This file contains any messages produced by compilers while running configure, to aid debugging if configure makes a mistake. It was created by coot configure 0.8.2, which was generated by GNU Autoconf 2.69. Invocation command line was $ /var/tmp/portage/sci-chemistry/coot-0.8.2-r1/work/coot-0.8.2/configure --prefix=/usr --build=x86_64-pc-linux-gnu --host=x86_64-pc-linux-gnu --mandir=/usr/share/man --infodir=/usr/share/info --datadir=/usr/share --sysconfdir=/etc --localstatedir=/var/lib --disable-dependency-tracking --disable-silent-rules --libdir=/usr/lib64 --docdir=/usr/share/doc/coot-0.8.2-r1 --enable-shared --disable-static --with-goocanvas-prefix=/usr --with-guile=/usr --with-python=/usr --with-guile-gtk --with-pygtk=/usr --with-sqlite3 --with-boost=/usr ## --------- ## ## Platform. ## ## --------- ## hostname = srv5 uname -m = x86_64 uname -r = 4.6.4-gentoo uname -s = Linux uname -v = #1 SMP PREEMPT Thu Jul 14 21:34:35 CEST 2016 /usr/bin/uname -p = Intel(R) Core(TM)2 Quad CPU Q9550 @ 2.83GHz /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: /var/tmp/portage/sci-chemistry/coot-0.8.2-r1/temp/python2.7/bin PATH: /usr/lib/portage/python2.7/ebuild-helpers/xattr PATH: /usr/lib/portage/python2.7/ebuild-helpers PATH: /usr/local/sbin PATH: /usr/local/bin PATH: /usr/sbin PATH: /usr/bin PATH: /sbin PATH: /bin PATH: /opt/bin PATH: /usr/x86_64-pc-linux-gnu/gcc-bin/4.9.4 PATH: /opt/eagle/bin ## ----------- ## ## Core tests. ## ## ----------- ## configure:2672: checking for a BSD-compatible install configure:2740: result: /usr/lib/portage/python2.7/ebuild-helpers/xattr/install -c configure:2751: checking whether build environment is sane configure:2806: result: yes configure:2957: checking for a thread-safe mkdir -p configure:2996: result: /bin/mkdir -p configure:3003: checking for gawk configure:3019: found /usr/bin/gawk configure:3030: result: gawk configure:3041: checking whether make sets $(MAKE) configure:3063: result: yes configure:3092: checking whether make supports nested variables configure:3109: result: yes configure:3264: checking for style of include used by make configure:3292: result: GNU configure:3323: checking for x86_64-pc-linux-gnu-gcc configure:3339: found /usr/bin/x86_64-pc-linux-gnu-gcc configure:3350: result: x86_64-pc-linux-gnu-gcc configure:3619: checking for C compiler version configure:3628: x86_64-pc-linux-gnu-gcc --version >&5 x86_64-pc-linux-gnu-gcc (Gentoo 4.9.4) 4.9.4 20160708 (prerelease) Copyright (C) 2015 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:3639: $? = 0 configure:3628: x86_64-pc-linux-gnu-gcc -v >&5 Using built-in specs. COLLECT_GCC=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.4/x86_64-pc-linux-gnu-gcc COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-pc-linux-gnu/4.9.4/lto-wrapper Target: x86_64-pc-linux-gnu Configured with: /var/tmp/portage/sys-devel/gcc-4.9.4/work/gcc-4.9.4/configure --host=x86_64-pc-linux-gnu --build=x86_64-pc-linux-gnu --prefix=/usr --bindir=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.4 --includedir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.4/include --datadir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4 --mandir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/man --infodir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/info --with-gxx-include-dir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.4/include/g++-v4 --with-python-dir=/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/python --enable-languages=c,c++,java,objc,obj-c++,fortran,ada --enable-obsolete --disable-werror --with-system-zlib --enable-nls --without-included-gettext --enable-checking=release --with-bugurl=https://bugs.gentoo.org/ --with-pkgversion='Gentoo 4.9.4' --enable-libstdcxx-time --enable-shared --enable-threads=posix --enable-__cxa_atexit --enable-clocale=gnu --enable-multilib --with-multilib-list=m32,m64 --disable-altivec --disable-fixed-point --enable-targets=all --enable-libgomp --disable-libmudflap --disable-libssp --enable-libcilkrts --enable-vtable-verify --enable-libvtv --enable-lto --with-cloog --disable-isl-version-check --enable-libsanitizer Thread model: posix gcc version 4.9.4 20160708 (prerelease) (Gentoo 4.9.4) configure:3639: $? = 0 configure:3628: 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:3639: $? = 1 configure:3628: x86_64-pc-linux-gnu-gcc -qversion >&5 x86_64-pc-linux-gnu-gcc: error: unrecognized command line option '-qversion' x86_64-pc-linux-gnu-gcc: fatal error: no input files compilation terminated. configure:3639: $? = 1 configure:3659: checking whether the C compiler works configure:3681: x86_64-pc-linux-gnu-gcc -O2 -march=core2 -ggdb -pipe -Wl,-O1 -Wl,--as-needed conftest.c >&5 configure:3685: $? = 0 configure:3733: result: yes configure:3736: checking for C compiler default output file name configure:3738: result: a.out configure:3744: checking for suffix of executables configure:3751: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wl,-O1 -Wl,--as-needed conftest.c >&5 configure:3755: $? = 0 configure:3777: result: configure:3799: checking whether we are cross compiling configure:3807: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wl,-O1 -Wl,--as-needed conftest.c >&5 configure:3811: $? = 0 configure:3818: ./conftest configure:3822: $? = 0 configure:3837: result: no configure:3842: checking for suffix of object files configure:3864: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:3868: $? = 0 configure:3889: result: o configure:3893: checking whether we are using the GNU C compiler configure:3912: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:3912: $? = 0 configure:3921: result: yes configure:3930: checking whether x86_64-pc-linux-gnu-gcc accepts -g configure:3950: x86_64-pc-linux-gnu-gcc -c -g conftest.c >&5 configure:3950: $? = 0 configure:3991: result: yes configure:4008: checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89 configure:4071: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:4071: $? = 0 configure:4084: result: none needed configure:4109: checking whether x86_64-pc-linux-gnu-gcc understands -c and -o together configure:4131: x86_64-pc-linux-gnu-gcc -c conftest.c -o conftest2.o configure:4134: $? = 0 configure:4131: x86_64-pc-linux-gnu-gcc -c conftest.c -o conftest2.o configure:4134: $? = 0 configure:4146: result: yes configure:4165: checking dependency style of x86_64-pc-linux-gnu-gcc configure:4276: result: none configure:4292: checking for library containing strerror configure:4323: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wl,-O1 -Wl,--as-needed conftest.c >&5 configure:4323: $? = 0 configure:4340: result: none required configure:4356: checking for x86_64-pc-linux-gnu-gcc configure:4383: result: x86_64-pc-linux-gnu-gcc configure:4652: checking for