build.log

coot-0.6.2:20111005-200008.log (text/plain), 739.06 KB, created by Agostino Sarubbo on 2011-10-05 21:52:10 UTC

 * Package:    sci-chemistry/coot-0.6.2
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        amd64 elibc_glibc kernel_linux multilib openmp userland_GNU
 * FEATURES:   sandbox userpriv usersandbox
>>> Unpacking source...
>>> Unpacking coot-0.6.2.tar.gz to /tmp/portage/sci-chemistry/coot-0.6.2/work
>>> Source unpacked in /tmp/portage/sci-chemistry/coot-0.6.2/work
>>> Preparing source in /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2 ...
 * Applying 0.6.2-clipper-config.patch ...
 [ ok ]
 * Applying 0.6.2-mmdb-config.patch ...
 [ ok ]
 * Applying 0.6.2-gl.patch ...
 [ ok ]
 * Applying 0.6.2-test.patch ...
 [ ok ]
 * Applying 0.6.2-ssm.patch ...
 [ ok ]
 * Applying 0.6.2-libpng15.patch ...
 [ ok ]
 * Running eautoreconf in '/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2' ...
 * Running aclocal -I macros ...
 [ ok ]
 * Running libtoolize --copy --force --install --automake ...
 [ ok ]
 * Running aclocal -I macros ...
 [ ok ]
 * Running autoconf ...
 [ ok ]
 * Running automake --add-missing --copy ...
 [ ok ]
 * Running elibtoolize in: coot-0.6.2/
 *   Applying portage/1.2.0 patch ...
 *   Applying sed/1.5.6 patch ...
 *   Applying as-needed/2.2.6 patch ...
>>> Source prepared.
>>> Configuring source in /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2 ...
 * econf: updating coot-0.6.2/config.sub with /usr/share/gnuconfig/config.sub
 * econf: updating coot-0.6.2/config.guess with /usr/share/gnuconfig/config.guess
./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 --libdir=/usr/lib64 --includedir=${prefix}/include/coot --with-gtkcanvas-prefix=/usr --with-gtkgl-prefix=/usr --with-guile --with-python=/usr --with-guile-gtk --with-gtk2 --with-pygtk --enable-openmp
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking for style of include used by make... GNU
checking for x86_64-pc-linux-gnu-gcc... x86_64-pc-linux-gnu-gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether x86_64-pc-linux-gnu-gcc accepts -g... yes
checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89... none needed
checking dependency style of x86_64-pc-linux-gnu-gcc... gcc3
checking for library containing strerror... none required
checking for x86_64-pc-linux-gnu-gcc... (cached) x86_64-pc-linux-gnu-gcc
checking whether we are using the GNU C compiler... (cached) yes
checking whether x86_64-pc-linux-gnu-gcc accepts -g... (cached) yes
checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89... (cached) none needed
checking dependency style of x86_64-pc-linux-gnu-gcc... (cached) gcc3
checking for x86_64-pc-linux-gnu-gcc... (cached) x86_64-pc-linux-gnu-gcc
checking whether we are using the GNU C compiler... (cached) yes
checking whether x86_64-pc-linux-gnu-gcc accepts -g... (cached) yes
checking for x86_64-pc-linux-gnu-gcc option to accept ISO C89... (cached) none needed
checking dependency style of x86_64-pc-linux-gnu-gcc... (cached) gcc3
checking how to run the C preprocessor... x86_64-pc-linux-gnu-gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for x86_64-pc-linux-gnu-g++... x86_64-pc-linux-gnu-g++
checking whether we are using the GNU C++ compiler... yes
checking whether x86_64-pc-linux-gnu-g++ accepts -g... yes
checking dependency style of x86_64-pc-linux-gnu-g++... gcc3
checking build system type... x86_64-pc-linux-gnu
checking host system type... x86_64-pc-linux-gnu
checking how to print strings... printf
checking for a sed that does not truncate output... /bin/sed
checking for fgrep... /bin/grep -F
checking for ld used by x86_64-pc-linux-gnu-gcc... /usr/x86_64-pc-linux-gnu/bin/ld
checking if the linker (/usr/x86_64-pc-linux-gnu/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop
checking for /usr/x86_64-pc-linux-gnu/bin/ld option to reload object files... -r
checking for x86_64-pc-linux-gnu-objdump... x86_64-pc-linux-gnu-objdump
checking how to recognize dependent libraries... pass_all
checking for x86_64-pc-linux-gnu-dlltool... no
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for x86_64-pc-linux-gnu-ar... x86_64-pc-linux-gnu-ar
checking for archiver @FILE support... @
checking for x86_64-pc-linux-gnu-strip... x86_64-pc-linux-gnu-strip
checking for x86_64-pc-linux-gnu-ranlib... x86_64-pc-linux-gnu-ranlib
checking command to parse /usr/bin/nm -B output from x86_64-pc-linux-gnu-gcc object... ok
checking for sysroot... no
checking for x86_64-pc-linux-gnu-mt... no
checking for mt... no
checking if : is a manifest tool... no
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
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checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if x86_64-pc-linux-gnu-gcc supports -fno-rtti -fno-exceptions... no
checking for x86_64-pc-linux-gnu-gcc option to produce PIC... -fPIC -DPIC
checking if x86_64-pc-linux-gnu-gcc PIC flag -fPIC -DPIC works... yes
checking if x86_64-pc-linux-gnu-gcc static flag -static works... yes
checking if x86_64-pc-linux-gnu-gcc supports -c -o file.o... yes
checking if x86_64-pc-linux-gnu-gcc supports -c -o file.o... (cached) yes
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... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking how to run the C++ preprocessor... x86_64-pc-linux-gnu-g++ -E
checking for ld used by x86_64-pc-linux-gnu-g++... /usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64
checking if the linker (/usr/x86_64-pc-linux-gnu/bin/ld -m elf_x86_64) is GNU ld... yes
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... yes
checking for x86_64-pc-linux-gnu-g++ option to produce PIC... -fPIC -DPIC
checking if x86_64-pc-linux-gnu-g++ PIC flag -fPIC -DPIC works... yes
checking if x86_64-pc-linux-gnu-g++ static flag -static works... yes
checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o... yes
checking if x86_64-pc-linux-gnu-g++ supports -c -o file.o... (cached) yes
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... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking sys/stdtypes.h usability... no
checking sys/stdtypes.h presence... no
checking for sys/stdtypes.h... no
checking for x86_64-pc-linux-gnu-gcc option to support OpenMP... -fopenmp
checking if this is MINGW on Windows... no
checking for gsl-config... /usr/bin/gsl-config
checking for GSL - version >= 1.3... yes
checking for x86_64-pc-linux-gnu-pkg-config... no
checking for pkg-config... /usr/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for GTK... yes
checking for GNOME_CANVAS... yes
checking for pkg-config... /usr/bin/pkg-config
checking for GtkGLExt - version >= 1.0.0... yes (version 1.2.0)
checking for GLUT... yes
checking for MMDB... yes
checking for MMDB... yes
checking for MMDBSSM... yes
checking for Clipper... yes
Congratulations, you are using Guile
checking for guile... /usr/bin/guile
checking for guile-config... /usr/bin/guile-config
checking for guile-tools... /usr/bin/guile-tools
checking libguile compile flags...  -pthread
checking libguile link flags... -pthread -L/usr/lib64 -lguile -lltdl -lgmp -lcrypt -lm -lltdl
checking for Guile-Lib... yes
checking for guile-gui... yes
checking GUILE_VERSION: 1.8
checking for Python... checking Python.h usability... yes
checking Python.h presence... yes
checking for Python.h... yes
Cool, using Python
checking for PYGTK... yes
Good we have pygtk
checking for guile-gtk... 
