-linux-gnu-gcc >configure:5125: result: /apps/gentoo/usr/x86_64-pc-linux-gnu/bin/ld >configure:5132: checking if the linker (/apps/gentoo/usr/x86_64-pc-linux-gnu/bin/ld) is GNU ld >configure:5147: result: yes >configure:5159: checking for BSD- or MS-compatible name lister (nm) >configure:5213: result: /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-nm -B >configure:5343: checking the name lister (/apps/gentoo/usr/bin/x86_64-pc-linux-gnu-nm -B) interface >configure:5350: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:5353: /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-nm -B "conftest.o" >configure:5356: output >0000000000000000 B some_variable >configure:5363: result: BSD nm >configure:5367: checking the maximum length of command line arguments >configure:5503: result: 3932160 >configure:5551: checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format >configure:5591: result: func_convert_file_noop >configure:5598: checking how to convert x86_64-pc-linux-gnu file names to toolchain format >configure:5618: result: func_convert_file_noop >configure:5625: checking for /apps/gentoo/usr/x86_64-pc-linux-gnu/bin/ld option to reload object files >configure:5632: result: -r >configure:5666: checking for x86_64-pc-linux-gnu-objdump >configure:5682: found /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-objdump >configure:5693: result: x86_64-pc-linux-gnu-objdump >configure:5765: checking how to recognize dependent libraries >configure:5965: result: pass_all >configure:6010: checking for x86_64-pc-linux-gnu-dlltool >configure:6040: result: no >configure:6050: checking for dlltool >configure:6080: result: no >configure:6110: checking how to associate runtime and link libraries >configure:6137: result: printf %s\n >configure:6154: checking for x86_64-pc-linux-gnu-ar >configure:6170: found /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-ar >configure:6181: result: x86_64-pc-linux-gnu-ar >configure:6262: checking for archiver @FILE support >configure:6279: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:6279: $? = 0 >configure:6282: x86_64-pc-linux-gnu-ar cru libconftest.a @conftest.lst >&5 >configure:6285: $? = 0 >configure:6290: x86_64-pc-linux-gnu-ar cru libconftest.a @conftest.lst >&5 >x86_64-pc-linux-gnu-ar: conftest.o: No such file or directory >configure:6293: $? = 1 >configure:6305: result: @ >configure:6323: checking for x86_64-pc-linux-gnu-strip >configure:6339: found /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-strip >configure:6350: result: x86_64-pc-linux-gnu-strip >configure:6422: checking for x86_64-pc-linux-gnu-ranlib >configure:6438: found /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-ranlib >configure:6449: result: x86_64-pc-linux-gnu-ranlib >configure:6591: checking command to parse /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-nm -B output from x86_64-pc-linux-gnu-gcc object >configure:6744: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:6747: $? = 0 >configure:6751: /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-nm -B conftest.o \| sed -n -e 's/^.*[ ]\([ABCDGIRSTW][ABCDGIRSTW]*\)[ ][ ]*\([_A-Za-z][_A-Za-z0-9]*\)$/\1 \2 \2/p' | sed '/ __gnu_lto/d' \> conftest.nm >configure:6754: $? = 0 >configure:6820: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -Wl,-O1 -Wl,--as-needed -static conftest.c conftstm.o >&5 >configure:6823: $? = 0 >configure:6861: result: ok >configure:6908: checking for sysroot >configure:6938: result: no >configure:6945: checking for a working dd >configure:6983: result: /apps/gentoo/bin/dd >configure:6987: checking how to truncate binary pipes >configure:7002: result: /apps/gentoo/bin/dd bs=4096 count=1 >configure:7138: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:7141: $? = 0 >configure:7291: checking for x86_64-pc-linux-gnu-mt >configure:7321: result: no >configure:7331: checking for mt >configure:7361: result: no >configure:7381: checking if : is a manifest tool >configure:7387: : '-?' >configure:7395: result: no >configure:8068: checking for ANSI C header files >configure:8088: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:8088: $? = 0 >configure:8161: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >configure:8161: $? = 0 >configure:8161: ./conftest >configure:8161: $? = 0 >configure:8172: result: yes >configure:8185: checking for sys/types.h >configure:8185: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:8185: $? = 0 >configure:8185: result: yes >configure:8185: checking for sys/stat.h >configure:8185: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:8185: $? = 0 >configure:8185: result: yes >configure:8185: checking for stdlib.h >configure:8185: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:8185: $? = 0 >configure:8185: result: yes >configure:8185: checking for string.h >configure:8185: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:8185: $? = 0 >configure:8185: result: yes >configure:8185: checking for memory.h >configure:8185: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:8185: $? = 0 >configure:8185: result: yes >configure:8185: checking for strings.h >configure:8185: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:8185: $? = 0 >configure:8185: result: yes >configure:8185: checking for inttypes.h >configure:8185: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:8185: $? = 0 >configure:8185: result: yes >configure:8185: checking for stdint.h >configure:8185: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:8185: $? = 0 >configure:8185: result: yes >configure:8185: checking for unistd.h >configure:8185: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:8185: $? = 0 >configure:8185: result: yes >configure:8199: checking for dlfcn.h >configure:8199: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:8199: $? = 0 >configure:8199: result: yes >configure:8466: checking for objdir >configure:8481: result: .libs >configure:8745: checking if x86_64-pc-linux-gnu-gcc supports -fno-rtti -fno-exceptions >configure:8763: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -fno-rtti -fno-exceptions conftest.c >&5 >cc1: warning: command line option '-fno-rtti' is valid for C++/ObjC++ but not for C >configure:8767: $? = 0 >configure:8780: result: no >configure:9138: checking for x86_64-pc-linux-gnu-gcc option to produce PIC >configure:9145: result: -fPIC -DPIC >configure:9153: checking if x86_64-pc-linux-gnu-gcc PIC flag -fPIC -DPIC works >configure:9171: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -fPIC -DPIC -DPIC conftest.c >&5 >configure:9175: $? = 0 >configure:9188: result: yes >configure:9217: checking if x86_64-pc-linux-gnu-gcc static flag -static works >configure:9245: result: yes >configure:9260: checking if x86_64-pc-linux-gnu-gcc supports -c -o file.o >configure:9281: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -o out/conftest2.o conftest.c >&5 >configure:9285: $? = 0 >configure:9307: result: yes >configure:9315: checking if x86_64-pc-linux-gnu-gcc supports -c -o file.o >configure:9362: result: yes >configure:9395: checking whether the x86_64-pc-linux-gnu-gcc linker (/apps/gentoo/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries >configure:10654: result: yes >configure:10691: checking whether -lc should be explicitly linked in >configure:10699: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.c >&5 >configure:10702: $? = 0 >configure:10717: x86_64-pc-linux-gnu-gcc -shared -fPIC -DPIC conftest.o -v -Wl,-soname -Wl,conftest -o conftest 2\>\&1 \| /apps/gentoo/bin/grep -lc \>/dev/null 2\>\&1 >configure:10720: $? = 0 >configure:10734: result: no >configure:10894: checking dynamic linker characteristics >configure:11488: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -Wl,-O1 -Wl,--as-needed -static -Wl,-rpath -Wl,/foo conftest.c >&5 >configure:11488: $? = 0 >configure:11725: result: GNU/Linux ld.so >configure:11847: checking how to hardcode library paths into programs >configure:11872: result: immediate >configure:12420: checking whether stripping libraries is possible >configure:12425: result: yes >configure:12460: checking if libtool supports shared libraries >configure:12462: result: yes >configure:12465: checking whether to build shared libraries >configure:12490: result: yes >configure:12493: checking whether to build static libraries >configure:12497: result: yes >configure:12520: checking how to run the C++ preprocessor >configure:12547: x86_64-pc-linux-gnu-g++ -E conftest.cpp >configure:12547: $? = 0 >configure:12561: x86_64-pc-linux-gnu-g++ -E conftest.cpp >conftest.cpp:23:10: fatal error: ac_nonexistent.h: No such file or directory > #include <ac_nonexistent.h> > ^~~~~~~~~~~~~~~~~~ >compilation terminated. >configure:12561: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| /* end confdefs.h. */ >| #include <ac_nonexistent.h> >configure:12586: result: x86_64-pc-linux-gnu-g++ -E >configure:12606: x86_64-pc-linux-gnu-g++ -E conftest.cpp >configure:12606: $? = 0 >configure:12620: x86_64-pc-linux-gnu-g++ -E conftest.cpp >conftest.cpp:23:10: fatal error: ac_nonexistent.h: No such file or directory > #include <ac_nonexistent.h> > ^~~~~~~~~~~~~~~~~~ >compilation terminated. >configure:12620: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| /* end confdefs.h. */ >| #include <ac_nonexistent.h> >configure:12782: checking for ld used by x86_64-pc-linux-gnu-g++ >configure:12849: result: /apps/gentoo/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64 >configure:12856: checking if the linker (/apps/gentoo/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) is GNU ld >configure:12871: result: yes >configure:12926: checking whether the x86_64-pc-linux-gnu-g++ linker (/apps/gentoo/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries >configure:13999: result: yes >configure:14035: x86_64-pc-linux-gnu-g++ -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize conftest.cpp >&5 >configure:14038: $? = 0 >configure:14519: checking for x86_64-pc-linux-gnu-g++ option to produce PIC >configure:14526: result: -fPIC -DPIC >configure:14534: checking if x86_64-pc-linux-gnu-g++ PIC flag -fPIC -DPIC works >configure:14552: x86_64-pc-linux-gnu-g++ -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -fPIC -DPIC -DPIC conftest.cpp >&5 >configure:14556: $? = 0 >configure:14569: result: yes >configure:14592: checking if x86_64-pc-linux-gnu-g++ static flag -static works >configure:14620: result: yes >configure:14632: checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o >configure:14653: x86_64-pc-linux-gnu-g++ -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -o out/conftest2.o conftest.cpp >&5 >configure:14657: $? = 0 >configure:14679: result: yes >configure:14684: checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o >configure:14731: result: yes >configure:14761: checking whether the x86_64-pc-linux-gnu-g++ linker (/apps/gentoo/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries >configure:14801: result: yes >configure:14942: checking dynamic linker characteristics >configure:15700: result: GNU/Linux ld.so >configure:15765: checking how to hardcode library paths into programs >configure:15790: result: immediate >configure:16591: checking for X >configure:16769: result: disabled >configure:17277: checking for dirent.h that defines DIR >configure:17296: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >configure:17296: $? = 0 >configure:17304: result: yes >configure:17317: checking for library containing opendir >configure:17348: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >configure:17348: $? = 0 >configure:17365: result: none required >configure:17432: checking for ANSI C header files >configure:17536: result: yes >configure:17548: checking for unistd.h >configure:17548: result: yes >configure:17548: checking TargetConfig.h usability >configure:17548: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >conftest.c:60:10: fatal error: TargetConfig.h: No such file or directory > #include <TargetConfig.h> > ^~~~~~~~~~~~~~~~ >compilation terminated. >configure:17548: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| #define X_DISPLAY_MISSING 1 >| #define HAVE_DIRENT_H 1 >| #define STDC_HEADERS 1 >| #define HAVE_UNISTD_H 1 >| /* end confdefs.h. */ >| #include <stdio.h> >| #ifdef HAVE_SYS_TYPES_H >| # include <sys/types.h> >| #endif >| #ifdef HAVE_SYS_STAT_H >| # include <sys/stat.h> >| #endif >| #ifdef STDC_HEADERS >| # include <stdlib.h> >| # include <stddef.h> >| #else >| # ifdef HAVE_STDLIB_H >| # include <stdlib.h> >| # endif >| #endif >| #ifdef HAVE_STRING_H >| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H >| # include <memory.h> >| # endif >| # include <string.h> >| #endif >| #ifdef HAVE_STRINGS_H >| # include <strings.h> >| #endif >| #ifdef HAVE_INTTYPES_H >| # include <inttypes.h> >| #endif >| #ifdef HAVE_STDINT_H >| # include <stdint.h> >| #endif >| #ifdef HAVE_UNISTD_H >| # include <unistd.h> >| #endif >| #include <TargetConfig.h> >configure:17548: result: no >configure:17548: checking TargetConfig.h presence >configure:17548: x86_64-pc-linux-gnu-gcc -E conftest.c >conftest.c:27:10: fatal error: TargetConfig.h: No such file or directory > #include <TargetConfig.h> > ^~~~~~~~~~~~~~~~ >compilation terminated. >configure:17548: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| #define X_DISPLAY_MISSING 1 >| #define HAVE_DIRENT_H 1 >| #define STDC_HEADERS 1 >| #define HAVE_UNISTD_H 1 >| /* end confdefs.h. */ >| #include <TargetConfig.h> >configure:17548: result: no >configure:17548: checking for TargetConfig.h >configure:17548: result: no >configure:17561: checking whether byte ordering is bigendian >configure:17576: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >conftest.c:28:9: error: unknown type name 'not' > not a universal capable compiler > ^~~ >conftest.c:28:15: error: expected '=', ',', ';', 'asm' or '__attribute__' before 'universal' > not a universal capable compiler > ^~~~~~~~~ >conftest.c:28:15: error: unknown type name 'universal' >configure:17576: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| #define X_DISPLAY_MISSING 1 >| #define HAVE_DIRENT_H 1 >| #define STDC_HEADERS 1 >| #define HAVE_UNISTD_H 1 >| /* end confdefs.h. */ >| #ifndef __APPLE_CC__ >| not a universal capable compiler >| #endif >| typedef int dummy; >| >configure:17621: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >configure:17621: $? = 0 >configure:17639: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >conftest.c: In function 'main': >conftest.c:34:4: error: unknown type name 'not'; did you mean 'ino_t'? > not big endian > ^~~ > ino_t >conftest.c:34:12: error: expected '=', ',', ';', 'asm' or '__attribute__' before 'endian' > not big endian > ^~~~~~ >configure:17639: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| #define X_DISPLAY_MISSING 1 >| #define HAVE_DIRENT_H 1 >| #define STDC_HEADERS 1 >| #define HAVE_UNISTD_H 1 >| /* end confdefs.h. */ >| #include <sys/types.h> >| #include <sys/param.h> >| >| int >| main () >| { >| #if BYTE_ORDER != BIG_ENDIAN >| not big endian >| #endif >| >| ; >| return 0; >| } >configure:17767: result: no >configure:17785: checking for an ANSI C-conforming const >configure:17851: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >configure:17851: $? = 0 >configure:17858: result: yes >configure:17866: checking for inline >configure:17882: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >configure:17882: $? = 0 >configure:17890: result: inline >configure:17908: checking for pid_t >configure:17908: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >configure:17908: $? = 0 >configure:17908: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >conftest.c: In function 'main': >conftest.c:63:20: error: expected expression before ')' token > if (sizeof ((pid_t))) > ^ >configure:17908: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| #define X_DISPLAY_MISSING 1 >| #define HAVE_DIRENT_H 1 >| #define STDC_HEADERS 1 >| #define HAVE_UNISTD_H 1 >| /* end confdefs.h. */ >| #include <stdio.h> >| #ifdef HAVE_SYS_TYPES_H >| # include <sys/types.h> >| #endif >| #ifdef HAVE_SYS_STAT_H >| # include <sys/stat.h> >| #endif >| #ifdef STDC_HEADERS >| # include <stdlib.h> >| # include <stddef.h> >| #else >| # ifdef HAVE_STDLIB_H >| # include <stdlib.h> >| # endif >| #endif >| #ifdef HAVE_STRING_H >| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H >| # include <memory.h> >| # endif >| # include <string.h> >| #endif >| #ifdef HAVE_STRINGS_H >| # include <strings.h> >| #endif >| #ifdef HAVE_INTTYPES_H >| # include <inttypes.h> >| #endif >| #ifdef HAVE_STDINT_H >| # include <stdint.h> >| #endif >| #ifdef HAVE_UNISTD_H >| # include <unistd.h> >| #endif >| int >| main () >| { >| if (sizeof ((pid_t))) >| return 0; >| ; >| return 0; >| } >configure:17908: result: yes >configure:17919: checking for size_t >configure:17919: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >configure:17919: $? = 0 >configure:17919: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >conftest.c: In function 'main': >conftest.c:63:21: error: expected expression before ')' token > if (sizeof ((size_t))) > ^ >configure:17919: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| #define X_DISPLAY_MISSING 1 >| #define HAVE_DIRENT_H 1 >| #define