C compiler version configure:4661: x86_64-pc-linux-gnu-gcc --version >&5 x86_64-pc-linux-gnu-gcc (Gentoo 4.9.4) 4.9.4 20160708 (prerelease) Copyright (C) 2015 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:4672: $? = 0 configure:4661: x86_64-pc-linux-gnu-gcc -v >&5 Using built-in specs. COLLECT_GCC=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.4/x86_64-pc-linux-gnu-gcc COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-pc-linux-gnu/4.9.4/lto-wrapper Target: x86_64-pc-linux-gnu Configured with: /var/tmp/portage/sys-devel/gcc-4.9.4/work/gcc-4.9.4/configure --host=x86_64-pc-linux-gnu --build=x86_64-pc-linux-gnu --prefix=/usr --bindir=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.4 --includedir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.4/include --datadir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4 --mandir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/man --infodir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/info --with-gxx-include-dir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.4/include/g++-v4 --with-python-dir=/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/python --enable-languages=c,c++,java,objc,obj-c++,fortran,ada --enable-obsolete --disable-werror --with-system-zlib --enable-nls --without-included-gettext --enable-checking=release --with-bugurl=https://bugs.gentoo.org/ --with-pkgversion='Gentoo 4.9.4' --enable-libstdcxx-time --enable-shared --enable-threads=posix --enable-__cxa_atexit --enable-clocale=gnu --enable-multilib --with-multilib-list=m32,m64 --disable-altivec --disable-fixed-point --enable-targets=all --enable-libgomp --disable-libmudflap --disable-libssp --enable-libcilkrts --enable-vtable-verify --enable-libvtv --enable-lto --with-cloog --disable-isl-version-check --enable-libsanitizer Thread model: posix gcc version 4.9.4 20160708 (prerelease) (Gentoo 4.9.4) configure:4672: $? = 0 configure:4661: 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:4672: $? = 1 configure:4661: x86_64-pc-linux-gnu-gcc -qversion >&5 x86_64-pc-linux-gnu-gcc: error: unrecognized command line option '-qversion' x86_64-pc-linux-gnu-gcc: fatal error: no input files compilation terminated. configure:4672: $? = 1 configure:4676: checking whether we are using the GNU C compiler configure:4704: result: yes configure:4713: checking whether x86_64-pc-linux-gnu-gcc accepts -g configure:4774: result: yes configure:4791: checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89 configure:4867: result: none needed configure:4892: checking whether x86_64-pc-linux-gnu-gcc understands -c and -o together configure:4929: result: yes configure:4948: checking dependency style of x86_64-pc-linux-gnu-gcc configure:5059: result: none configure:5082: checking for x86_64-pc-linux-gnu-gcc configure:5109: result: x86_64-pc-linux-gnu-gcc configure:5378: checking for C compiler version configure:5387: x86_64-pc-linux-gnu-gcc --version >&5 x86_64-pc-linux-gnu-gcc (Gentoo 4.9.4) 4.9.4 20160708 (prerelease) Copyright (C) 2015 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:5398: $? = 0 configure:5387: x86_64-pc-linux-gnu-gcc -v >&5 Using built-in specs. COLLECT_GCC=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.4/x86_64-pc-linux-gnu-gcc COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-pc-linux-gnu/4.9.4/lto-wrapper Target: x86_64-pc-linux-gnu Configured with: /var/tmp/portage/sys-devel/gcc-4.9.4/work/gcc-4.9.4/configure --host=x86_64-pc-linux-gnu --build=x86_64-pc-linux-gnu --prefix=/usr --bindir=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.4 --includedir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.4/include --datadir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4 --mandir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/man --infodir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/info --with-gxx-include-dir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.4/include/g++-v4 --with-python-dir=/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/python --enable-languages=c,c++,java,objc,obj-c++,fortran,ada --enable-obsolete --disable-werror --with-system-zlib --enable-nls --without-included-gettext --enable-checking=release --with-bugurl=https://bugs.gentoo.org/ --with-pkgversion='Gentoo 4.9.4' --enable-libstdcxx-time --enable-shared --enable-threads=posix --enable-__cxa_atexit --enable-clocale=gnu --enable-multilib --with-multilib-list=m32,m64 --disable-altivec --disable-fixed-point --enable-targets=all --enable-libgomp --disable-libmudflap --disable-libssp --enable-libcilkrts --enable-vtable-verify --enable-libvtv --enable-lto --with-cloog --disable-isl-version-check --enable-libsanitizer Thread model: posix gcc version 4.9.4 20160708 (prerelease) (Gentoo 4.9.4) configure:5398: $? = 0 configure:5387: 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:5398: $? = 1 configure:5387: x86_64-pc-linux-gnu-gcc -qversion >&5 x86_64-pc-linux-gnu-gcc: error: unrecognized command line option '-qversion' x86_64-pc-linux-gnu-gcc: fatal error: no input files compilation terminated. configure:5398: $? = 1 configure:5402: checking whether we are using the GNU C compiler configure:5430: result: yes configure:5439: checking whether x86_64-pc-linux-gnu-gcc accepts -g configure:5500: result: yes configure:5517: checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89 configure:5593: result: none needed configure:5618: checking whether x86_64-pc-linux-gnu-gcc understands -c and -o together configure:5655: result: yes configure:5674: checking dependency style of x86_64-pc-linux-gnu-gcc configure:5785: result: none configure:5807: checking how to run the C preprocessor configure:5838: x86_64-pc-linux-gnu-gcc -E conftest.c configure:5838: $? = 0 configure:5852: x86_64-pc-linux-gnu-gcc -E conftest.c conftest.c:11:28: fatal error: ac_nonexistent.h: No such file or directory #include ^ compilation terminated. configure:5852: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "coot" | #define PACKAGE_TARNAME "coot" | #define PACKAGE_VERSION "0.8.2" | #define PACKAGE_STRING "coot 0.8.2" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "coot" | #define VERSION "0.8.2" | /* end confdefs.h. */ | #include configure:5877: result: x86_64-pc-linux-gnu-gcc -E configure:5897: x86_64-pc-linux-gnu-gcc -E conftest.c configure:5897: $? = 0 configure:5911: x86_64-pc-linux-gnu-gcc -E conftest.c conftest.c:11:28: fatal error: ac_nonexistent.h: No such file or directory #include ^ compilation terminated. configure:5911: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "coot" | #define PACKAGE_TARNAME "coot" | #define PACKAGE_VERSION "0.8.2" | #define PACKAGE_STRING "coot 0.8.2" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "coot" | #define VERSION "0.8.2" | /* end confdefs.h. */ | #include configure:5940: checking for grep that handles long lines and -e configure:5998: result: /bin/grep configure:6003: checking for egrep configure:6065: result: /bin/grep -E configure:6070: checking for ANSI C header files configure:6090: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:6090: $? = 0 configure:6163: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wl,-O1 -Wl,--as-needed conftest.c >&5 configure:6163: $? = 0 configure:6163: ./conftest configure:6163: $? = 0 configure:6174: result: yes configure:6197: checking for x86_64-pc-linux-gnu-g++ configure:6213: found /usr/bin/x86_64-pc-linux-gnu-g++ configure:6224: result: x86_64-pc-linux-gnu-g++ configure:6295: checking for C++ compiler version configure:6304: x86_64-pc-linux-gnu-g++ --version >&5 x86_64-pc-linux-gnu-g++ (Gentoo 4.9.4) 4.9.4 20160708 (prerelease) Copyright (C) 2015 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:6315: $? = 0 configure:6304: x86_64-pc-linux-gnu-g++ -v >&5 Using built-in specs. COLLECT_GCC=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.4/x86_64-pc-linux-gnu-g++ COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-pc-linux-gnu/4.9.4/lto-wrapper Target: x86_64-pc-linux-gnu Configured with: /var/tmp/portage/sys-devel/gcc-4.9.4/work/gcc-4.9.4/configure --host=x86_64-pc-linux-gnu --build=x86_64-pc-linux-gnu --prefix=/usr --bindir=/usr/x86_64-pc-linux-gnu/gcc-bin/4.9.4 --includedir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.4/include --datadir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4 --mandir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/man --infodir=/usr/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/info --with-gxx-include-dir=/usr/lib/gcc/x86_64-pc-linux-gnu/4.9.4/include/g++-v4 --with-python-dir=/share/gcc-data/x86_64-pc-linux-gnu/4.9.4/python --enable-languages=c,c++,java,objc,obj-c++,fortran,ada --enable-obsolete --disable-werror --with-system-zlib --enable-nls --without-included-gettext --enable-checking=release --with-bugurl=https://bugs.gentoo.org/ --with-pkgversion='Gentoo 4.9.4' --enable-libstdcxx-time --enable-shared --enable-threads=posix --enable-__cxa_atexit --enable-clocale=gnu --enable-multilib --with-multilib-list=m32,m64 --disable-altivec --disable-fixed-point --enable-targets=all --enable-libgomp --disable-libmudflap --disable-libssp --enable-libcilkrts --enable-vtable-verify --enable-libvtv --enable-lto --with-cloog --disable-isl-version-check --enable-libsanitizer Thread model: posix gcc version 4.9.4 20160708 (prerelease) (Gentoo 4.9.4) configure:6315: $? = 0 configure:6304: 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:6315: $? = 1 configure:6304: x86_64-pc-linux-gnu-g++ -qversion >&5 x86_64-pc-linux-gnu-g++: error: unrecognized command line option '-qversion' x86_64-pc-linux-gnu-g++: fatal error: no input files compilation terminated. configure:6315: $? = 1 configure:6319: checking whether we are using the GNU C++ compiler configure:6338: x86_64-pc-linux-gnu-g++ -c -O2 -march=core2 -ggdb -pipe conftest.cpp >&5 configure:6338: $? = 0 configure:6347: result: yes configure:6356: checking whether x86_64-pc-linux-gnu-g++ accepts -g configure:6376: x86_64-pc-linux-gnu-g++ -c -g conftest.cpp >&5 configure:6376: $? = 0 configure:6417: result: yes configure:6442: checking dependency style of x86_64-pc-linux-gnu-g++ configure:6553: result: none configure:6598: checking build system type configure:6612: result: x86_64-pc-linux-gnu configure:6632: checking host system type configure:6645: result: x86_64-pc-linux-gnu configure:6686: checking how to print strings configure:6713: result: printf configure:6734: checking for a sed that does not truncate output configure:6798: result: /bin/sed configure:6816: checking for fgrep configure:6878: result: /bin/grep -F configure:6913: checking for ld used by x86_64-pc-linux-gnu-gcc configure:6980: result: /usr/x86_64-pc-linux-gnu/bin/ld configure:6987: checking if the linker (/usr/x86_64-pc-linux-gnu/bin/ld) is GNU ld configure:7002: result: yes configure:7014: checking for BSD- or MS-compatible name lister (nm) configure:7068: result: /usr/bin/x86_64-pc-linux-gnu-nm -B configure:7198: checking the name lister (/usr/bin/x86_64-pc-linux-gnu-nm -B) interface configure:7205: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:7208: /usr/bin/x86_64-pc-linux-gnu-nm -B "conftest.o" configure:7211: output 0000000000000000 B some_variable configure:7218: result: BSD nm configure:7221: checking whether ln -s works configure:7225: result: yes configure:7233: checking the maximum length of command line arguments configure:7364: result: 1572864 configure:7412: checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format configure:7452: result: func_convert_file_noop configure:7459: checking how to convert x86_64-pc-linux-gnu file names to toolchain format configure:7479: result: func_convert_file_noop configure:7486: checking for /usr/x86_64-pc-linux-gnu/bin/ld option to reload object files configure:7493: result: -r configure:7527: checking for x86_64-pc-linux-gnu-objdump configure:7543: found /usr/bin/x86_64-pc-linux-gnu-objdump configure:7554: result: x86_64-pc-linux-gnu-objdump configure:7626: checking how to recognize dependent libraries configure:7826: result: pass_all configure:7871: checking for x86_64-pc-linux-gnu-dlltool configure:7901: result: no configure:7911: checking for dlltool configure:7941: result: no configure:7971: checking how to associate runtime and link libraries configure:7998: result: printf %s\n configure:8014: checking for x86_64-pc-linux-gnu-ar configure:8030: found /usr/bin/x86_64-pc-linux-gnu-ar configure:8041: result: x86_64-pc-linux-gnu-ar configure:8122: checking for archiver @FILE support configure:8139: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:8139: $? = 0 configure:8142: x86_64-pc-linux-gnu-ar cru libconftest.a @conftest.lst >&5 configure:8145: $? = 0 configure:8150: 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:8153: $? = 1 configure:8165: result: @ configure:8183: checking for x86_64-pc-linux-gnu-strip configure:8199: found /usr/bin/x86_64-pc-linux-gnu-strip configure:8210: result: x86_64-pc-linux-gnu-strip configure:8282: checking for x86_64-pc-linux-gnu-ranlib configure:8298: found /usr/bin/x86_64-pc-linux-gnu-ranlib configure:8309: result: x86_64-pc-linux-gnu-ranlib configure:8451: checking command to parse /usr/bin/x86_64-pc-linux-gnu-nm -B output from x86_64-pc-linux-gnu-gcc object configure:8604: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:8607: $? = 0 configure:8611: /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:8614: $? = 0 configure:8680: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wl,-O1 -Wl,--as-needed conftest.c conftstm.o >&5 configure:8683: $? = 