checking libglade... yes
Not using database
checking for curl >= 7.9.7... 7.21.4
checking build type... which: no rpm in (/usr/lib64/portage/bin/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin:/usr/x86_64-pc-linux-gnu/gcc-bin/4.5.3)
Linux-GenuineIntel---python-gtk2
configure: creating ./config.status
config.status: creating Makefile
config.status: creating macros/Makefile
config.status: creating scheme/Makefile
config.status: creating python/Makefile
config.status: creating compat/Makefile
config.status: creating utils/Makefile
config.status: creating coot-utils/Makefile
config.status: creating ccp4mg-utils/Makefile
config.status: creating coords/Makefile
config.status: creating db-main/Makefile
config.status: creating density-contour/Makefile
config.status: creating surface/Makefile
config.status: creating coot-surface/Makefile
config.status: creating angles/Makefile
config.status: creating mini-mol/Makefile
config.status: creating skeleton/Makefile
config.status: creating ligand/Makefile
config.status: creating geometry/Makefile
config.status: creating ideal/Makefile
config.status: creating build/Makefile
config.status: creating analysis/Makefile
config.status: creating high-res/Makefile
config.status: creating tw/Makefile
config.status: creating cootaneer/Makefile
config.status: creating greg-tests/Makefile
config.status: creating python-tests/Makefile
config.status: creating lidia-core/Makefile
config.status: creating doc/Makefile
config.status: creating src/Makefile
config.status: creating src/coot
config.status: creating python/coot_load_modules.py
config.status: creating data/Makefile
config.status: creating rama-data/Makefile
config.status: creating auxil/Makefile
config.status: creating auxil/catcheck/Makefile
config.status: creating auxil/rama/Makefile
config.status: creating auxil/sec-str/Makefile
config.status: creating auxil/strand-analysis/Makefile
config.status: creating auxil/vectors/Makefile
config.status: executing depfiles commands
config.status: executing libtool commands
>>> Source configured.
>>> Compiling source in /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2 ...
make -j4 
Making all in auxil
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil'
Making all in catcheck
make[2]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil/catcheck'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil/catcheck'
Making all in rama
make[2]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil/rama'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil/rama'
Making all in sec-str
make[2]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil/sec-str'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil/sec-str'
Making all in strand-analysis
make[2]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil/strand-analysis'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil/strand-analysis'
Making all in vectors
make[2]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil/vectors'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil/vectors'
make[2]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil'
make[2]: Nothing to be done for `all-am'.
make[2]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil'
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/auxil'
Making all in scheme
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/scheme'
make[1]: Nothing to be done for `all'.
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/scheme'
Making all in python
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/python'
make[1]: Nothing to be done for `all'.
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/python'
Making all in macros
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/macros'
make[1]: Nothing to be done for `all'.
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/macros'
Making all in compat
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/compat'
/bin/sh ../libtool --tag=CC   --mode=compile x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I.     -march=native -O2 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c -o getopt.lo getopt.c
/bin/sh ../libtool --tag=CC   --mode=compile x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I.     -march=native -O2 -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c -o getopt1.lo getopt1.c
libtool: compile:  x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -march=native -O2 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c getopt.c  -fPIC -DPIC -o .libs/getopt.o
libtool: compile:  x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -march=native -O2 -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c getopt1.c  -fPIC -DPIC -o .libs/getopt1.o
libtool: compile:  x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -march=native -O2 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c getopt.c -o getopt.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -march=native -O2 -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c getopt1.c -o getopt1.o >/dev/null 2>&1
mv -f .deps/getopt.Tpo .deps/getopt.Plo
mv -f .deps/getopt1.Tpo .deps/getopt1.Plo
/bin/sh ../libtool --tag=CC   --mode=link x86_64-pc-linux-gnu-gcc  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-compat.la -rpath /usr/lib64 getopt.lo getopt1.lo  
libtool: link: x86_64-pc-linux-gnu-gcc -shared  -fPIC -DPIC  .libs/getopt.o .libs/getopt1.o   -Wl,--as-needed  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libcoot-compat.so.0 -o .libs/libcoot-compat.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libcoot-compat.so.0" && ln -s "libcoot-compat.so.0.0.0" "libcoot-compat.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-compat.so" && ln -s "libcoot-compat.so.0.0.0" "libcoot-compat.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-compat.a  getopt.o getopt1.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-compat.a
libtool: link: ( cd ".libs" && rm -f "libcoot-compat.la" && ln -s "../libcoot-compat.la" "libcoot-compat.la" )
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/compat'
Making all in utils
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils'
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat		    -DPKGDATADIR='"/usr/share/coot"' -march=native -O2 -MT coot-utils.lo -MD -MP -MF .deps/coot-utils.Tpo -c -o coot-utils.lo coot-utils.cc
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat		    -DPKGDATADIR='"/usr/share/coot"' -march=native -O2 -MT coot-fasta.lo -MD -MP -MF .deps/coot-fasta.Tpo -c -o coot-fasta.lo coot-fasta.cc
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make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils'
Making all in geometry
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry'
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I../utils -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c energy-lib.cc  -fPIC -DPIC -o .libs/energy-lib.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I../utils -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT protein-geometry-mmdb.lo -MD -MP -MF .deps/protein-geometry-mmdb.Tpo -c protein-geometry-mmdb.cc -o protein-geometry-mmdb.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I../utils -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c read-sbase.cc -o read-sbase.o >/dev/null 2>&1
mv -f .deps/protein-geometry-mmdb.Tpo .deps/protein-geometry-mmdb.Plo
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I../utils -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP   -DDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"'  -march=native -O2 -MT test-geometry.o -MD -MP -MF .deps/test-geometry.Tpo -c -o test-geometry.o test-geometry.cc
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I../utils -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c energy-lib.cc -o energy-lib.o >/dev/null 2>&1
mv -f .deps/read-sbase.Tpo .deps/read-sbase.Plo
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I../utils -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP   -DDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"'  -march=native -O2 -MT test-read-components.o -MD -MP -MF .deps/test-read-components.Tpo -c -o test-read-components.o test-read-components.cc
mv -f .deps/test-read-components.Tpo .deps/test-read-components.Po
mv -f .deps/energy-lib.Tpo .deps/energy-lib.Plo
mv -f .deps/test-geometry.Tpo .deps/test-geometry.Po
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I../utils -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c protein-geometry.cc -o protein-geometry.o >/dev/null 2>&1
mv -f .deps/protein-geometry.Tpo .deps/protein-geometry.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"'  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-geometry.la -rpath /usr/lib64 protein-geometry.lo protein-geometry-mmdb.lo read-sbase.lo energy-lib.lo ../utils/libcoot-utils.la -lmmdb   -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw 
libtool: link: x86_64-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtbeginS.o  .libs/protein-geometry.o .libs/protein-geometry-mmdb.o .libs/read-sbase.o .libs/energy-lib.o   -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -Wl,--as-needed ../utils/.libs/libcoot-utils.so -L/usr/lib64 /usr/lib64/libclipper-minimol.so -L/usr/lib /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c -lmmdb /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crtn.o  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libcoot-geometry.so.0 -o .libs/libcoot-geometry.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libcoot-geometry.so.0" && ln -s "libcoot-geometry.so.0.0.0" "libcoot-geometry.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-geometry.so" && ln -s "libcoot-geometry.so.0.0.0" "libcoot-geometry.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-geometry.a  protein-geometry.o protein-geometry-mmdb.o read-sbase.o energy-lib.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-geometry.a