STDC_HEADERS 1 >| #define HAVE_UNISTD_H 1 >| /* end confdefs.h. */ >| #include <stdio.h> >| #ifdef HAVE_SYS_TYPES_H >| # include <sys/types.h> >| #endif >| #ifdef HAVE_SYS_STAT_H >| # include <sys/stat.h> >| #endif >| #ifdef STDC_HEADERS >| # include <stdlib.h> >| # include <stddef.h> >| #else >| # ifdef HAVE_STDLIB_H >| # include <stdlib.h> >| # endif >| #endif >| #ifdef HAVE_STRING_H >| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H >| # include <memory.h> >| # endif >| # include <string.h> >| #endif >| #ifdef HAVE_STRINGS_H >| # include <strings.h> >| #endif >| #ifdef HAVE_INTTYPES_H >| # include <inttypes.h> >| #endif >| #ifdef HAVE_STDINT_H >| # include <stdint.h> >| #endif >| #ifdef HAVE_UNISTD_H >| # include <unistd.h> >| #endif >| int >| main () >| { >| if (sizeof ((size_t))) >| return 0; >| ; >| return 0; >| } >configure:17919: result: yes >configure:17930: checking whether struct tm is in sys/time.h or time.h >configure:17950: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >configure:17950: $? = 0 >configure:17957: result: time.h >configure:17968: checking whether getpgrp requires zero arguments >configure:17985: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >conftest.c: In function 'main': >conftest.c:63:1: error: too many arguments to function 'getpgrp' > getpgrp (0); > ^~~~~~~ >In file included from conftest.c:58:0: >/apps/gentoo/usr/include/unistd.h:637:16: note: declared here > extern __pid_t getpgrp (void) __THROW; > ^~~~~~~ >configure:17985: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| #define X_DISPLAY_MISSING 1 >| #define HAVE_DIRENT_H 1 >| #define STDC_HEADERS 1 >| #define HAVE_UNISTD_H 1 >| /* end confdefs.h. */ >| #include <stdio.h> >| #ifdef HAVE_SYS_TYPES_H >| # include <sys/types.h> >| #endif >| #ifdef HAVE_SYS_STAT_H >| # include <sys/stat.h> >| #endif >| #ifdef STDC_HEADERS >| # include <stdlib.h> >| # include <stddef.h> >| #else >| # ifdef HAVE_STDLIB_H >| # include <stdlib.h> >| # endif >| #endif >| #ifdef HAVE_STRING_H >| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H >| # include <memory.h> >| # endif >| # include <string.h> >| #endif >| #ifdef HAVE_STRINGS_H >| # include <strings.h> >| #endif >| #ifdef HAVE_INTTYPES_H >| # include <inttypes.h> >| #endif >| #ifdef HAVE_STDINT_H >| # include <stdint.h> >| #endif >| #ifdef HAVE_UNISTD_H >| # include <unistd.h> >| #endif >| int >| main () >| { >| getpgrp (0); >| ; >| return 0; >| } >configure:17993: result: yes >configure:18003: checking for strftime >configure:18003: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >conftest.c:51:6: warning: conflicting types for built-in function 'strftime' [-Wbuiltin-declaration-mismatch] > char strftime (); > ^~~~~~~~ >configure:18003: $? = 0 >configure:18003: result: yes >configure:18058: checking vfork.h usability >configure:18058: x86_64-pc-linux-gnu-gcc -c -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 conftest.c >&5 >conftest.c:62:10: fatal error: vfork.h: No such file or directory > #include <vfork.h> > ^~~~~~~~~ >compilation terminated. >configure:18058: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| #define X_DISPLAY_MISSING 1 >| #define HAVE_DIRENT_H 1 >| #define STDC_HEADERS 1 >| #define HAVE_UNISTD_H 1 >| #define GETPGRP_VOID 1 >| #define HAVE_STRFTIME 1 >| /* end confdefs.h. */ >| #include <stdio.h> >| #ifdef HAVE_SYS_TYPES_H >| # include <sys/types.h> >| #endif >| #ifdef HAVE_SYS_STAT_H >| # include <sys/stat.h> >| #endif >| #ifdef STDC_HEADERS >| # include <stdlib.h> >| # include <stddef.h> >| #else >| # ifdef HAVE_STDLIB_H >| # include <stdlib.h> >| # endif >| #endif >| #ifdef HAVE_STRING_H >| # if !defined STDC_HEADERS && defined HAVE_MEMORY_H >| # include <memory.h> >| # endif >| # include <string.h> >| #endif >| #ifdef HAVE_STRINGS_H >| # include <strings.h> >| #endif >| #ifdef HAVE_INTTYPES_H >| # include <inttypes.h> >| #endif >| #ifdef HAVE_STDINT_H >| # include <stdint.h> >| #endif >| #ifdef HAVE_UNISTD_H >| # include <unistd.h> >| #endif >| #include <vfork.h> >configure:18058: result: no >configure:18058: checking vfork.h presence >configure:18058: x86_64-pc-linux-gnu-gcc -E conftest.c >conftest.c:29:10: fatal error: vfork.h: No such file or directory > #include <vfork.h> > ^~~~~~~~~ >compilation terminated. >configure:18058: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| #define X_DISPLAY_MISSING 1 >| #define HAVE_DIRENT_H 1 >| #define STDC_HEADERS 1 >| #define HAVE_UNISTD_H 1 >| #define GETPGRP_VOID 1 >| #define HAVE_STRFTIME 1 >| /* end confdefs.h. */ >| #include <vfork.h> >configure:18058: result: no >configure:18058: checking for vfork.h >configure:18058: result: no >configure:18071: checking for fork >configure:18071: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >conftest.c:52:6: warning: conflicting types for built-in function 'fork' [-Wbuiltin-declaration-mismatch] > char fork (); > ^~~~ >configure:18071: $? = 0 >configure:18071: result: yes >configure:18071: checking for vfork >configure:18071: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >configure:18071: $? = 0 >configure:18071: result: yes >configure:18081: checking for working fork >configure:18103: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >configure:18103: $? = 0 >configure:18103: ./conftest >configure:18103: $? = 0 >configure:18113: result: yes >configure:18134: checking for working vfork >configure:18244: result: yes >configure:18271: checking for vprintf >configure:18271: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >conftest.c:56:6: warning: conflicting types for built-in function 'vprintf' [-Wbuiltin-declaration-mismatch] > char vprintf (); > ^~~~~~~ >configure:18271: $? = 0 >configure:18271: result: yes >configure:18277: checking for _doprnt >configure:18277: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >/apps/gentoo/var/tmp/portage/sci-biology/emboss-6.6.0-r1/temp/ccWgW8I1.o: In function `main': >conftest.c:(.text.startup+0x7): undefined reference to `_doprnt' >collect2: error: ld returned 1 exit status >configure:18277: $? = 1 >configure: failed program was: >| /* confdefs.h */ >| #define PACKAGE_NAME "EMBOSS" >| #define PACKAGE_TARNAME "EMBOSS" >| #define PACKAGE_VERSION "6.6.0" >| #define PACKAGE_STRING "EMBOSS 6.6.0" >| #define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >| #define PACKAGE_URL "http://emboss.open-bio.org/" >| #define PACKAGE "EMBOSS" >| #define VERSION "6.6.0" >| #define STDC_HEADERS 1 >| #define HAVE_SYS_TYPES_H 1 >| #define HAVE_SYS_STAT_H 1 >| #define HAVE_STDLIB_H 1 >| #define HAVE_STRING_H 1 >| #define HAVE_MEMORY_H 1 >| #define HAVE_STRINGS_H 1 >| #define HAVE_INTTYPES_H 1 >| #define HAVE_STDINT_H 1 >| #define HAVE_UNISTD_H 1 >| #define HAVE_DLFCN_H 1 >| #define LT_OBJDIR ".libs/" >| #define X_DISPLAY_MISSING 1 >| #define HAVE_DIRENT_H 1 >| #define STDC_HEADERS 1 >| #define HAVE_UNISTD_H 1 >| #define GETPGRP_VOID 1 >| #define HAVE_STRFTIME 1 >| #define HAVE_FORK 1 >| #define HAVE_VFORK 1 >| #define HAVE_WORKING_VFORK 1 >| #define HAVE_WORKING_FORK 1 >| #define HAVE_VPRINTF 1 >| /* end confdefs.h. */ >| /* Define _doprnt to an innocuous variant, in case <limits.h> declares _doprnt. >| For example, HP-UX 11i <limits.h> declares gettimeofday. */ >| #define _doprnt innocuous__doprnt >| >| /* System header to define __stub macros and hopefully few prototypes, >| which can conflict with char _doprnt (); below. >| Prefer <limits.h> to <assert.h> if __STDC__ is defined, since >| <limits.h> exists even on freestanding compilers. */ >| >| #ifdef __STDC__ >| # include <limits.h> >| #else >| # include <assert.h> >| #endif >| >| #undef _doprnt >| >| /* Override any GCC internal prototype to avoid an error. >| Use char because int might match the return type of a GCC >| builtin and then its argument prototype would still apply. */ >| #ifdef __cplusplus >| extern "C" >| #endif >| char _doprnt (); >| /* The GNU C library defines this for functions which it implements >| to always fail with ENOSYS. Some functions are actually named >| something starting with __ and the normal name is an alias. */ >| #if defined __stub__doprnt || defined __stub____doprnt >| choke me >| #endif >| >| int >| main () >| { >| return _doprnt (); >| ; >| return 0; >| } >configure:18277: result: no >configure:18291: checking for memmove >configure:18291: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 -Wl,-O1 -Wl,--as-needed -static conftest.c >&5 >conftest.c:57:6: warning: conflicting types for built-in function 'memmove' [-Wbuiltin-declaration-mismatch] > char memmove (); > ^~~~~~~ >configure:18291: $? = 0 >configure:18291: result: yes >configure:18354: checking for socket in -lc >configure:18379: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 -Wl,-O1 -Wl,--as-needed -static conftest.c -lc >&5 >configure:18379: $? = 0 >configure:18388: result: yes >configure:18396: checking for main in -lm >configure:18415: x86_64-pc-linux-gnu-gcc -o conftest -O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2 -Wl,-O1 -Wl,--as-needed -static conftest.c -lm >&5 >configure:18415: $? = 0 >configure:18424: result: yes >configure:18508: checking if docroot is given >configure:18520: result: no >configure:18529: checking if gcc profiling is selected >configure:18542: result: no >configure:18551: checking if gcov coverage is selected >configure:18563: result: no >configure:18572: checking for EMBOSS pre-indexed databases >configure:18576: checking for ./emboss/index/edam.xac >configure:18590: result: yes >configure:18607: checking for Java JNI >configure:18614: result: no >configure:18643: checking for Java JNI OS >configure:18669: result: no >configure:18677: checking for authorisation type >configure:18860: result: no >configure:18873: checking for threading type >configure:18951: result: no >configure:19180: checking whether to look for pdf support >configure:19190: result: no >configure:19329: checking for x86_64-pc-linux-gnu-pkg-config >configure:19347: found /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-pkg-config >configure:19359: result: /apps/gentoo/usr/bin/x86_64-pc-linux-gnu-pkg-config >configure:19427: checking pkg-config is at least version 0.9.0 >configure:19430: result: yes >configure:19439: checking whether to look for axis2c support >configure:19614: result: no >configure:19628: checking if png driver is wanted >configure:19638: result: no >configure:20370: checking for large file support >configure:20426: result: yes >configure:20456: checking for PCRE >configure:20463: $PKG_CONFIG --exists --print-errors "libpcre" >configure:20466: $? = 0 >configure:20479: $PKG_CONFIG --exists --print-errors "libpcre" >configure:20482: $? = 0 >configure:20541: result: yes >configure:20547: checking for EXPAT >configure:20554: $PKG_CONFIG --exists --print-errors "expat" >configure:20557: $? = 0 >configure:20570: $PKG_CONFIG --exists --print-errors "expat" >configure:20573: $? = 0 >configure:20632: result: yes >configure:20638: checking for ZLIB >configure:20645: $PKG_CONFIG --exists --print-errors "zlib" >configure:20648: $? = 0 >configure:20661: $PKG_CONFIG --exists --print-errors "zlib" >configure:20664: $? = 0 >configure:20723: result: yes >configure:20729: checking for PLPLOT >configure:20736: $PKG_CONFIG --exists --print-errors "plplotd" >Package plplotd was not found in the pkg-config search path. >Perhaps you should add the directory containing `plplotd.pc' >to the PKG_CONFIG_PATH environment variable >No package 'plplotd' found >configure:20739: $? = 1 >configure:20752: $PKG_CONFIG --exists --print-errors "plplotd" >Package plplotd was not found in the pkg-config search path. >Perhaps you should add the directory containing `plplotd.pc' >to the PKG_CONFIG_PATH environment variable >No package 'plplotd' found >configure:20755: $? = 1 >configure:20768: result: no >No package 'plplotd' found >configure:20786: checking for PLPLOT >configure:20793: $PKG_CONFIG --exists --print-errors "plplot" >configure:20796: $? = 0 >configure:20809: $PKG_CONFIG --exists --print-errors "plplot" >configure:20812: $? = 0 >configure:20871: result: yes >configure:21016: checking for purify >configure:21028: result: no >configure:21071: checking for cygwin >configure:21081: result: no >configure:21206: checking for savestats >configure:21219: result: no >configure:21339: checking that generated files are newer than configure >configure:21345: result: done >configure:21429: creating ./config.status > >## ---------------------- ## >## Running config.status. ## >## ---------------------- ## > >This file was extended by EMBOSS config.status 6.6.0, which was >generated by GNU Autoconf 2.69. Invocation command line was > > CONFIG_FILES = > CONFIG_HEADERS = > CONFIG_LINKS = > CONFIG_COMMANDS = > $ ./config.status > >on login1 > >config.status:1283: creating Makefile >config.status:1283: creating ajax/Makefile >config.status:1283: creating ajax/acd/Makefile >config.status:1283: creating ajax/ajaxdb/Makefile >config.status:1283: creating ajax/core/Makefile >config.status:1283: creating ajax/ensembl/Makefile >config.status:1283: creating ajax/expat/Makefile >config.status:1283: creating ajax/graphics/Makefile >config.status:1283: creating ajax/pcre/Makefile >config.status:1283: creating ajax/zlib/Makefile >config.status:1283: creating doc/Makefile >config.status:1283: creating doc/manuals/Makefile >config.status:1283: creating doc/programs/Makefile >config.status:1283: creating doc/programs/html/Makefile >config.status:1283: creating doc/programs/text/Makefile >config.status:1283: creating doc/tutorials/Makefile >config.status:1283: creating emboss/Makefile >config.status:1283: creating emboss/acd/Makefile >config.status:1283: creating emboss/data/AAINDEX/Makefile >config.status:1283: creating emboss/data/CODONS/Makefile >config.status:1283: creating emboss/data/JASPAR_CNE/Makefile >config.status:1283: creating emboss/data/JASPAR_CORE/Makefile >config.status:1283: creating emboss/data/JASPAR_FAM/Makefile >config.status:1283: creating emboss/data/JASPAR_PBM/Makefile >config.status:1283: creating emboss/data/JASPAR_PBM_HLH/Makefile >config.status:1283: creating emboss/data/JASPAR_PBM_HOMEO/Makefile >config.status:1283: creating emboss/data/JASPAR_PHYLOFACTS/Makefile >config.status:1283: creating emboss/data/JASPAR_POLII/Makefile >config.status:1283: creating emboss/data/JASPAR_SPLICE/Makefile >config.status:1283: creating emboss/data/Makefile >config.status:1283: creating emboss/data/OBO/Makefile >config.status:1283: creating emboss/data/PRINTS/Makefile >config.status:1283: creating emboss/data/PROSITE/Makefile >config.status:1283: creating emboss/data/REBASE/Makefile >config.status:1283: creating emboss/data/TAXONOMY/Makefile >config.status:1283: creating emboss/index/Makefile >config.status:1283: creating jemboss/Makefile >config.status:1283: creating jemboss/runJemboss.sh >config.status:1283: creating jemboss/images/Makefile >config.status:1283: creating jemboss/lib/Makefile >config.status:1283: creating jemboss/lib/axis/Makefile >config.status:1283: creating jemboss/resources/Makefile >config.status:1283: creating jemboss/utils/Makefile >config.status:1283: creating nucleus/Makefile >config.status:1283: creating plplot/Makefile >config.status:1283: creating plplot/lib/Makefile >config.status:1283: creating test/Makefile >config.status:1283: creating test/data/Makefile >config.status:1283: creating test/embl/Makefile >config.status:1283: creating test/genbank/Makefile >config.status:1283: creating test/pir/Makefile >config.status:1283: creating test/swiss/Makefile >config.status:1283: creating test/swnew/Makefile >config.status:1283: creating test/testdb/Makefile >config.status:1283: creating ajax/core/config.h >config.status:1512: executing depfiles commands >config.status:1512: executing libtool commands > >## ---------------- ## >## Cache variables. ## >## ---------------- ## > >ac_cv_build=x86_64-pc-linux-gnu >ac_cv_c_bigendian=no >ac_cv_c_compiler_gnu=yes >ac_cv_c_const=yes >ac_cv_c_inline=inline >ac_cv_cxx_compiler_gnu=yes >ac_cv_env_ANT_set= >ac_cv_env_ANT_value= >ac_cv_env_AXIS2C_CFLAGS_set= >ac_cv_env_AXIS2C_CFLAGS_value= >ac_cv_env_AXIS2C_LIBS_set= >ac_cv_env_AXIS2C_LIBS_value= >ac_cv_env_CCC_set= >ac_cv_env_CCC_value= >ac_cv_env_CC_set= >ac_cv_env_CC_value= >ac_cv_env_CFLAGS_set=set >ac_cv_env_CFLAGS_value='-O2 -pipe -O2 -pipe -march=native -ftree-vectorize' >ac_cv_env_CPPFLAGS_set= >ac_cv_env_CPPFLAGS_value= >ac_cv_env_CPP_set= >ac_cv_env_CPP_value= >ac_cv_env_CXXCPP_set= >ac_cv_env_CXXCPP_value= >ac_cv_env_CXXFLAGS_set=set >ac_cv_env_CXXFLAGS_value='-O2 -pipe -O2 -pipe -march=native -ftree-vectorize' >ac_cv_env_CXX_set= >ac_cv_env_CXX_value= >ac_cv_env_EXPAT_CFLAGS_set= >ac_cv_env_EXPAT_CFLAGS_value= >ac_cv_env_EXPAT_LIBS_set= >ac_cv_env_EXPAT_LIBS_value= >ac_cv_env_JAR_set= >ac_cv_env_JAR_value= >ac_cv_env_JAVAC_set=set >ac_cv_env_JAVAC_value=/home/mmokrejs/.gentoo/apps/gentoo/java-config-2/current-user-vm/bin/javac >ac_cv_env_JAVA_set= >ac_cv_env_JAVA_value= >ac_cv_env_LDFLAGS_set=set >ac_cv_env_LDFLAGS_value='-Wl,-O1 -Wl,--as-needed -static' >ac_cv_env_LIBS_set= >ac_cv_env_LIBS_value= >ac_cv_env_LT_SYS_LIBRARY_PATH_set= >ac_cv_env_LT_SYS_LIBRARY_PATH_value= >ac_cv_env_PCRE_CFLAGS_set= >ac_cv_env_PCRE_CFLAGS_value= >ac_cv_env_PCRE_LIBS_set= >ac_cv_env_PCRE_LIBS_value= >ac_cv_env_PKG_CONFIG_LIBDIR_set= >ac_cv_env_PKG_CONFIG_LIBDIR_value= >ac_cv_env_PKG_CONFIG_PATH_set=set >ac_cv_env_PKG_CONFIG_PATH_value=/apps/gentoo/usr/lib64/pkgconfig:/apps/gentoo/usr/share/pkgconfig >ac_cv_env_PKG_CONFIG_set= >ac_cv_env_PKG_CONFIG_value= >ac_cv_env_PLPLOT_CFLAGS_set= >ac_cv_env_PLPLOT_CFLAGS_value= >ac_cv_env_PLPLOT_LIBS_set= >ac_cv_env_PLPLOT_LIBS_value= >ac_cv_env_XMKMF_set= >ac_cv_env_XMKMF_value= >ac_cv_env_ZLIB_CFLAGS_set= >ac_cv_env_ZLIB_CFLAGS_value= >ac_cv_env_ZLIB_LIBS_set= >ac_cv_env_ZLIB_LIBS_value= >ac_cv_env_build_alias_set=set >ac_cv_env_build_alias_value=x86_64-pc-linux-gnu >ac_cv_env_host_alias_set=set >ac_cv_env_host_alias_value=x86_64-pc-linux-gnu >ac_cv_env_target_alias_set= >ac_cv_env_target_alias_value= >ac_cv_file___emboss_index_edam_xac=yes >ac_cv_func__doprnt=no >ac_cv_func_fork=yes >ac_cv_func_fork_works=yes >ac_cv_func_getentropy=no >ac_cv_func_getpgrp_void=yes >ac_cv_func_memmove=yes >ac_cv_func_strftime=yes >ac_cv_func_vfork=yes >ac_cv_func_vfork_works=yes >ac_cv_func_vprintf=yes >ac_cv_header_TargetConfig_h=no >ac_cv_header_dirent_dirent_h=yes >ac_cv_header_dlfcn_h=yes >ac_cv_header_inttypes_h=yes >ac_cv_header_memory_h=yes >ac_cv_header_stdc=yes >ac_cv_header_stdint_h=yes >ac_cv_header_stdlib_h=yes >ac_cv_header_string_h=yes >ac_cv_header_strings_h=yes >ac_cv_header_sys_stat_h=yes >ac_cv_header_sys_types_h=yes >ac_cv_header_unistd_h=yes >ac_cv_header_vfork_h=no >ac_cv_host=x86_64-pc-linux-gnu >ac_cv_lib_c_socket=yes >ac_cv_lib_m_main=yes >ac_cv_objext=o >ac_cv_path_EGREP='/apps/gentoo/bin/grep -E' >ac_cv_path_FGREP='/apps/gentoo/bin/grep -F' >ac_cv_path_GREP=/apps/gentoo/bin/grep >ac_cv_path_PKG_CONFIG=/apps/gentoo/usr/bin/x86_64-pc-linux-gnu-pkg-config >ac_cv_path_SED=/apps/gentoo/bin/sed >ac_cv_path_install='/apps/gentoo/usr/bin/install -c' >ac_cv_path_lt_DD=/apps/gentoo/bin/dd >ac_cv_path_mkdir=/apps/gentoo/bin/mkdir >ac_cv_prog_AR=x86_64-pc-linux-gnu-ar >ac_cv_prog_AWK=gawk >ac_cv_prog_CC=x86_64-pc-linux-gnu-gcc >ac_cv_prog_CPP='x86_64-pc-linux-gnu-gcc -E' >ac_cv_prog_CXX=x86_64-pc-linux-gnu-g++ >ac_cv_prog_CXXCPP='x86_64-pc-linux-gnu-g++ -E' >ac_cv_prog_OBJDUMP=x86_64-pc-linux-gnu-objdump >ac_cv_prog_RANLIB=x86_64-pc-linux-gnu-ranlib >ac_cv_prog_STRIP=x86_64-pc-linux-gnu-strip >ac_cv_prog_cc_c89= >ac_cv_prog_cc_g=yes >ac_cv_prog_cxx_g=yes >ac_cv_prog_make_make_set=yes >ac_cv_search_opendir='none required' >ac_cv_struct_tm=time.h >ac_cv_type_pid_t=yes >ac_cv_type_size_t=yes >am_cv_CC_dependencies_compiler_type=none >am_cv_CXX_dependencies_compiler_type=none >am_cv_make_support_nested_variables=yes >am_cv_prog_cc_c_o=yes >lt_cv_ar_at_file=@ >lt_cv_archive_cmds_need_lc=no >lt_cv_deplibs_check_method=pass_all >lt_cv_file_magic_cmd='$MAGIC_CMD' >lt_cv_file_magic_test_file= >lt_cv_ld_reload_flag=-r >lt_cv_nm_interface='BSD nm' >lt_cv_objdir=.libs >lt_cv_path_LD=/apps/gentoo/usr/x86_64-pc-linux-gnu/bin/ld >lt_cv_path_LDCXX='/apps/gentoo/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64' >lt_cv_path_NM='/apps/gentoo/usr/bin/x86_64-pc-linux-gnu-nm -B' >lt_cv_path_mainfest_tool=no >lt_cv_prog_compiler_c_o=yes >lt_cv_prog_compiler_c_o_CXX=yes >lt_cv_prog_compiler_pic='-fPIC -DPIC' >lt_cv_prog_compiler_pic_CXX='-fPIC -DPIC' >lt_cv_prog_compiler_pic_works=yes >lt_cv_prog_compiler_pic_works_CXX=yes >lt_cv_prog_compiler_rtti_exceptions=no >lt_cv_prog_compiler_static_works=yes >lt_cv_prog_compiler_static_works_CXX=yes >lt_cv_prog_gnu_ld=yes >lt_cv_prog_gnu_ldcxx=yes >lt_cv_sharedlib_from_linklib_cmd='printf %s\n' >lt_cv_shlibpath_overrides_runpath=no >lt_cv_sys_global_symbol_pipe='sed -n -e '\''s/^.*[ ]\([ABCDGIRSTW][ABCDGIRSTW]*\)[ ][ ]*\([_A-Za-z][_A-Za-z0-9]*\)$/\1 \2 \2/p'\'' | sed '\''/ __gnu_lto/d'\''' >lt_cv_sys_global_symbol_to_c_name_address='sed -n -e '\''s/^: \(.*\) .*$/ {"\1", (void *) 0},/p'\'' -e '\''s/^[ABCDGIRSTW][ABCDGIRSTW]* .* \(.*\)$/ {"\1", (void *) \&\1},/p'\''' >lt_cv_sys_global_symbol_to_c_name_address_lib_prefix='sed -n -e '\''s/^: \(.*\) .*$/ {"\1", (void *) 0},/p'\'' -e '\''s/^[ABCDGIRSTW][ABCDGIRSTW]* .* \(lib.*\)$/ {"\1", (void *) \&\1},/p'\'' -e '\''s/^[ABCDGIRSTW][ABCDGIRSTW]* .* \(.*\)$/ {"lib\1", (void *) \&\1},/p'\''' >lt_cv_sys_global_symbol_to_cdecl='sed -n -e '\''s/^T .* \(.*\)$/extern int \1();/p'\'' -e '\''s/^[ABCDGIRSTW][ABCDGIRSTW]* .* \(.*\)$/extern char \1;/p'\''' >lt_cv_sys_global_symbol_to_import= >lt_cv_sys_max_cmd_len=3932160 >lt_cv_to_host_file_cmd=func_convert_file_noop >lt_cv_to_tool_file_cmd=func_convert_file_noop >lt_cv_truncate_bin='/apps/gentoo/bin/dd bs=4096 count=1' >pkg_cv_EXPAT_CFLAGS= >pkg_cv_EXPAT_LIBS=-lexpat >pkg_cv_PCRE_CFLAGS= >pkg_cv_PCRE_LIBS=-lpcre >pkg_cv_PLPLOT_CFLAGS=-I/apps/gentoo/usr/include/plplot >pkg_cv_PLPLOT_LIBS=-lplplot >pkg_cv_ZLIB_CFLAGS= >pkg_cv_ZLIB_LIBS=-lz > >## ----------------- ## >## Output variables. ## >## ----------------- ## > >ACLOCAL='${SHELL} /apps/gentoo/var/tmp/portage/sci-biology/emboss-6.6.0-r1/work/EMBOSS-6.6.0/missing aclocal-1.15' >AJAX_FIXED_ROOT='\"/apps/gentoo/var/tmp/portage/sci-biology/emboss-6.6.0-r1/work/EMBOSS-6.6.0/emboss\"' >AJAX_SYSTEM='\"Linux\"' >AMDEPBACKSLASH='' >AMDEP_FALSE='' >AMDEP_TRUE='#' >AMPDF_FALSE='' >AMPDF_TRUE='#' >AMPNG_FALSE='' >AMPNG_TRUE='#' >AMTAR='$${TAR-tar}' >AM_BACKSLASH='\' >AM_DEFAULT_V='$(AM_DEFAULT_VERBOSITY)' >AM_DEFAULT_VERBOSITY='1' >AM_V='$(V)' >ANT='' >AR='x86_64-pc-linux-gnu-ar' >AUTOCONF='${SHELL} /apps/gentoo/var/tmp/portage/sci-biology/emboss-6.6.0-r1/work/EMBOSS-6.6.0/missing autoconf' >AUTOHEADER='${SHELL} /apps/gentoo/var/tmp/portage/sci-biology/emboss-6.6.0-r1/work/EMBOSS-6.6.0/missing autoheader' >AUTOMAKE='${SHELL} /apps/gentoo/var/tmp/portage/sci-biology/emboss-6.6.0-r1/work/EMBOSS-6.6.0/missing