0 configure:8721: result: ok configure:8768: checking for sysroot configure:8798: result: no configure:8805: checking for a working dd configure:8843: result: /bin/dd configure:8847: checking how to truncate binary pipes configure:8862: result: /bin/dd bs=4096 count=1 configure:8998: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:9001: $? = 0 configure:9151: checking for x86_64-pc-linux-gnu-mt configure:9181: result: no configure:9191: checking for mt configure:9207: found /usr/sbin/mt configure:9218: result: mt configure:9241: checking if mt is a manifest tool configure:9247: mt '-?' usage: mt [-v] [--version] [-h] [ -f device ] command [ count ] configure:9255: result: no configure:9932: checking for sys/types.h configure:9932: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:9932: $? = 0 configure:9932: result: yes configure:9932: checking for sys/stat.h configure:9932: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:9932: $? = 0 configure:9932: result: yes configure:9932: checking for stdlib.h configure:9932: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:9932: $? = 0 configure:9932: result: yes configure:9932: checking for string.h configure:9932: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:9932: $? = 0 configure:9932: result: yes configure:9932: checking for memory.h configure:9932: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:9932: $? = 0 configure:9932: result: yes configure:9932: checking for strings.h configure:9932: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:9932: $? = 0 configure:9932: result: yes configure:9932: checking for inttypes.h configure:9932: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:9932: $? = 0 configure:9932: result: yes configure:9932: checking for stdint.h configure:9932: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:9932: $? = 0 configure:9932: result: yes configure:9932: checking for unistd.h configure:9932: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:9932: $? = 0 configure:9932: result: yes configure:9946: checking for dlfcn.h configure:9946: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:9946: $? = 0 configure:9946: result: yes configure:10213: checking for objdir configure:10228: result: .libs configure:10492: checking if x86_64-pc-linux-gnu-gcc supports -fno-rtti -fno-exceptions configure:10510: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe -fno-rtti -fno-exceptions conftest.c >&5 cc1: warning: command line option '-fno-rtti' is valid for C++/ObjC++ but not for C configure:10514: $? = 0 configure:10527: result: no configure:10885: checking for x86_64-pc-linux-gnu-gcc option to produce PIC configure:10892: result: -fPIC -DPIC configure:10900: checking if x86_64-pc-linux-gnu-gcc PIC flag -fPIC -DPIC works configure:10918: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe -fPIC -DPIC -DPIC conftest.c >&5 configure:10922: $? = 0 configure:10935: result: yes configure:10964: checking if x86_64-pc-linux-gnu-gcc static flag -static works configure:10992: result: yes configure:11007: checking if x86_64-pc-linux-gnu-gcc supports -c -o file.o configure:11028: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe -o out/conftest2.o conftest.c >&5 configure:11032: $? = 0 configure:11054: result: yes configure:11062: checking if x86_64-pc-linux-gnu-gcc supports -c -o file.o configure:11109: result: yes configure:11142: checking whether the x86_64-pc-linux-gnu-gcc linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries configure:12401: result: yes configure:12438: checking whether -lc should be explicitly linked in configure:12446: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe conftest.c >&5 configure:12449: $? = 0 configure:12464: x86_64-pc-linux-gnu-gcc -shared -fPIC -DPIC conftest.o -v -Wl,-soname -Wl,conftest -o conftest 2\>\&1 \| /bin/grep -lc \>/dev/null 2\>\&1 configure:12467: $? = 0 configure:12481: result: no configure:12641: checking dynamic linker characteristics configure:13235: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wl,-O1 -Wl,--as-needed -Wl,-rpath -Wl,/foo conftest.c >&5 configure:13235: $? = 0 configure:13472: result: GNU/Linux ld.so configure:13594: checking how to hardcode library paths into programs configure:13619: result: immediate configure:14167: checking whether stripping libraries is possible configure:14172: result: yes configure:14207: checking if libtool supports shared libraries configure:14209: result: yes configure:14212: checking whether to build shared libraries configure:14237: result: yes configure:14240: checking whether to build static libraries configure:14244: result: no configure:14267: checking how to run the C++ preprocessor configure:14294: x86_64-pc-linux-gnu-g++ -E conftest.cpp configure:14294: $? = 0 configure:14308: x86_64-pc-linux-gnu-g++ -E conftest.cpp conftest.cpp:23:28: fatal error: ac_nonexistent.h: No such file or directory #include ^ compilation terminated. configure:14308: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "coot" | #define PACKAGE_TARNAME "coot" | #define PACKAGE_VERSION "0.8.2" | #define PACKAGE_STRING "coot 0.8.2" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "coot" | #define VERSION "0.8.2" | #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 configure:14333: result: x86_64-pc-linux-gnu-g++ -E configure:14353: x86_64-pc-linux-gnu-g++ -E conftest.cpp configure:14353: $? = 0 configure:14367: x86_64-pc-linux-gnu-g++ -E conftest.cpp conftest.cpp:23:28: fatal error: ac_nonexistent.h: No such file or directory #include ^ compilation terminated. configure:14367: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "coot" | #define PACKAGE_TARNAME "coot" | #define PACKAGE_VERSION "0.8.2" | #define PACKAGE_STRING "coot 0.8.2" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "coot" | #define VERSION "0.8.2" | #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 configure:14529: checking for ld used by x86_64-pc-linux-gnu-g++ configure:14596: result: /usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64 configure:14603: checking if the linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) is GNU ld configure:14618: result: yes configure:14673: checking whether the x86_64-pc-linux-gnu-g++ linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries configure:15746: result: yes configure:15782: x86_64-pc-linux-gnu-g++ -c -O2 -march=core2 -ggdb -pipe conftest.cpp >&5 configure:15785: $? = 0 configure:16266: checking for x86_64-pc-linux-gnu-g++ option to produce PIC configure:16273: result: -fPIC -DPIC configure:16281: checking if x86_64-pc-linux-gnu-g++ PIC flag -fPIC -DPIC works configure:16299: x86_64-pc-linux-gnu-g++ -c -O2 -march=core2 -ggdb -pipe -fPIC -DPIC -DPIC conftest.cpp >&5 configure:16303: $? = 0 configure:16316: result: yes configure:16339: checking if x86_64-pc-linux-gnu-g++ static flag -static works configure:16367: result: yes configure:16379: checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o configure:16400: x86_64-pc-linux-gnu-g++ -c -O2 -march=core2 -ggdb -pipe -o out/conftest2.o conftest.cpp >&5 configure:16404: $? = 0 configure:16426: result: yes configure:16431: checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o configure:16478: result: yes configure:16508: checking whether the x86_64-pc-linux-gnu-g++ linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) supports shared libraries configure:16548: result: yes configure:16689: checking dynamic linker characteristics configure:17447: result: GNU/Linux ld.so configure:17512: checking how to hardcode library paths into programs configure:17537: result: immediate configure:17601: checking which libtool initialization strategy to adopt configure:17603: result: AC-PROG-LIBTOOL configure:17616: checking what warning flags to pass to the C compiler configure:17637: result: -Wall -Wunused configure:17648: checking what language compliance flags to pass to the C compiler configure:17664: result: configure:17681: checking what warning flags to pass to the C++ compiler configure:17701: result: -Wall -Wno-unused configure:17712: checking what language compliance flags to pass to the C++ compiler configure:17728: result: configure:17739: checking sys/stdtypes.h usability configure:17739: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe -Wall -Wunused conftest.c >&5 conftest.c:56:26: fatal error: sys/stdtypes.h: No such file or directory #include ^ compilation terminated. configure:17739: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "coot" | #define PACKAGE_TARNAME "coot" | #define PACKAGE_VERSION "0.8.2" | #define PACKAGE_STRING "coot 0.8.2" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "coot" | #define VERSION "0.8.2" | #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 | #ifdef HAVE_SYS_TYPES_H | # include | #endif | #ifdef HAVE_SYS_STAT_H | # include | #endif | #ifdef STDC_HEADERS | # include | # include | #else | # ifdef HAVE_STDLIB_H | # include | # endif | #endif | #ifdef HAVE_STRING_H | # if !defined STDC_HEADERS && defined HAVE_MEMORY_H | # include | # endif | # include | #endif | #ifdef HAVE_STRINGS_H | # include | #endif | #ifdef HAVE_INTTYPES_H | # include | #endif | #ifdef HAVE_STDINT_H | # include | #endif | #ifdef HAVE_UNISTD_H | # include | #endif | #include configure:17739: result: no configure:17739: checking sys/stdtypes.h presence configure:17739: x86_64-pc-linux-gnu-gcc -E conftest.c conftest.c:23:26: fatal error: sys/stdtypes.h: No such file or directory #include ^ compilation terminated. configure:17739: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "coot" | #define PACKAGE_TARNAME "coot" | #define PACKAGE_VERSION "0.8.2" | #define PACKAGE_STRING "coot 0.8.2" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "coot" | #define VERSION "0.8.2" | #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 configure:17739: result: no configure:17739: checking for sys/stdtypes.h configure:17739: result: no configure:17754: checking for OpenMP flag of C compiler configure:17794: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wall -Wunused -fopenmp -Wl,-O1 -Wl,--as-needed conftest.c >&5 conftest.c: In function 'main': conftest.c:31:10: warning: variable 'arr' set but not used [-Wunused-but-set-variable] int i, arr[N]; ^ configure:17794: $? = 0 configure:17803: result: -fopenmp configure:17854: checking for x86_64-pc-linux-gnu-pkg-config configure:17872: found /usr/bin/x86_64-pc-linux-gnu-pkg-config configure:17884: result: /usr/bin/x86_64-pc-linux-gnu-pkg-config configure:17952: checking pkg-config is at least version 0.9.0 configure:17955: result: yes configure:17965: checking for GLIB configure:17972: $PKG_CONFIG --exists --print-errors "glib-2.0" configure:17975: $? = 0 configure:17989: $PKG_CONFIG --exists --print-errors "glib-2.0" configure:17992: $? = 0 configure:18050: result: yes configure:18058: checking if this is MINGW on Windows configure:18093: result: no configure:18307: checking for SQLite3 configure:18320: result: yes configure:18456: checking for mmdb2 configure:18467: result: yes configure:18496: x86_64-pc-linux-gnu-g++ -c -O2 -march=core2 -ggdb -pipe -Wall -Wno-unused conftest.cpp >&5 conftest.cpp: In function 'int main()': conftest.cpp:28:37: error: 'class mmdb::Link' has no member named 'dist' mmdb::Link *l; mmdb::realtype ll=l->dist ^ configure:18496: $? = 1 configure: failed program was: | /* confdefs.h */ | #define PACKAGE_NAME "coot" | #define PACKAGE_TARNAME "coot" | #define PACKAGE_VERSION "0.8.2" | #define PACKAGE_STRING "coot 0.8.2" | #define PACKAGE_BUGREPORT "" | #define PACKAGE_URL "" | #define PACKAGE "coot" | #define VERSION "0.8.2" | #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 HAVE_OPENMP 1 | /* end confdefs.h. */ | #include | int | main () | { | mmdb::Link *l; mmdb::realtype ll=l->dist | ; | return 0; | } configure:18523: checking for ssm configure:18536: result: yes configure:18605: result: no configure:18632: checking for prefixed single-precision FFTW2 (sfftw.h) configure:18662: x86_64-pc-linux-gnu-g++ -o conftest -O2 -march=core2 -ggdb -pipe -Wall -Wno-unused -Wl,-O1 -Wl,--as-needed conftest.cpp -lsrfftw -lsfftw >&5 configure:18662: $? = 0 configure:18669: result: yes configure:18722: checking for Clipper configure:18733: result: yes configure:19025: checking for gsl-config configure:19043: found /usr/bin/gsl-config configure:19056: result: /usr/bin/gsl-config configure:19065: checking for GSL - version >= 1.3 configure:19159: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wall -Wunused -I/usr/include -Wl,-O1 -Wl,--as-needed conftest.c -L/usr/lib64 -lgsl -lgslcblas -lm >&5 configure:19159: $? = 0 configure:19159: ./conftest configure:19159: $? = 0 configure:19173: result: yes configure:19242: checking for GTK configure:19249: $PKG_CONFIG --exists --print-errors "gtk+-2.0 >= 2.4.12" configure:19252: $? = 0 configure:19266: $PKG_CONFIG --exists --print-errors "gtk+-2.0 >= 2.4.12" configure:19269: $? = 0 configure:19327: result: yes configure:19333: checking for GNOME_CANVAS configure:19340: $PKG_CONFIG --exists --print-errors "libgnomecanvas-2.0 >= 0.15.0" configure:19343: $? = 0 configure:19357: $PKG_CONFIG --exists --print-errors "libgnomecanvas-2.0 >= 0.15.0" configure:19360: $? = 0 configure:19418: result: yes configure:19452: checking for pkg-config configure:19483: result: /usr/bin/x86_64-pc-linux-gnu-pkg-config configure:19505: checking for GtkGLExt - version >= 1.0.0 configure:19624: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wall -Wunused -pthread -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/libdrm -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/libpng16 -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -Wl,-O1 -Wl,--as-needed conftest.c -lgtkglext-x11-1.0 -lgdkglext-x11-1.0 -lGL -lGLU -lGL -lXmu -lXt -lSM -lICE -lgdk-x11-2.0 -lpangox-1.0 -lX11 -Wl,--export-dynamic -lgmodule-2.0 -pthread -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype >&5 configure:19624: $? = 0 configure:19624: ./conftest configure:19624: $? = 0 configure:19638: result: yes (version 1.2.0) configure:19750: checking for glLineWidth in -lGL configure:19775: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wall -Wunused -Wl,-O1 -Wl,--as-needed conftest.c -lGL >&5 configure:19775: $? = 0 configure:19784: result: yes configure:19811: checking for GLUT configure:19941: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wall -Wunused -Wl,-O1 -Wl,--as-needed conftest.c -lglut -lXmu -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype >&5 configure:19941: $? = 0 configure:19949: result: yes configure:19977: checking for Python configure:20117: checking Python.h usability configure:20117: x86_64-pc-linux-gnu-gcc -c -O2 -march=core2 -ggdb -pipe -Wall -Wunused -DUSE_PYTHON -I/usr/include/python2.7 -I/usr/include/python2.7 conftest.c >&5 In file included from /usr/include/python2.7/Python.h:8:0, from conftest.c:58: /usr/include/python2.7/pyconfig.h:1193:0: warning: "_POSIX_C_SOURCE" redefined #define _POSIX_C_SOURCE 200112L ^ In file included from /usr/include/stdio.h:27:0, from conftest.c:25: /usr/include/features.h:225:0: note: this is the location of the previous definition # define _POSIX_C_SOURCE 200809L ^ configure:20117: $? = 0 configure:20117: result: yes configure:20117: checking Python.h presence configure:20117: x86_64-pc-linux-gnu-gcc -E -DUSE_PYTHON -I/usr/include/python2.7 -I/usr/include/python2.7 conftest.c configure:20117: $? = 0 configure:20117: result: yes configure:20117: checking for Python.h configure:20117: result: yes configure:20153: checking for PYGTK configure:20160: $PKG_CONFIG --exists --print-errors "pygtk-2.0" configure:20163: $? = 0 configure:20177: $PKG_CONFIG --exists --print-errors "pygtk-2.0" configure:20180: $? = 0 configure:20218: result: yes configure:20326: checking for python version configure:20333: result: 2.7 configure:20350: checking for python platform configure:20357: result: linux2 configure:20364: checking for python script directory configure:20396: result: ${prefix}/lib64/python2.7/site-packages configure:20405: checking for python extension module directory configure:20437: result: ${exec_prefix}/lib64/python2.7/site-packages configure:20484: checking for guile-gtk configure:20515: result: configure:20570: checking for boostlib >= 1.20.0 configure:20650: x86_64-pc-linux-gnu-g++ -c -O2 -march=core2 -ggdb -pipe -Wall -Wno-unused -I/usr/include conftest.cpp >&5 configure:20650: $? = 0 configure:20652: result: yes configure:20847: checking for python2.7 configure:20877: result: /usr/bin/python2.7 configure:20894: checking for a version of Python >= '2.1.0' configure:20920: result: yes configure:20951: checking for the distutils Python package configure:20955: result: yes configure:20969: checking for Python include path configure:20985: result: -I/usr/include/python2.7 configure:20992: checking for Python library path configure:21073: result: -L/usr/lib64 -lpython2.7 configure:21080: checking for Python site-packages path configure:21086: result: /usr/lib64/python2.7/site-packages configure:21093: checking python extra libraries configure:21100: result: -lpthread -ldl -lutil -lm configure:21107: checking python extra linking flags configure:21115: result: -Xlinker -export-dynamic configure:21122: checking consistency of all components of python development environment configure:21148: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wall -Wunused -I/usr/include/python2.7 -Wl,-O1 -Wl,--as-needed conftest.c -L/usr/lib64 -lpython2.7 -Xlinker -export-dynamic -lpthread -ldl -lutil -lm >&5 configure:21148: $? = 0 configure:21165: result: yes configure:21190: checking whether the Boost::Python library is available configure:21223: x86_64-pc-linux-gnu-g++ -c -O2 -march=core2 -ggdb -pipe -Wall -Wno-unused -I/usr/include -I/usr/include/python2.7 conftest.cpp >&5 configure:21223: $? = 0 configure:21238: result: yes configure:21257: checking for exit in -lboost_python-2.7-mt configure:21282: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wall -Wunused -Wl,-O1 -Wl,--as-needed conftest.c -lboost_python-2.7-mt -L/usr/lib64 -lpython2.7 >&5 conftest.c:35:6: warning: conflicting types for built-in function 'exit' char exit (); ^ configure:21282: $? = 0 configure:21292: result: yes configure:21337: checking libglade configure:21380: x86_64-pc-linux-gnu-gcc -o conftest -O2 -march=core2 -ggdb -pipe -Wall -Wunused -I/usr/include/libglade-2.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/libpng16 -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -DUSE_LIBGLADE -Wl,-O1 -Wl,--as-needed conftest.c -lglade-2.0 -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype >&5 conftest.c: In function 'main': conftest.c:32:11: warning: unused variable 'xml' [-Wunused-variable] GladeXML *xml = glade_xml_new("x",NULL,NULL); ^ configure:21380: $? = 0 configure:21391: result: yes configure:21471: checking for Goocanvas configure:21497: x86_64-pc-linux-gnu-g++ -o conftest -O2 -march=core2 -ggdb -pipe -Wall -Wno-unused -I/usr/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/libpng16 -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -Wl,-O1 -Wl,--as-needed conftest.cpp -L/usr/lib -lgoocanvas -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype >&5 configure:21497: $? = 0 configure:21511: result: yes configure:21647: checking for curl >= 7.9.7 configure:21658: result: 7.50.1 configure:21693: result: Gentoo-Linux-python2.7-gtk2 configure:21852: checking that generated files are newer than configure configure:21858: result: done configure:21913: creating ./config.status ## ---------------------- ## ## Running config.status. ## ## ---------------------- ## This file was extended by coot config.status 0.8.2, which was generated by GNU Autoconf 2.69. Invocation command line was CONFIG_FILES = CONFIG_HEADERS = CONFIG_LINKS = CONFIG_COMMANDS = $ ./config.status on srv5 config.status:1236: creating Makefile config.status:1236: creating macros/Makefile config.status:1236: creating pdb-templates/Makefile config.status:1236: creating scheme/Makefile config.status:1236: creating python/Makefile config.status:1236: creating compat/Makefile config.status:1236: creating utils/Makefile config.status:1236: creating coot-utils/Makefile config.status:1236: creating protein_db/Makefile config.status:1236: creating ccp4mg-utils/Makefile