libtool: link: ( cd ".libs" && rm -f "libcoot-geometry.la" && ln -s "../libcoot-geometry.la" "libcoot-geometry.la" )
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"'  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o test-geometry test-geometry.o ./libcoot-geometry.la ../utils/libcoot-utils.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DDATADIR='"/usr/share"' -DPKGDATADIR='"/usr/share/coot"'  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o test-read-components test-read-components.o ./libcoot-geometry.la ../utils/libcoot-utils.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   
libtool: link: x86_64-pc-linux-gnu-g++ -DDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/test-geometry test-geometry.o  -Wl,--as-needed ./.libs/libcoot-geometry.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lm -lmmdb
libtool: link: x86_64-pc-linux-gnu-g++ -DDATADIR=\"/usr/share\" -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/test-read-components test-read-components.o  -Wl,--as-needed ./.libs/libcoot-geometry.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lm -lmmdb
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry'
Making all in mini-mol
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol'
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP    -march=native -O2 -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c -o mini-mol.lo mini-mol.cc
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP    -march=native -O2 -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c -o mini-mol-utils.lo mini-mol-utils.cc
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP    -march=native -O2 -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c -o atom-quads.lo atom-quads.cc
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP    -march=native -O2 -MT testminimol.o -MD -MP -MF .deps/testminimol.Tpo -c -o testminimol.o testminimol.cc
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c atom-quads.cc  -fPIC -DPIC -o .libs/atom-quads.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c mini-mol.cc  -fPIC -DPIC -o .libs/mini-mol.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c mini-mol-utils.cc  -fPIC -DPIC -o .libs/mini-mol-utils.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c atom-quads.cc -o atom-quads.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c mini-mol-utils.cc -o mini-mol-utils.o >/dev/null 2>&1
mv -f .deps/testminimol.Tpo .deps/testminimol.Po
mv -f .deps/atom-quads.Tpo .deps/atom-quads.Plo
mv -f .deps/mini-mol-utils.Tpo .deps/mini-mol-utils.Plo
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c mini-mol.cc -o mini-mol.o >/dev/null 2>&1
mv -f .deps/mini-mol.Tpo .deps/mini-mol.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-mini-mol.la -rpath /usr/lib64 mini-mol.lo mini-mol-utils.lo atom-quads.lo -lmmdb   -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw  
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libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-mini-mol.a
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/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o testminimol testminimol.o libcoot-mini-mol.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   
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make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol'
Making all in coot-utils
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils'
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../utils -I../geometry -I../compat -I../mini-mol -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -DUSE_GUILE -DUSE_PYTHON -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT coot-h-bonds.lo -MD -MP -MF .deps/coot-h-bonds.Tpo -c coot-h-bonds.cc  -fPIC -DPIC -o .libs/coot-h-bonds.o
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../utils -I../geometry -I../compat -I../mini-mol -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -DUSE_GUILE -DUSE_PYTHON -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT coot-coord-utils-nucleotides.lo -MD -MP -MF .deps/coot-coord-utils-nucleotides.Tpo -c coot-coord-utils-nucleotides.cc  -fPIC -DPIC -o .libs/coot-coord-utils-nucleotides.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../utils -I../geometry -I../compat -I../mini-mol -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -DUSE_GUILE -DUSE_PYTHON -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT coot-rama.lo -MD -MP -MF .deps/coot-rama.Tpo -c coot-rama.cc -o coot-rama.o >/dev/null 2>&1
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../utils -I../geometry -I../compat -I../mini-mol -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -DUSE_GUILE -DUSE_PYTHON -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT peak-search.lo -MD -MP -MF .deps/peak-search.Tpo -c peak-search.cc -o peak-search.o >/dev/null 2>&1
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../utils -I../geometry -I../compat -I../mini-mol -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -DUSE_GUILE -DUSE_PYTHON -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT xmap-stats.lo -MD -MP -MF .deps/xmap-stats.Tpo -c xmap-stats.cc -o xmap-stats.o >/dev/null 2>&1
mv -f .deps/peak-search.Tpo .deps/peak-search.Plo
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../utils -I../geometry -I../compat -I../mini-mol -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -DUSE_GUILE -DUSE_PYTHON -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT coot-map-heavy.lo -MD -MP -MF .deps/coot-map-heavy.Tpo -c coot-map-heavy.cc  -fPIC -DPIC -o .libs/coot-map-heavy.o
mv -f .deps/xmap-stats.Tpo .deps/xmap-stats.Plo
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../utils -I../geometry -I../compat -I../mini-mol -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -DUSE_GUILE -DUSE_PYTHON -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT coot-fffear.lo -MD -MP -MF .deps/coot-fffear.Tpo -c coot-fffear.cc  -fPIC -DPIC -o .libs/coot-fffear.o
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../utils -I../geometry -I../compat -I../mini-mol -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -DUSE_GUILE -DUSE_PYTHON -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT coot-map-heavy.lo -MD -MP -MF .deps/coot-map-heavy.Tpo -c coot-map-heavy.cc -o coot-map-heavy.o >/dev/null 2>&1
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mv -f .deps/test-shelx-reader.Tpo .deps/test-shelx-reader.Po
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../utils -I../geometry -I../compat -I../mini-mol -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -DUSE_GUILE -DUSE_PYTHON -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT coot-fffear.lo -MD -MP -MF .deps/coot-fffear.Tpo -c coot-fffear.cc -o coot-fffear.o >/dev/null 2>&1
mv -f .deps/test-h-bonds.Tpo .deps/test-h-bonds.Po
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL  -DPKGDATADIR='"/usr/share/coot"' -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-coord-utils.la -rpath /usr/lib64 coot-coord-utils.lo coot-coord-utils-nucleotides.lo coot-rama.lo coot-h-bonds.lo ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   
mv -f .deps/coot-map-utils.Tpo .deps/coot-map-utils.Plo
libtool: link: x86_64-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtbeginS.o  .libs/coot-coord-utils.o .libs/coot-coord-utils-nucleotides.o .libs/coot-rama.o .libs/coot-h-bonds.o   -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -Wl,--as-needed ../geometry/.libs/libcoot-geometry.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lmmdb -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crtn.o  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libcoot-coord-utils.so.0 -o .libs/libcoot-coord-utils.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libcoot-coord-utils.so.0" && ln -s "libcoot-coord-utils.so.0.0.0" "libcoot-coord-utils.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-coord-utils.so" && ln -s "libcoot-coord-utils.so.0.0.0" "libcoot-coord-utils.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-coord-utils.a  coot-coord-utils.o coot-coord-utils-nucleotides.o coot-rama.o coot-h-bonds.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-coord-utils.a
libtool: link: ( cd ".libs" && rm -f "libcoot-coord-utils.la" && ln -s "../libcoot-coord-utils.la" "libcoot-coord-utils.la" )
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL  -DPKGDATADIR='"/usr/share/coot"' -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-shelx.la -rpath /usr/lib64 coot-shelx-ins.lo libcoot-coord-utils.la ../utils/libcoot-utils.la 
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL  -DPKGDATADIR='"/usr/share/coot"' -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-coord-extras.la -rpath /usr/lib64 coot-coord-extras.lo coot-coord-lsq.lo coot-tree-extras.lo water-coordination.lo libcoot-coord-utils.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la 