automake-1.15' >AWK='gawk' >AXIS2C_CFLAGS='' >AXIS2C_CPPFLAGS='' >AXIS2C_LDFLAGS='' >AXIS2C_LIBS='' >CC='x86_64-pc-linux-gnu-gcc' >CCDEPMODE='depmode=none' >CFLAGS='-O2 -pipe -O2 -pipe -march=native -ftree-vectorize -O2' >CPP='x86_64-pc-linux-gnu-gcc -E' >CPPFLAGS=' -DAJ_LinuxLF -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64' >CXX='x86_64-pc-linux-gnu-g++' >CXXCPP='x86_64-pc-linux-gnu-g++ -E' >CXXDEPMODE='depmode=none' >CXXFLAGS='-O2 -pipe -O2 -pipe -march=native -ftree-vectorize' >CYGPATH_W='echo' >DEFS='-DHAVE_CONFIG_H' >DEPDIR='.deps' >DEVWARN_CFLAGS='' >DLLTOOL='false' >DSYMUTIL='' >DUMPBIN='' >ECHO_C='' >ECHO_N='-n' >ECHO_T='' >EGREP='/apps/gentoo/bin/grep -E' >EMBOSS_TOP='/apps/gentoo/var/tmp/portage/sci-biology/emboss-6.6.0-r1/work/EMBOSS-6.6.0' >ESYSTEMLIBS_FALSE='#' >ESYSTEMLIBS_TRUE='' >EXEEXT='' >EXPAT_CFLAGS='' >EXPAT_LIBS='-lexpat' >FGREP='/apps/gentoo/bin/grep -F' >GREP='/apps/gentoo/bin/grep' >HAVE_MEMMOVE='' >HAVE_STRERROR='' >INSTALL_DATA='${INSTALL} -m 644' >INSTALL_PROGRAM='${INSTALL}' >INSTALL_SCRIPT='${INSTALL}' >INSTALL_STRIP_PROGRAM='$(install_sh) -c -s' >ISAIXIA64_FALSE='' >ISAIXIA64_TRUE='#' >ISCYGWIN_FALSE='' >ISCYGWIN_TRUE='#' >ISSHARED_FALSE='#' >ISSHARED_TRUE='' >JAR='' >JAVA='' >JAVAC='/home/mmokrejs/.gentoo/apps/gentoo/java-config-2/current-user-vm/bin/javac' >JAVA_BUILD_FALSE='' >JAVA_BUILD_TRUE='#' >JAVA_CFLAGS='' >JAVA_CPPFLAGS=' -DNO_AUTH' >JAVA_LDFLAGS='' >LD='/apps/gentoo/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64' >LDFLAGS='-Wl,-O1 -Wl,--as-needed -static' >LIBOBJS='' >LIBS='-lm ' >LIBTOOL='$(SHELL) $(top_builddir)/libtool' >LIPO='' >LN_S='ln -s' >LTLIBOBJS='' >LT_SYS_LIBRARY_PATH='' >MAKEINFO='${SHELL} /apps/gentoo/var/tmp/portage/sci-biology/emboss-6.6.0-r1/work/EMBOSS-6.6.0/missing makeinfo' >MANIFEST_TOOL=':' >MKDIR_P='/apps/gentoo/bin/mkdir -p' >MYSQL_CFLAGS='' >MYSQL_CONFIG='' >MYSQL_CPPFLAGS='' >MYSQL_LDFLAGS='' >MYSQL_VERSION='' >NEEDAJAX_FALSE='' >NEEDAJAX_TRUE='#' >NM='/apps/gentoo/usr/bin/x86_64-pc-linux-gnu-nm -B' >NMEDIT='' >OBJDUMP='x86_64-pc-linux-gnu-objdump' >OBJEXT='o' >OTOOL64='' >OTOOL='' >PACKAGE='EMBOSS' >PACKAGE_BUGREPORT='emboss-bug@emboss.open-bio.org' >PACKAGE_NAME='EMBOSS' >PACKAGE_STRING='EMBOSS 6.6.0' >PACKAGE_TARNAME='EMBOSS' >PACKAGE_URL='http://emboss.open-bio.org/' >PACKAGE_VERSION='6.6.0' >PATH_SEPARATOR=':' >PCRE_CFLAGS='' >PCRE_DATE='' >PCRE_LIBS='-lpcre' >PCRE_LIB_VERSION='' >PCRE_MAJOR='' >PCRE_MINOR='' >PCRE_POSIXLIB_VERSION='' >PCRE_VERSION='' >PKG_CONFIG='/apps/gentoo/usr/bin/x86_64-pc-linux-gnu-pkg-config' >PKG_CONFIG_LIBDIR='' >PKG_CONFIG_PATH='/apps/gentoo/usr/lib64/pkgconfig:/apps/gentoo/usr/share/pkgconfig' >PLPLOT_CFLAGS='-I/apps/gentoo/usr/include/plplot' >PLPLOT_LIBS='-lplplot' >POSIX_MALLOC_THRESHOLD='' >POSTGRESQL_CFLAGS='' >POSTGRESQL_CONFIG='' >POSTGRESQL_CPPFLAGS='' >POSTGRESQL_LDFLAGS='' >POSTGRESQL_VERSION='' >PURIFY_FALSE='' >PURIFY_TRUE='#' >RANLIB='x86_64-pc-linux-gnu-ranlib' >SED='/apps/gentoo/bin/sed' >SET_MAKE='' >SHELL='/apps/gentoo/bin/bash' >STRIP='x86_64-pc-linux-gnu-strip' >VERSION='6.6.0' >WARN_CFLAGS='' >XLIB='' >XMKMF='' >X_CFLAGS='' >X_EXTRA_LIBS='' >X_LIBS='' >X_PRE_LIBS='' >ZLIB_CFLAGS='' >ZLIB_LIBS='-lz' >ac_ct_AR='' >ac_ct_CC='' >ac_ct_CXX='' >ac_ct_DUMPBIN='' >am__EXEEXT_FALSE='' >am__EXEEXT_TRUE='#' >am__fastdepCC_FALSE='' >am__fastdepCC_TRUE='#' >am__fastdepCXX_FALSE='' >am__fastdepCXX_TRUE='#' >am__include='include' >am__isrc='' >am__leading_dot='.' >am__nodep='' >am__quote='' >am__tar='$${TAR-tar} chof - "$$tardir"' >am__untar='$${TAR-tar} xf -' >bindir='${exec_prefix}/bin' >build='x86_64-pc-linux-gnu' >build_alias='x86_64-pc-linux-gnu' >build_cpu='x86_64' >build_os='linux-gnu' >build_vendor='pc' >datadir='/apps/gentoo/usr/share' >datarootdir='${prefix}/share' >docdir='/apps/gentoo/usr/share/doc/emboss-6.6.0-r1' >dvidir='${docdir}' >exec_prefix='${prefix}' >host='x86_64-pc-linux-gnu' >host_alias='x86_64-pc-linux-gnu' >host_cpu='x86_64' >host_os='linux-gnu' >host_vendor='pc' >htmldir='/apps/gentoo/usr/share/doc/emboss-6.6.0-r1/html' >includedir='${prefix}/include' >infodir='/apps/gentoo/usr/share/info' >install_sh='${SHELL} /apps/gentoo/var/tmp/portage/sci-biology/emboss-6.6.0-r1/work/EMBOSS-6.6.0/install-sh' >libdir='/apps/gentoo/usr/lib64' >libexecdir='${exec_prefix}/libexec' >localedir='${datarootdir}/locale' >localstatedir='/apps/gentoo/var/lib' >mandir='/apps/gentoo/usr/share/man' >mkdir_p='$(MKDIR_P)' >oldincludedir='/usr/include' >pdfdir='${docdir}' >prefix='/apps/gentoo/usr' >program_transform_name='s,x,x,' >psdir='${docdir}' >sbindir='${exec_prefix}/sbin' >sharedstatedir='${prefix}/com' >sysconfdir='/apps/gentoo/etc' >target_alias='' > >## ----------- ## >## confdefs.h. ## >## ----------- ## > >/* confdefs.h */ >#define PACKAGE_NAME "EMBOSS" >#define PACKAGE_TARNAME "EMBOSS" >#define PACKAGE_VERSION "6.6.0" >#define PACKAGE_STRING "EMBOSS 6.6.0" >#define PACKAGE_BUGREPORT "emboss-bug@emboss.open-bio.org" >#define PACKAGE_URL "http://emboss.open-bio.org/" >#define PACKAGE "EMBOSS" >#define VERSION "6.6.0" >#define STDC_HEADERS 1 >#define HAVE_SYS_TYPES_H 1 >#define HAVE_SYS_STAT_H 1 >#define HAVE_STDLIB_H 1 >#define HAVE_STRING_H 1 >#define HAVE_MEMORY_H 1 >#define HAVE_STRINGS_H 1 >#define HAVE_INTTYPES_H 1 >#define HAVE_STDINT_H 1 >#define HAVE_UNISTD_H 1 >#define HAVE_DLFCN_H 1 >#define LT_OBJDIR ".libs/" >#define X_DISPLAY_MISSING 1 >#define HAVE_DIRENT_H 1 >#define STDC_HEADERS 1 >#define HAVE_UNISTD_H 1 >#define GETPGRP_VOID 1 >#define HAVE_STRFTIME 1 >#define HAVE_FORK 1 >#define HAVE_VFORK 1 >#define HAVE_WORKING_VFORK 1 >#define HAVE_WORKING_FORK 1 >#define HAVE_VPRINTF 1 >#define HAVE_MEMMOVE 1 >#define HAVE_LIBM 1 > >configure: exit 0
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