config.status:1236: creating coords/Makefile config.status:1236: creating db-main/Makefile config.status:1236: creating density-contour/Makefile config.status:1236: creating surface/Makefile config.status:1236: creating coot-surface/Makefile config.status:1236: creating angles/Makefile config.status:1236: creating mini-mol/Makefile config.status:1236: creating skeleton/Makefile config.status:1236: creating ligand/Makefile config.status:1236: creating geometry/Makefile config.status:1236: creating ideal/Makefile config.status:1236: creating build/Makefile config.status:1236: creating analysis/Makefile config.status:1236: creating high-res/Makefile config.status:1236: creating tw/Makefile config.status:1236: creating cootaneer/Makefile config.status:1236: creating cootilus/Makefile config.status:1236: creating greg-tests/Makefile config.status:1236: creating python-tests/Makefile config.status:1236: creating lidia-core/Makefile config.status:1236: creating libgtkgraph/Makefile config.status:1236: creating goograph/Makefile config.status:1236: creating lbg/Makefile config.status:1236: creating doc/Makefile config.status:1236: creating src/Makefile config.status:1236: creating src/coot config.status:1236: creating python/coot_load_modules.py config.status:1236: creating data/Makefile config.status:1236: creating pixmaps/Makefile config.status:1236: creating pixmaps/icons/Makefile config.status:1236: creating rama-data/Makefile config.status:1236: creating pyrogen/Makefile config.status:1236: creating pyrogen/pyrogen config.status:1236: creating auxil/Makefile config.status:1236: creating auxil/catcheck/Makefile config.status:1236: creating auxil/rama/Makefile config.status:1236: creating auxil/sec-str/Makefile config.status:1236: creating auxil/strand-analysis/Makefile config.status:1236: creating auxil/vectors/Makefile config.status:1236: creating rcrane/Makefile config.status:1408: executing depfiles commands config.status:1408: executing libtool commands ## ---------------- ## ## Cache variables. ## ## ---------------- ## ac_cv_boost_python=yes ac_cv_build=x86_64-pc-linux-gnu ac_cv_build_alias=x86_64-pc-linux-gnu ac_cv_c_compiler_gnu=yes ac_cv_cxx_compiler_gnu=yes ac_cv_env_CCC_set= ac_cv_env_CCC_value= ac_cv_env_CCP4_CFLAGS_set= ac_cv_env_CCP4_CFLAGS_value= ac_cv_env_CCP4_LIBS_set= ac_cv_env_CCP4_LIBS_value= ac_cv_env_CC_set= ac_cv_env_CC_value= ac_cv_env_CFLAGS_set=set ac_cv_env_CFLAGS_value='-O2 -march=core2 -ggdb -pipe' 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 -march=core2 -ggdb -pipe' ac_cv_env_CXX_set= ac_cv_env_CXX_value= ac_cv_env_GLIB_CFLAGS_set= ac_cv_env_GLIB_CFLAGS_value= ac_cv_env_GLIB_LIBS_set= ac_cv_env_GLIB_LIBS_value= ac_cv_env_GNOME_CANVAS_CFLAGS_set= ac_cv_env_GNOME_CANVAS_CFLAGS_value= ac_cv_env_GNOME_CANVAS_LIBS_set= ac_cv_env_GNOME_CANVAS_LIBS_value= ac_cv_env_GTK_CFLAGS_set= ac_cv_env_GTK_CFLAGS_value= ac_cv_env_GTK_LIBS_set= ac_cv_env_GTK_LIBS_value= ac_cv_env_LDFLAGS_set=set ac_cv_env_LDFLAGS_value='-Wl,-O1 -Wl,--as-needed' 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_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=/var/tmp/portage/sci-chemistry/coot-0.8.2-r1/temp/python2.7/pkgconfig ac_cv_env_PKG_CONFIG_set= ac_cv_env_PKG_CONFIG_value= ac_cv_env_PYGTK_CFLAGS_set= ac_cv_env_PYGTK_CFLAGS_value= ac_cv_env_PYGTK_LIBS_set= ac_cv_env_PYGTK_LIBS_value= ac_cv_env_PYTHON_VERSION_set= ac_cv_env_PYTHON_VERSION_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_header_Python_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_stdtypes_h=no ac_cv_header_sys_types_h=yes ac_cv_header_unistd_h=yes ac_cv_host=x86_64-pc-linux-gnu ac_cv_lib_GL_glLineWidth=yes ac_cv_lib_boost_python_2_7_mt___exit=yes ac_cv_objext=o ac_cv_path_EGREP='/bin/grep -E' ac_cv_path_FGREP='/bin/grep -F' ac_cv_path_GREP=/bin/grep ac_cv_path_GSL_CONFIG=/usr/bin/gsl-config ac_cv_path_PKG_CONFIG=/usr/bin/x86_64-pc-linux-gnu-pkg-config ac_cv_path_PYTHON=/usr/bin/python2.7 ac_cv_path_SED=/bin/sed ac_cv_path_install='/usr/lib/portage/python2.7/ebuild-helpers/xattr/install -c' ac_cv_path_lt_DD=/bin/dd ac_cv_path_mkdir=/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_ac_ct_MANIFEST_TOOL=mt 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_strerror='none required' 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 am_cv_prog_cc_stdc= am_cv_python_platform=linux2 am_cv_python_pyexecdir='${exec_prefix}/lib64/python2.7/site-packages' am_cv_python_pythondir='${prefix}/lib64/python2.7/site-packages' am_cv_python_version=2.7 ax_cv_c_openmp=-fopenmp coot_cv_curl_vers=7.50.1 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=/usr/x86_64-pc-linux-gnu/bin/ld lt_cv_path_LDCXX='/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64' lt_cv_path_NM='/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=1572864 lt_cv_to_host_file_cmd=func_convert_file_noop lt_cv_to_tool_file_cmd=func_convert_file_noop lt_cv_truncate_bin='/bin/dd bs=4096 count=1' pkg_cv_GLIB_CFLAGS='-I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include' pkg_cv_GLIB_LIBS=-lglib-2.0 pkg_cv_GNOME_CANVAS_CFLAGS='-pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/libpng16 -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2' pkg_cv_GNOME_CANVAS_LIBS='-lgnomecanvas-2 -lart_lgpl_2 -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype' pkg_cv_GTK_CFLAGS='-pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/libpng16 -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2' pkg_cv_GTK_LIBS='-lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype' pkg_cv_PYGTK_CFLAGS='-pthread -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/libpng16 -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2' pkg_cv_PYGTK_LIBS='-lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype' ## ----------------- ## ## Output variables. ## ## ----------------- ## ACLOCAL='${SHELL} /var/tmp/portage/sci-chemistry/coot-0.8.2-r1/work/coot-0.8.2/missing aclocal-1.15 -I macros' AMDEPBACKSLASH='' AMDEP_FALSE='' AMDEP_TRUE='#' AMTAR='$${TAR-tar}' AM_BACKSLASH='\' AM_DEFAULT_V='$(AM_DEFAULT_VERBOSITY)' AM_DEFAULT_VERBOSITY='1' AM_V='$(V)' AR='x86_64-pc-linux-gnu-ar' AUTOCONF='${SHELL} /var/tmp/portage/sci-chemistry/coot-0.8.2-r1/work/coot-0.8.2/missing autoconf' AUTOHEADER='${SHELL} /var/tmp/portage/sci-chemistry/coot-0.8.2-r1/work/coot-0.8.2/missing autoheader' AUTOMAKE='${SHELL} /var/tmp/portage/sci-chemistry/coot-0.8.2-r1/work/coot-0.8.2/missing automake-1.15' AWK='gawk' BOOST_CPPFLAGS='-I/usr/include' BOOST_LDFLAGS='-L/usr/lib64' BOOST_PYTHON_LIB='boost_python-2.7-mt' CC='x86_64-pc-linux-gnu-gcc' CCDEPMODE='depmode=none' CCP4SRS_CXXFLAGS='' CCP4SRS_LIBS='' CCP4_CFLAGS='' CCP4_LIBS='' CFLAGS='-O2 -march=core2 -ggdb -pipe -Wall -Wunused ' CLIPPER_CXXFLAGS='' CLIPPER_LIBS='-lclipper-fortran -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2' COOT_BUILD_INFO_STRING='' COOT_GSL_FLAGS='-DHAVE_GSL' COOT_OPENGL_LIBS='-lGL' COOT_STDTYPES='-DHAVE_SYS_STDTYPES_H=0' COOT_SYS_BUILD_TYPE='Gentoo-Linux-python2.7-gtk2' COOT_USE_GUILE='' COOT_USE_PYTHON_FALSE='#' COOT_USE_PYTHON_TRUE='' COOT_WINDOWS_CFLAGS='' COOT_WINDOWS_LDFLAGS='' CPP='x86_64-pc-linux-gnu-gcc -E' CPPFLAGS=' ' CURL_CFLAGS='' CURL_LIBS='-lcurl -lidn -lrtmp -lz -lssl -lcrypto -lnettle -lgnutls -llber -lldap -lz' CXX='x86_64-pc-linux-gnu-g++' CXXCPP='x86_64-pc-linux-gnu-g++ -E' CXXDEPMODE='depmode=none' CXXFLAGS='-O2 -march=core2 -ggdb -pipe -Wall -Wno-unused ' CYGPATH_W='echo' DEFS='-DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DFFTW2_PREFIX_S=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/' DEPDIR='.deps' DLLTOOL='false' DSYMUTIL='' DUMPBIN='' ECHO_C='' ECHO_N='-n' ECHO_T='' EGREP='/bin/grep -E' ENHANCED_LIGAND_TOOLS_CFLAGS='' EXEEXT='' EXPORT_DYNAMIC_FLAG_SPEC='-Wl,--export-dynamic' FFTW2_CPPFLAGS='' FFTW2_LIBS=' -lsrfftw -lsfftw' FGREP='/bin/grep -F' GLIB_CFLAGS='-I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include' GLIB_LIBS='-lglib-2.0' GLOB_CFLAGS='' GLOB_LIBS='' GLUT_CFLAGS='' GLUT_LIBS='-lglut -lXmu -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype' GNOME_CANVAS_CFLAGS='-DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/libpng16 -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2' GNOME_CANVAS_LIBS='-lgnomecanvas-2 -lart_lgpl_2 -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype' GOOCANVAS_CFLAGS='-DHAVE_GOOCANVAS -I/usr/include/goocanvas-1.0' GOOCANVAS_LIBS='-L/usr/lib -lgoocanvas' GREP='/bin/grep' GSL_CFLAGS='-I/usr/include' GSL_CONFIG='/usr/bin/gsl-config' GSL_LIBS='-L/usr/lib64 -lgsl -lgslcblas -lm' GTKGLEXT_CFLAGS='-pthread -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/libdrm -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/libpng16 -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2' GTKGLEXT_LIBS='-lgtkglext-x11-1.0 -lgdkglext-x11-1.0 -lGL -lGLU -lGL -lXmu -lXt -lSM -lICE -lgdk-x11-2.0 -lpangox-1.0 -lX11 -Wl,--export-dynamic -lgmodule-2.0 -pthread -lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype' GTK_CFLAGS='-pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/libpng16 -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2' GTK_LIBS='-lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype' GUILE='' GUILE_CFLAGS='' GUILE_CONFIG='' GUILE_GTK_CFLAGS='' GUILE_GTK_LIBS='-lguilegtk-2.0' GUILE_LDFLAGS='' GUILE_TOOLS='' GUILE_VERSION='' INSIDE_GNOME_COMMON_FALSE='' INSIDE_GNOME_COMMON_TRUE='#' INSTALL_DATA='${INSTALL} -m 644' INSTALL_PROGRAM='${INSTALL}' INSTALL_SCRIPT='${INSTALL}' INSTALL_STRIP_PROGRAM='$(install_sh) -c -s' LD='/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64' LDFLAGS='-Wl,-O1 -Wl,--as-needed' LIBGLADE_CFLAGS='-I/usr/include/libglade-2.0' LIBGLADE_LIBS='-lglade-2.0' LIBOBJS='' LIBPNG_CFLAGS='-DUSE_LIBPNG' LIBPNG_LIBS='-lpng' LIBS='' LIBSSM_CXXFLAGS=' -DHAVE_SSMLIB' LIBSSM_LIBS='-lssm -lmmdb2' LIBTOOL='$(SHELL) $(top_builddir)/libtool' LIPO='' LN_S='ln -s' LTLIBOBJS='' LT_SYS_LIBRARY_PATH='' L_BOOST_PYTHON='' MAKEINFO='${SHELL} /var/tmp/portage/sci-chemistry/coot-0.8.2-r1/work/coot-0.8.2/missing makeinfo' MAKE_COOTRC_CMD='sed -e '\''s/\#GTK2 //'\'' ' MAKE_ENHANCED_LIGAND_TOOLS_FALSE='' MAKE_ENHANCED_LIGAND_TOOLS_TRUE='#' MANIFEST_TOOL=':' MKDIR_P='/bin/mkdir -p' MMDB_CXXFLAGS='' MMDB_LIBS='-lmmdb2' MYSQL_CFLAGS='' MYSQL_LIBS='' NM='/usr/bin/x86_64-pc-linux-gnu-nm -B' NMEDIT='' OBJDUMP='x86_64-pc-linux-gnu-objdump' OBJEXT='o' OS_WIN32_FALSE='' OS_WIN32_TRUE='#' OTOOL64='' OTOOL='' PACKAGE='coot' PACKAGE_BUGREPORT='' PACKAGE_NAME='coot' PACKAGE_STRING='coot 0.8.2' PACKAGE_TARNAME='coot' PACKAGE_URL='' PACKAGE_VERSION='0.8.2' PATH_SEPARATOR=':' PKG_CONFIG='/usr/bin/x86_64-pc-linux-gnu-pkg-config' PKG_CONFIG_LIBDIR='' PKG_CONFIG_PATH='/var/tmp/portage/sci-chemistry/coot-0.8.2-r1/temp/python2.7/pkgconfig' PYGTK_CFLAGS='-pthread -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/libpng16 -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2' PYGTK_LIBS='-lgtk-x11-2.0 -lgdk-x11-2.0 -lpangocairo-1.0 -latk-1.0 -lcairo -lgdk_pixbuf-2.0 -lgio-2.0 -lpangoft2-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lfontconfig -lfreetype' PYTHON='/usr/bin/python2.7' PYTHON_CFLAGS='-DUSE_PYTHON -I/usr/include/python2.7 -I/usr/include/python2.7 -DUSE_PYGTK' PYTHON_CPPFLAGS='-I/usr/include/python2.7' PYTHON_EXEC_PREFIX='${exec_prefix}' PYTHON_EXTRA_LDFLAGS='-Xlinker -export-dynamic' PYTHON_EXTRA_LIBS='-lpthread -ldl -lutil -lm' PYTHON_LDFLAGS='-L/usr/lib64 -lpython2.7' PYTHON_LIBS='-lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil' PYTHON_PLATFORM='linux2' PYTHON_PREFIX='${prefix}' PYTHON_SITE_PKG='/usr/lib64/python2.7/site-packages' PYTHON_VERSION='2.7' RANLIB='x86_64-pc-linux-gnu-ranlib' RDKIT_CXXFLAGS='' RDKIT_LIBS='' SED='/bin/sed' SET_MAKE='' SHARED_LDFLAGS='' SHELL='/bin/sh' SQLITE3_CFLAGS='-DUSE_SQLITE3 ' SQLITE3_LIBS='-lsqlite3' STRIP='x86_64-pc-linux-gnu-strip' SWIG_FLAGS='-DCOOT_USE_GTK2_INTERFACE' USE_GUILE_GTK='-DUSE_GUILE_GTK' USE_LIBCURL='-DUSE_LIBCURL' USING_GTK2_VERSION_FALSE='#' USING_GTK2_VERSION_TRUE='' VERSION='0.8.2' 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='${exec_prefix}/bin' build='x86_64-pc-linux-gnu' build_alias='x86_64-pc-linux-gnu' build_cpu='x86_64' build_os='linux-gnu' build_vendor='pc' cflags_set='yes' cxxflags_set='yes' datadir='/usr/share' datarootdir='${prefix}/share' docdir='/usr/share/doc/coot-0.8.2-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='${docdir}' includedir='${prefix}/include' infodir='/usr/share/info' install_sh='${SHELL} /var/tmp/portage/sci-chemistry/coot-0.8.2-r1/work/coot-0.8.2/install-sh' libdir='/usr/lib64' libexecdir='${exec_prefix}/libexec' localedir='${datarootdir}/locale' localstatedir='/var/lib' mandir='/usr/share/man' mkdir_p='$(MKDIR_P)' oldincludedir='/usr/include' pdfdir='${docdir}' pkgpyexecdir='${pyexecdir}/coot' pkgpythondir='${pythondir}/coot' prefix='/usr' program_transform_name='s,x,x,' psdir='${docdir}' pyexecdir='${exec_prefix}/lib64/python2.7/site-packages' pythondir='${prefix}/lib64/python2.7/site-packages' sbindir='${exec_prefix}/sbin' sharedstatedir='${prefix}/com' sysconfdir='/etc' target_alias='' ## ----------- ## ## confdefs.h. ## ## ----------- ## /* confdefs.h */ #define PACKAGE_NAME "coot" #define PACKAGE_TARNAME "coot" #define PACKAGE_VERSION "0.8.2" #define PACKAGE_STRING "coot 0.8.2" #define PACKAGE_BUGREPORT "" #define PACKAGE_URL "" #define PACKAGE "coot" #define VERSION "0.8.2" #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 HAVE_OPENMP 1 #define FFTW2_PREFIX_S 1 #define HAVE_BOOST /**/ #define HAVE_PYTHON "2.7" #define HAVE_BOOST_PYTHON /**/ configure: exit 0