libtool: link: x86_64-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtbeginS.o  .libs/coot-shelx-ins.o   -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -Wl,--as-needed ./.libs/libcoot-coord-utils.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lmmdb ../utils/.libs/libcoot-utils.so -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crtn.o  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libcoot-shelx.so.0 -o .libs/libcoot-shelx.so.0.0.0
mv -f .deps/test-utils.Tpo .deps/test-utils.Po
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL  -DPKGDATADIR='"/usr/share/coot"' -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-map-utils.la -rpath /usr/lib64 coot-map-utils.lo peak-search.lo peak-search-from-list.lo trim.lo xmap-stats.lo libcoot-coord-utils.la 
libtool: link: x86_64-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtbeginS.o  .libs/coot-coord-extras.o .libs/coot-coord-lsq.o .libs/coot-tree-extras.o .libs/water-coordination.o   -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -Wl,--as-needed ./.libs/libcoot-coord-utils.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c -lmmdb /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so ../utils/.libs/libcoot-utils.so -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crtn.o  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libcoot-coord-extras.so.0 -o .libs/libcoot-coord-extras.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libcoot-shelx.so.0" && ln -s "libcoot-shelx.so.0.0.0" "libcoot-shelx.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-shelx.so" && ln -s "libcoot-shelx.so.0.0.0" "libcoot-shelx.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-shelx.a  coot-shelx-ins.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-shelx.a
libtool: link: (cd ".libs" && rm -f "libcoot-coord-extras.so.0" && ln -s "libcoot-coord-extras.so.0.0.0" "libcoot-coord-extras.so.0")
libtool: link: ( cd ".libs" && rm -f "libcoot-shelx.la" && ln -s "../libcoot-shelx.la" "libcoot-shelx.la" )
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL  -DPKGDATADIR='"/usr/share/coot"' -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o test-h-bonds test-h-bonds.o ./libcoot-coord-utils.la ../geometry/libcoot-geometry.la 
libtool: link: (cd ".libs" && rm -f "libcoot-coord-extras.so" && ln -s "libcoot-coord-extras.so.0.0.0" "libcoot-coord-extras.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-coord-extras.a  coot-coord-extras.o coot-coord-lsq.o coot-tree-extras.o water-coordination.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-coord-extras.a
libtool: link: ( cd ".libs" && rm -f "libcoot-coord-extras.la" && ln -s "../libcoot-coord-extras.la" "libcoot-coord-extras.la" )
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL  -DPKGDATADIR='"/usr/share/coot"' -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o testshelxreader test-shelx-reader.o ./libcoot-shelx.la ./libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la 
libtool: link: x86_64-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtbeginS.o  .libs/coot-map-utils.o .libs/peak-search.o .libs/peak-search-from-list.o .libs/trim.o .libs/xmap-stats.o   -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -Wl,--as-needed ./.libs/libcoot-coord-utils.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lmmdb -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crtn.o  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libcoot-map-utils.so.0 -o .libs/libcoot-map-utils.so.0.0.0
libtool: link: x86_64-pc-linux-gnu-g++ -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/test-h-bonds test-h-bonds.o  -Wl,--as-needed ./.libs/libcoot-coord-utils.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so ../geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c -lmmdb /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lm
libtool: link: (cd ".libs" && rm -f "libcoot-map-utils.so.0" && ln -s "libcoot-map-utils.so.0.0.0" "libcoot-map-utils.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-map-utils.so" && ln -s "libcoot-map-utils.so.0.0.0" "libcoot-map-utils.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-map-utils.a  coot-map-utils.o peak-search.o peak-search-from-list.o trim.o xmap-stats.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-map-utils.a
libtool: link: ( cd ".libs" && rm -f "libcoot-map-utils.la" && ln -s "../libcoot-map-utils.la" "libcoot-map-utils.la" )
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL  -DPKGDATADIR='"/usr/share/coot"' -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o testcootutils test-utils.o ./libcoot-shelx.la ./libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la 
libtool: link: x86_64-pc-linux-gnu-g++ -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/testshelxreader test-shelx-reader.o  -Wl,--as-needed ./.libs/libcoot-shelx.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so ./.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so ../geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c -lmmdb /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lm ../utils/.libs/libcoot-utils.so
libtool: link: x86_64-pc-linux-gnu-g++ -DHAVE_GSL -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/testcootutils test-utils.o  -Wl,--as-needed ./.libs/libcoot-shelx.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so ./.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so ../geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c -lmmdb /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lm ../utils/.libs/libcoot-utils.so
mv -f .deps/coot-fffear.Tpo .deps/coot-fffear.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL  -DPKGDATADIR='"/usr/share/coot"' -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-map-heavy.la -rpath /usr/lib64 coot-map-heavy.lo coot-fffear.lo ../mini-mol/libcoot-mini-mol.la libcoot-map-utils.la libcoot-coord-utils.la ../utils/libcoot-utils.la -L/usr/lib64 -lgsl -lgslcblas -lm 
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libtool: link: ( cd ".libs" && rm -f "libcoot-map-heavy.la" && ln -s "../libcoot-map-heavy.la" "libcoot-map-heavy.la" )
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Making all in surface
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/surface'
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mv -f .deps/CXXChargeTable.Tpo .deps/CXXChargeTable.Plo
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXCoord.lo -MD -MP -MF .deps/CXXCoord.Tpo -c CXXCoord.cpp  -fPIC -DPIC -o .libs/CXXCoord.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXSphereTriangleEdge.lo -MD -MP -MF .deps/CXXSphereTriangleEdge.Tpo -c CXXSphereTriangleEdge.cpp -o CXXSphereTriangleEdge.o >/dev/null 2>&1
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXSurface.lo -MD -MP -MF .deps/CXXSurface.Tpo -c CXXSurface.cpp  -fPIC -DPIC -o .libs/CXXSurface.o
mv -f .deps/CXXSphereTriangleEdge.Tpo .deps/CXXSphereTriangleEdge.Plo
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXCreator.lo -MD -MP -MF .deps/CXXCreator.Tpo -c CXXCreator.cpp  -fPIC -DPIC -o .libs/CXXCreator.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXCircleNode.lo -MD -MP -MF .deps/CXXCircleNode.Tpo -c CXXCircleNode.cpp -o CXXCircleNode.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXCreator.lo -MD -MP -MF .deps/CXXCreator.Tpo -c CXXCreator.cpp -o CXXCreator.o >/dev/null 2>&1
mv -f .deps/CXXCreator.Tpo .deps/CXXCreator.Plo
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include    -fopenmp -march=native -O2 -MT CXXSurfaceVertex.lo -MD -MP -MF .deps/CXXSurfaceVertex.Tpo -c -o CXXSurfaceVertex.lo CXXSurfaceVertex.cpp
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXSurfaceVertex.lo -MD -MP -MF .deps/CXXSurfaceVertex.Tpo -c CXXSurfaceVertex.cpp  -fPIC -DPIC -o .libs/CXXSurfaceVertex.o
mv -f .deps/CXXSphereElement.Tpo .deps/CXXSphereElement.Plo
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include    -fopenmp -march=native -O2 -MT CXXException.lo -MD -MP -MF .deps/CXXException.Tpo -c -o CXXException.lo CXXException.cpp
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXException.lo -MD -MP -MF .deps/CXXException.Tpo -c CXXException.cpp  -fPIC -DPIC -o .libs/CXXException.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXException.lo -MD -MP -MF .deps/CXXException.Tpo -c CXXException.cpp -o CXXException.o >/dev/null 2>&1
mv -f .deps/CXXException.Tpo .deps/CXXException.Plo
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include    -fopenmp -march=native -O2 -MT CXXTorusElement.lo -MD -MP -MF .deps/CXXTorusElement.Tpo -c -o CXXTorusElement.lo CXXTorusElement.cpp
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXSurfaceVertex.lo -MD -MP -MF .deps/CXXSurfaceVertex.Tpo -c CXXSurfaceVertex.cpp -o CXXSurfaceVertex.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXTorusElement.lo -MD -MP -MF .deps/CXXTorusElement.Tpo -c CXXTorusElement.cpp  -fPIC -DPIC -o .libs/CXXTorusElement.o
mv -f .deps/CXXCircleNode.Tpo .deps/CXXCircleNode.Plo
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include    -fopenmp -march=native -O2 -MT CXXFFTSolventMap.lo -MD -MP -MF .deps/CXXFFTSolventMap.Tpo -c -o CXXFFTSolventMap.lo CXXFFTSolventMap.cpp
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXFFTSolventMap.lo -MD -MP -MF .deps/CXXFFTSolventMap.Tpo -c CXXFFTSolventMap.cpp  -fPIC -DPIC -o .libs/CXXFFTSolventMap.o
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXSurface.lo -MD -MP -MF .deps/CXXSurface.Tpo -c CXXSurface.cpp -o CXXSurface.o >/dev/null 2>&1
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/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include    -fopenmp -march=native -O2 -MT CXXNewHood.lo -MD -MP -MF .deps/CXXNewHood.Tpo -c -o CXXNewHood.lo CXXNewHood.cpp
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXNewHood.lo -MD -MP -MF .deps/CXXNewHood.Tpo -c CXXNewHood.cpp  -fPIC -DPIC -o .libs/CXXNewHood.o
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/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include    -fopenmp -march=native -O2 -MT CXXTriangle.lo -MD -MP -MF .deps/CXXTriangle.Tpo -c -o CXXTriangle.lo CXXTriangle.cpp
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXTriangle.lo -MD -MP -MF .deps/CXXTriangle.Tpo -c CXXTriangle.cpp  -fPIC -DPIC -o .libs/CXXTriangle.o
mv -f .deps/CXXTorusElement.Tpo .deps/CXXTorusElement.Plo
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXNode.lo -MD -MP -MF .deps/CXXNode.Tpo -c CXXNode.cpp  -fPIC -DPIC -o .libs/CXXNode.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXNode.lo -MD -MP -MF .deps/CXXNode.Tpo -c CXXNode.cpp -o CXXNode.o >/dev/null 2>&1
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXQADSurface.lo -MD -MP -MF .deps/CXXQADSurface.Tpo -c CXXQADSurface.cpp  -fPIC -DPIC -o .libs/CXXQADSurface.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXTriangle.lo -MD -MP -MF .deps/CXXTriangle.Tpo -c CXXTriangle.cpp -o CXXTriangle.o >/dev/null 2>&1
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/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include    -fopenmp -march=native -O2 -MT CXXBall.lo -MD -MP -MF .deps/CXXBall.Tpo -c -o CXXBall.lo CXXBall.cpp
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXBall.lo -MD -MP -MF .deps/CXXBall.Tpo -c CXXBall.cpp  -fPIC -DPIC -o .libs/CXXBall.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXNewHood.lo -MD -MP -MF .deps/CXXNewHood.Tpo -c CXXNewHood.cpp -o CXXNewHood.o >/dev/null 2>&1
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/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include    -fopenmp -march=native -O2 -MT CXXQADSurfaceStaticData.lo -MD -MP -MF .deps/CXXQADSurfaceStaticData.Tpo -c -o CXXQADSurfaceStaticData.lo CXXQADSurfaceStaticData.cpp
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXQADSurfaceStaticData.lo -MD -MP -MF .deps/CXXQADSurfaceStaticData.Tpo -c CXXQADSurfaceStaticData.cpp  -fPIC -DPIC -o .libs/CXXQADSurfaceStaticData.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXBall.lo -MD -MP -MF .deps/CXXBall.Tpo -c CXXBall.cpp -o CXXBall.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXQADSurface.lo -MD -MP -MF .deps/CXXQADSurface.Tpo -c CXXQADSurface.cpp -o CXXQADSurface.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXQADSurfaceStaticData.lo -MD -MP -MF .deps/CXXQADSurfaceStaticData.Tpo -c CXXQADSurfaceStaticData.cpp -o CXXQADSurfaceStaticData.o >/dev/null 2>&1
mv -f .deps/CXXSurface.Tpo .deps/CXXSurface.Plo
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include    -fopenmp -march=native -O2 -MT CXXSpace.lo -MD -MP -MF .deps/CXXSpace.Tpo -c -o CXXSpace.lo CXXSpace.cpp
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXSpace.lo -MD -MP -MF .deps/CXXSpace.Tpo -c CXXSpace.cpp  -fPIC -DPIC -o .libs/CXXSpace.o
mv -f .deps/CXXQADSurfaceStaticData.Tpo .deps/CXXQADSurfaceStaticData.Plo
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include    -fopenmp -march=native -O2 -MT CXXUtils.lo -MD -MP -MF .deps/CXXUtils.Tpo -c -o CXXUtils.lo CXXUtils.cpp
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXUtils.lo -MD -MP -MF .deps/CXXUtils.Tpo -c CXXUtils.cpp  -fPIC -DPIC -o .libs/CXXUtils.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXSpace.lo -MD -MP -MF .deps/CXXSpace.Tpo -c CXXSpace.cpp -o CXXSpace.o >/dev/null 2>&1
mv -f .deps/CXXSpace.Tpo .deps/CXXSpace.Plo
mv -f .deps/CXXBall.Tpo .deps/CXXBall.Plo
mv -f .deps/CXXQADSurface.Tpo .deps/CXXQADSurface.Plo
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -fopenmp -march=native -O2 -MT CXXUtils.lo -MD -MP -MF .deps/CXXUtils.Tpo -c CXXUtils.cpp -o CXXUtils.o >/dev/null 2>&1
mv -f .deps/CXXUtils.Tpo .deps/CXXUtils.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -fopenmp -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libccp4mg-surface.la -rpath /usr/lib64 CXXSphereElement.lo CXXChargeTable.lo CXXSphereNode.lo CXXCircle.lo CXXSphereTriangle.lo CXXCircleNode.lo CXXSphereTriangleEdge.lo CXXCoord.lo CXXSurface.lo CXXCreator.lo CXXSurfaceVertex.lo CXXException.lo CXXTorusElement.lo CXXFFTSolventMap.lo CXXTorusNode.lo CXXFortranFile.lo CXXNewHood.lo CXXTriangle.lo CXXNode.lo CXXQADSurface.lo CXXBall.lo CXXQADSurfaceStaticData.lo CXXSpace.lo CXXUtils.lo -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   
libtool: link: x86_64-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtbeginS.o  .libs/CXXSphereElement.o .libs/CXXChargeTable.o .libs/CXXSphereNode.o .libs/CXXCircle.o .libs/CXXSphereTriangle.o .libs/CXXCircleNode.o .libs/CXXSphereTriangleEdge.o .libs/CXXCoord.o .libs/CXXSurface.o .libs/CXXCreator.o .libs/CXXSurfaceVertex.o .libs/CXXException.o .libs/CXXTorusElement.o .libs/CXXFFTSolventMap.o .libs/CXXTorusNode.o .libs/CXXFortranFile.o .libs/CXXNewHood.o .libs/CXXTriangle.o .libs/CXXNode.o .libs/CXXQADSurface.o .libs/CXXBall.o .libs/CXXQADSurfaceStaticData.o .libs/CXXSpace.o .libs/CXXUtils.o   -Wl,--as-needed -L/usr/lib64 /usr/lib64/libclipper-minimol.so -L/usr/lib /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lmmdb -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crtn.o  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libccp4mg-surface.so.0 -o .libs/libccp4mg-surface.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libccp4mg-surface.so.0" && ln -s "libccp4mg-surface.so.0.0.0" "libccp4mg-surface.so.0")
libtool: link: (cd ".libs" && rm -f "libccp4mg-surface.so" && ln -s "libccp4mg-surface.so.0.0.0" "libccp4mg-surface.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libccp4mg-surface.a  CXXSphereElement.o CXXChargeTable.o CXXSphereNode.o CXXCircle.o CXXSphereTriangle.o CXXCircleNode.o CXXSphereTriangleEdge.o CXXCoord.o CXXSurface.o CXXCreator.o CXXSurfaceVertex.o CXXException.o CXXTorusElement.o CXXFFTSolventMap.o CXXTorusNode.o CXXFortranFile.o CXXNewHood.o CXXTriangle.o CXXNode.o CXXQADSurface.o CXXBall.o CXXQADSurfaceStaticData.o CXXSpace.o CXXUtils.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libccp4mg-surface.a
libtool: link: ( cd ".libs" && rm -f "libccp4mg-surface.la" && ln -s "../libccp4mg-surface.la" "libccp4mg-surface.la" )
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/surface'
Making all in coot-surface
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-surface'
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../surface -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include      -march=native -O2 -MT coot-surface.lo -MD -MP -MF .deps/coot-surface.Tpo -c -o coot-surface.lo coot-surface.cc
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../surface -I../coot-utils -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include      -march=native -O2 -MT rgbreps.lo -MD -MP -MF .deps/rgbreps.Tpo -c -o rgbreps.lo rgbreps.cc
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../surface -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -march=native -O2 -MT coot-surface.lo -MD -MP -MF .deps/coot-surface.Tpo -c coot-surface.cc  -fPIC -DPIC -o .libs/coot-surface.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../surface -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -march=native -O2 -MT rgbreps.lo -MD -MP -MF .deps/rgbreps.Tpo -c rgbreps.cc  -fPIC -DPIC -o .libs/rgbreps.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../surface -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -march=native -O2 -MT rgbreps.lo -MD -MP -MF .deps/rgbreps.Tpo -c rgbreps.cc -o rgbreps.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../surface -I../coot-utils -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -march=native -O2 -MT coot-surface.lo -MD -MP -MF .deps/coot-surface.Tpo -c coot-surface.cc -o coot-surface.o >/dev/null 2>&1
mv -f .deps/rgbreps.Tpo .deps/rgbreps.Plo
mv -f .deps/coot-surface.Tpo .deps/coot-surface.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-surface.la -rpath /usr/lib64 coot-surface.lo rgbreps.lo ../surface/libccp4mg-surface.la -lglut  -lXmu -pthread -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lm -lcairo -lpng14 -lpango-1.0 -lfreetype -lfontconfig -lgobject-2.0 -lgmodule-2.0 -lgthread-2.0 -lrt -lglib-2.0   -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   -lGL 
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libtool: link: (cd ".libs" && rm -f "libcoot-surface.so.0" && ln -s "libcoot-surface.so.0.0.0" "libcoot-surface.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-surface.so" && ln -s "libcoot-surface.so.0.0.0" "libcoot-surface.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-surface.a  coot-surface.o rgbreps.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-surface.a
libtool: link: ( cd ".libs" && rm -f "libcoot-surface.la" && ln -s "../libcoot-surface.la" "libcoot-surface.la" )
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-surface'
Making all in lidia-core
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core'
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include    -march=native -O2 -MT lbg-molfile.lo -MD -MP -MF .deps/lbg-molfile.Tpo -c -o lbg-molfile.lo lbg-molfile.cc
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -march=native -O2 -MT lig-build.lo -MD -MP -MF .deps/lig-build.Tpo -c lig-build.cc  -fPIC -DPIC -o .libs/lig-build.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -march=native -O2 -MT lbg-molfile.lo -MD -MP -MF .deps/lbg-molfile.Tpo -c lbg-molfile.cc  -fPIC -DPIC -o .libs/lbg-molfile.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -march=native -O2 -MT lig-build.lo -MD -MP -MF .deps/lig-build.Tpo -c lig-build.cc -o lig-build.o >/dev/null 2>&1
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/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-lidia-core.la -rpath /usr/lib64 lbg-molfile.lo lig-build.lo  
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libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so.0" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-lidia-core.a  lbg-molfile.o lig-build.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-lidia-core.a
libtool: link: ( cd ".libs" && rm -f "libcoot-lidia-core.la" && ln -s "../libcoot-lidia-core.la" "libcoot-lidia-core.la" )
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core'
Making all in coords
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coords'
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../lidia-core -I../skeleton -I../utils -I../coot-utils -I../geometry -I../mini-mol -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP   -DPKGDATADIR='"/usr/share/coot"' -DDATADIR='"/usr/share"'  -march=native -O2 -MT Bond_lines.lo -MD -MP -MF .deps/Bond_lines.Tpo -c -o Bond_lines.lo Bond_lines.cc
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../lidia-core -I../skeleton -I../utils -I../coot-utils -I../geometry -I../mini-mol -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -DDATADIR=\"/usr/share\" -march=native -O2 -MT Cartesian.lo -MD -MP -MF .deps/Cartesian.Tpo -c Cartesian.cc  -fPIC -DPIC -o .libs/Cartesian.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../lidia-core -I../skeleton -I../utils -I../coot-utils -I../geometry -I../mini-mol -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -DDATADIR=\"/usr/share\" -march=native -O2 -MT cos-sin.lo -MD -MP -MF .deps/cos-sin.Tpo -c cos-sin.cc  -fPIC -DPIC -o .libs/cos-sin.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../lidia-core -I../skeleton -I../utils -I../coot-utils -I../geometry -I../mini-mol -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -DDATADIR=\"/usr/share\" -march=native -O2 -MT Bond_lines.lo -MD -MP -MF .deps/Bond_lines.Tpo -c Bond_lines.cc  -fPIC -DPIC -o .libs/Bond_lines.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../lidia-core -I../skeleton -I../utils -I../coot-utils -I../geometry -I../mini-mol -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -DDATADIR=\"/usr/share\" -march=native -O2 -MT mmdb-extras.lo -MD -MP -MF .deps/mmdb-extras.Tpo -c mmdb-extras.cc  -fPIC -DPIC -o .libs/mmdb-extras.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../lidia-core -I../skeleton -I../utils -I../coot-utils -I../geometry -I../mini-mol -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -DDATADIR=\"/usr/share\" -march=native -O2 -MT cos-sin.lo -MD -MP -MF .deps/cos-sin.Tpo -c cos-sin.cc -o cos-sin.o >/dev/null 2>&1
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/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../lidia-core -I../skeleton -I../utils -I../coot-utils -I../geometry -I../mini-mol -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP   -DPKGDATADIR='"/usr/share/coot"' -DDATADIR='"/usr/share"'  -march=native -O2 -MT utils.lo -MD -MP -MF .deps/utils.Tpo -c -o utils.lo utils.cc
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../lidia-core -I../skeleton -I../utils -I../coot-utils -I../geometry -I../mini-mol -I../compat -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -DDATADIR=\"/usr/share\" -march=native -O2 -MT Bond_lines.lo -MD -MP -MF .deps/Bond_lines.Tpo -c Bond_lines.cc -o Bond_lines.o >/dev/null 2>&1
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mv -f .deps/Bond_lines_ext.Tpo .deps/Bond_lines_ext.Plo
mv -f .deps/Bond_lines.Tpo .deps/Bond_lines.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DPKGDATADIR='"/usr/share/coot"' -DDATADIR='"/usr/share"'  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-coords.la -rpath /usr/lib64 Bond_lines.lo Cartesian.lo cos-sin.lo mmdb-extras.lo utils.lo mmdb.lo mmdb-crystal.lo Bond_lines_ext.lo coot-close.lo ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-shelx.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -lmmdb   
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libtool: link: (cd ".libs" && rm -f "libcoot-coords.so.0" && ln -s "libcoot-coords.so.0.0.0" "libcoot-coords.so.0")
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libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-coords.a  Bond_lines.o Cartesian.o cos-sin.o mmdb-extras.o utils.o mmdb.o mmdb-crystal.o Bond_lines_ext.o coot-close.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-coords.a
libtool: link: ( cd ".libs" && rm -f "libcoot-coords.la" && ln -s "../libcoot-coords.la" "libcoot-coords.la" )
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Making all in angles
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -g -O1 -march=native -O2 -MT libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo -c AngleInfo-angle-torsions-autogen.cc  -fPIC -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -g -O1 -march=native -O2 -MT libcoot_AngleInfo_la-AngleInfo.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo.Tpo -c AngleInfo.cc  -fPIC -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -g -O1 -march=native -O2 -MT libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo -c AngleInfo-theta_2-autogen.cc -o libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o >/dev/null 2>&1
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -g -O1 -march=native -O2 -MT libcoot_AngleInfo_la-AngleInfo.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo.Tpo -c AngleInfo.cc -o libcoot_AngleInfo_la-AngleInfo.o >/dev/null 2>&1
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -g -O1 -march=native -O2 -MT libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo -c AngleInfo-angle-torsions-autogen.cc -o libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o >/dev/null 2>&1
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libtool: link: (cd ".libs" && rm -f "libcoot-AngleInfo.so" && ln -s "libcoot-AngleInfo.so.0.0.0" "libcoot-AngleInfo.so")
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libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-AngleInfo.a
libtool: link: ( cd ".libs" && rm -f "libcoot-AngleInfo.la" && ln -s "../libcoot-AngleInfo.la" "libcoot-AngleInfo.la" )
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/angles'
Making all in skeleton
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../geometry -I../coords -I../angles -I../compat -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -march=native -O2 -MT dm-utils.lo -MD -MP -MF .deps/dm-utils.Tpo -c dm-utils.cc  -fPIC -DPIC -o .libs/dm-utils.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../geometry -I../coords -I../angles -I../compat -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -march=native -O2 -MT graphical_skel.lo -MD -MP -MF .deps/graphical_skel.Tpo -c graphical_skel.cc  -fPIC -DPIC -o .libs/graphical_skel.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../geometry -I../coords -I../angles -I../compat -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -march=native -O2 -MT BuildCas.lo -MD -MP -MF .deps/BuildCas.Tpo -c BuildCas.cc  -fPIC -DPIC -o .libs/BuildCas.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../geometry -I../coords -I../angles -I../compat -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -march=native -O2 -MT dm-utils.lo -MD -MP -MF .deps/dm-utils.Tpo -c dm-utils.cc -o dm-utils.o >/dev/null 2>&1
mv -f .deps/dm-utils.Tpo .deps/dm-utils.Plo
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../geometry -I../coords -I../angles -I../compat -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -march=native -O2 -MT graphical_skel.lo -MD -MP -MF .deps/graphical_skel.Tpo -c graphical_skel.cc -o graphical_skel.o >/dev/null 2>&1
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../geometry -I../coords -I../angles -I../compat -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -march=native -O2 -MT BuildCas.lo -MD -MP -MF .deps/BuildCas.Tpo -c BuildCas.cc -o BuildCas.o >/dev/null 2>&1
mv -f .deps/BuildCas.Tpo .deps/BuildCas.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-skeleton.la -rpath /usr/lib64 dm-utils.lo graphical_skel.lo BuildCas.lo ../angles/libcoot-AngleInfo.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   
libtool: link: x86_64-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtbeginS.o  .libs/dm-utils.o .libs/graphical_skel.o .libs/BuildCas.o   -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/angles/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coords/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs -Wl,--as-needed ../angles/.libs/libcoot-AngleInfo.so ../geometry/.libs/libcoot-geometry.so -L/usr/lib64 -L/usr/lib ../coords/.libs/libcoot-coords.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs/libcoot-lidia-core.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-shelx.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lmmdb -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crtn.o  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libcoot-skeleton.so.0 -o .libs/libcoot-skeleton.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libcoot-skeleton.so.0" && ln -s "libcoot-skeleton.so.0.0.0" "libcoot-skeleton.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-skeleton.so" && ln -s "libcoot-skeleton.so.0.0.0" "libcoot-skeleton.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-skeleton.a  dm-utils.o graphical_skel.o BuildCas.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-skeleton.a
libtool: link: ( cd ".libs" && rm -f "libcoot-skeleton.la" && ln -s "../libcoot-skeleton.la" "libcoot-skeleton.la" )
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/skeleton'
Making all in ccp4mg-utils
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ccp4mg-utils'
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG    -march=native -O2 -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c -o geomutil.lo geomutil.cc
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG    -march=native -O2 -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c -o mgtree.lo mgtree.cc
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG    -march=native -O2 -MT cartesian.lo -MD -MP -MF .deps/cartesian.Tpo -c -o cartesian.lo cartesian.cc
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG    -march=native -O2 -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c -o matrix.lo matrix.cc
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT cartesian.lo -MD -MP -MF .deps/cartesian.Tpo -c cartesian.cc  -fPIC -DPIC -o .libs/cartesian.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c matrix.cc  -fPIC -DPIC -o .libs/matrix.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c mgtree.cc  -fPIC -DPIC -o .libs/mgtree.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c geomutil.cc  -fPIC -DPIC -o .libs/geomutil.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT cartesian.lo -MD -MP -MF .deps/cartesian.Tpo -c cartesian.cc -o cartesian.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c geomutil.cc -o geomutil.o >/dev/null 2>&1
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/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG    -march=native -O2 -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c -o quat.lo quat.cc
mv -f .deps/geomutil.Tpo .deps/geomutil.Plo
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG    -march=native -O2 -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c -o ppmutil.lo ppmutil.cc
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c quat.cc  -fPIC -DPIC -o .libs/quat.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c ppmutil.cc  -fPIC -DPIC -o .libs/ppmutil.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c matrix.cc -o matrix.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c quat.cc -o quat.o >/dev/null 2>&1
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mv -f .deps/matrix.Tpo .deps/matrix.Plo
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c mgtree.cc -o mgtree.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DUSE_LIBPNG -march=native -O2 -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c ppmutil.cc -o ppmutil.o >/dev/null 2>&1
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mv -f .deps/mgtree.Tpo .deps/mgtree.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libccp4mg-utils.la -rpath /usr/lib64 geomutil.lo mgtree.lo cartesian.lo matrix.lo quat.lo ppmutil.lo -lpng 
libtool: link: x86_64-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtbeginS.o  .libs/geomutil.o .libs/mgtree.o .libs/cartesian.o .libs/matrix.o .libs/quat.o .libs/ppmutil.o   -Wl,--as-needed -lpng -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crtn.o  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libccp4mg-utils.so.0 -o .libs/libccp4mg-utils.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libccp4mg-utils.so.0" && ln -s "libccp4mg-utils.so.0.0.0" "libccp4mg-utils.so.0")
libtool: link: (cd ".libs" && rm -f "libccp4mg-utils.so" && ln -s "libccp4mg-utils.so.0.0.0" "libccp4mg-utils.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libccp4mg-utils.a  geomutil.o mgtree.o cartesian.o matrix.o quat.o ppmutil.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libccp4mg-utils.a
libtool: link: ( cd ".libs" && rm -f "libccp4mg-utils.la" && ln -s "../libccp4mg-utils.la" "libccp4mg-utils.la" )
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ccp4mg-utils'
Making all in density-contour
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/density-contour'
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I/usr/include -I/usr/include     -march=native -O2 -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c -o Vectors.lo Vectors.cpp
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I/usr/include -I/usr/include     -march=native -O2 -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c -o CIsoSurface.lo CIsoSurface.cpp
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I/usr/include -I/usr/include     -march=native -O2 -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c -o density-contour-triangles.lo density-contour-triangles.cc
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I/usr/include -I/usr/include -march=native -O2 -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c CIsoSurface.cpp  -fPIC -DPIC -o .libs/CIsoSurface.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I/usr/include -I/usr/include -march=native -O2 -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c density-contour-triangles.cc  -fPIC -DPIC -o .libs/density-contour-triangles.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I/usr/include -I/usr/include -march=native -O2 -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c Vectors.cpp  -fPIC -DPIC -o .libs/Vectors.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I/usr/include -I/usr/include -march=native -O2 -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c Vectors.cpp -o Vectors.o >/dev/null 2>&1
mv -f .deps/Vectors.Tpo .deps/Vectors.Plo
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I/usr/include -I/usr/include -march=native -O2 -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c density-contour-triangles.cc -o density-contour-triangles.o >/dev/null 2>&1
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coords -I/usr/include -I/usr/include -march=native -O2 -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c CIsoSurface.cpp -o CIsoSurface.o >/dev/null 2>&1
mv -f .deps/CIsoSurface.Tpo .deps/CIsoSurface.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-isosurface.la -rpath /usr/lib64 Vectors.lo CIsoSurface.lo density-contour-triangles.lo ../coords/libcoot-coords.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw 
libtool: link: x86_64-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtbeginS.o  .libs/Vectors.o .libs/CIsoSurface.o .libs/density-contour-triangles.o   -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coords/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs -Wl,--as-needed ../coords/.libs/libcoot-coords.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs/libcoot-lidia-core.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-shelx.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c -lmmdb /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crtn.o  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libcoot-isosurface.so.0 -o .libs/libcoot-isosurface.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libcoot-isosurface.so.0" && ln -s "libcoot-isosurface.so.0.0.0" "libcoot-isosurface.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-isosurface.so" && ln -s "libcoot-isosurface.so.0.0.0" "libcoot-isosurface.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-isosurface.a  Vectors.o CIsoSurface.o density-contour-triangles.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-isosurface.a
libtool: link: ( cd ".libs" && rm -f "libcoot-isosurface.la" && ln -s "../libcoot-isosurface.la" "libcoot-isosurface.la" )
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/density-contour'
Making all in db-main
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/db-main'
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mv -f .deps/testdbmain.Tpo .deps/testdbmain.Po
mv -f .deps/train-pepflip.Tpo .deps/train-pepflip.Po
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mv -f .deps/db-strands.Tpo .deps/db-strands.Plo
mv -f .deps/db-main.Tpo .deps/db-main.Plo
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libtool: link: ( cd ".libs" && rm -f "libcoot-db-main.la" && ln -s "../libcoot-db-main.la" "libcoot-db-main.la" )
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libtool: link: x86_64-pc-linux-gnu-g++ -DPKGDATADIR=\"/usr/share/coot\" -DDATADIR=\"/usr/share\" -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/testdbmain testdbmain.o  -Wl,--as-needed ./.libs/libcoot-db-main.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so ../geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lm -lmmdb
libtool: link: x86_64-pc-linux-gnu-g++ -DPKGDATADIR=\"/usr/share/coot\" -DDATADIR=\"/usr/share\" -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/train-pepflip train-pepflip.o  -Wl,--as-needed ./.libs/libcoot-db-main.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so ../geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lm -lmmdb
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Making all in ideal
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../utils -I../lidia-core -I../coot-utils -I../mini-mol -I../geometry -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -march=native -O2 -MT extra-restraints-kk.lo -MD -MP -MF .deps/extra-restraints-kk.Tpo -c extra-restraints-kk.cc  -fPIC -DPIC -o .libs/extra-restraints-kk.o
mv -f .deps/regularize-minimol.Tpo .deps/regularize-minimol.Plo
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../utils -I../lidia-core -I../coot-utils -I../mini-mol -I../geometry -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -march=native -O2 -MT simple-restraint-kk.lo -MD -MP -MF .deps/simple-restraint-kk.Tpo -c simple-restraint-kk.cc  -fPIC -DPIC -o .libs/simple-restraint-kk.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../utils -I../lidia-core -I../coot-utils -I../mini-mol -I../geometry -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -march=native -O2 -MT simple-restraint-kk.lo -MD -MP -MF .deps/simple-restraint-kk.Tpo -c simple-restraint-kk.cc -o simple-restraint-kk.o >/dev/null 2>&1
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mv -f .deps/extra-restraints.Tpo .deps/extra-restraints.Plo
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../utils -I../lidia-core -I../coot-utils -I../mini-mol -I../geometry -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP   -DHAVE_GSL -I/usr/include  -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL  -march=native -O2 -MT with-geometry.o -MD -MP -MF .deps/with-geometry.Tpo -c -o with-geometry.o with-geometry.cc
mv -f .deps/simple-restraint-kk.Tpo .deps/simple-restraint-kk.Plo
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../utils -I../lidia-core -I../coot-utils -I../mini-mol -I../geometry -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP   -DHAVE_GSL -I/usr/include  -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL  -march=native -O2 -MT with-map.o -MD -MP -MF .deps/with-map.Tpo -c -o with-map.o with-map.cc
mv -f .deps/extra-restraints-kk.Tpo .deps/extra-restraints-kk.Plo
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../utils -I../lidia-core -I../coot-utils -I../mini-mol -I../geometry -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP   -DHAVE_GSL -I/usr/include  -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL  -march=native -O2 -MT logramatest.o -MD -MP -MF .deps/logramatest.Tpo -c -o logramatest.o logramatest.cpp
mv -f .deps/logramatest.Tpo .deps/logramatest.Po
mv -f .deps/with-geometry.Tpo .deps/with-geometry.Po
mv -f .deps/with-map.Tpo .deps/with-map.Po
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../utils -I../lidia-core -I../coot-utils -I../mini-mol -I../geometry -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -march=native -O2 -MT simple-restraint.lo -MD -MP -MF .deps/simple-restraint.Tpo -c simple-restraint.cc -o simple-restraint.o >/dev/null 2>&1
mv -f .deps/simple-restraint.Tpo .deps/simple-restraint.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL -I/usr/include  -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL  -march=native -O2 -L/usr/lib64 -lgsl -lgslcblas -lm -lmmdb   -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-ideal.la -rpath /usr/lib64 simple-restraint.lo extra-restraints.lo pepflip.lo regularize-minimol.lo lograma.lo extra-restraints-kk.lo simple-restraint-kk.lo ../geometry/libcoot-geometry.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -L/usr/lib64 -lgsl -lgslcblas -lm -lmmdb   -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw 
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libtool: link: (cd ".libs" && rm -f "libcoot-ideal.so.0" && ln -s "libcoot-ideal.so.0.0.0" "libcoot-ideal.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-ideal.so" && ln -s "libcoot-ideal.so.0.0.0" "libcoot-ideal.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-ideal.a  simple-restraint.o extra-restraints.o pepflip.o regularize-minimol.o lograma.o extra-restraints-kk.o simple-restraint-kk.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-ideal.a
libtool: link: ( cd ".libs" && rm -f "libcoot-ideal.la" && ln -s "../libcoot-ideal.la" "libcoot-ideal.la" )
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL -I/usr/include  -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL  -march=native -O2 -L/usr/lib64 -lgsl -lgslcblas -lm -lmmdb   -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o with-geometry with-geometry.o ./libcoot-ideal.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-utils/libcoot-shelx.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   -L/usr/lib64 -lgsl -lgslcblas -lm 
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL -I/usr/include  -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL  -march=native -O2 -L/usr/lib64 -lgsl -lgslcblas -lm -lmmdb   -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o with-map with-map.o ./libcoot-ideal.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-shelx.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la ../mini-mol/libcoot-mini-mol.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   -L/usr/lib64 -lgsl -lgslcblas -lm 
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DHAVE_GSL -I/usr/include  -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL  -march=native -O2 -L/usr/lib64 -lgsl -lgslcblas -lm -lmmdb   -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o logramatest logramatest.o ./libcoot-ideal.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -L/usr/lib64 -lgsl -lgslcblas -lm 
libtool: link: x86_64-pc-linux-gnu-g++ -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/logramatest logramatest.o  -L/usr/lib64 -L/usr/lib -Wl,--as-needed ./.libs/libcoot-ideal.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-extras.so ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-extras.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c -lmmdb /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm
libtool: link: x86_64-pc-linux-gnu-g++ -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/with-geometry with-geometry.o  -L/usr/lib64 -L/usr/lib -Wl,--as-needed ./.libs/libcoot-ideal.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-extras.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs/libcoot-lidia-core.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-shelx.so ../coot-utils/.libs/libcoot-shelx.so ../coot-utils/.libs/libcoot-coord-extras.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lmmdb /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm
libtool: link: x86_64-pc-linux-gnu-g++ -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DHAVE_GSL -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/with-map with-map.o  -L/usr/lib64 -L/usr/lib -Wl,--as-needed ./.libs/libcoot-ideal.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-extras.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs/libcoot-lidia-core.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-shelx.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-shelx.so ../coot-utils/.libs/libcoot-coord-extras.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so ../mini-mol/.libs/libcoot-mini-mol.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lmmdb /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ideal'
Making all in ligand
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ligand'
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mv -f .deps/wiggly-ligand.Tpo .deps/wiggly-ligand.Plo
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT fast-ss-search.lo -MD -MP -MF .deps/fast-ss-search.Tpo -c fast-ss-search.cc  -fPIC -DPIC -o .libs/fast-ss-search.o
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT rotamer-tables.lo -MD -MP -MF .deps/rotamer-tables.Tpo -c rotamer-tables.cc -o rotamer-tables.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT primitive-chi-angles.lo -MD -MP -MF .deps/primitive-chi-angles.Tpo -c primitive-chi-angles.cc -o primitive-chi-angles.o >/dev/null 2>&1
mv -f .deps/rotamer.Tpo .deps/rotamer.Plo
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP    -DPKGDATADIR='"/usr/share/coot"'  -march=native -O2 -MT base-pairing.lo -MD -MP -MF .deps/base-pairing.Tpo -c -o base-pairing.lo base-pairing.cc
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT base-pairing.lo -MD -MP -MF .deps/base-pairing.Tpo -c base-pairing.cc  -fPIC -DPIC -o .libs/base-pairing.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT base-pairing.lo -MD -MP -MF .deps/base-pairing.Tpo -c base-pairing.cc -o base-pairing.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT dipole.lo -MD -MP -MF .deps/dipole.Tpo -c dipole.cc -o dipole.o >/dev/null 2>&1
mv -f .deps/base-pairing.Tpo .deps/base-pairing.Plo
/bin/sh ../libtool --tag=CXX   --mode=compile x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP    -DPKGDATADIR='"/usr/share/coot"'  -march=native -O2 -MT backrub-rotamer.lo -MD -MP -MF .deps/backrub-rotamer.Tpo -c -o backrub-rotamer.lo backrub-rotamer.cc
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT backrub-rotamer.lo -MD -MP -MF .deps/backrub-rotamer.Tpo -c backrub-rotamer.cc  -fPIC -DPIC -o .libs/backrub-rotamer.o
mv -f .deps/primitive-chi-angles.Tpo .deps/primitive-chi-angles.Plo
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP    -DPKGDATADIR='"/usr/share/coot"'  -march=native -O2 -MT find-ligand.o -MD -MP -MF .deps/find-ligand.Tpo -c -o find-ligand.o find-ligand.cc
mv -f .deps/rotamer-tables.Tpo .deps/rotamer-tables.Plo
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP    -DPKGDATADIR='"/usr/share/coot"'  -march=native -O2 -MT find-waters.o -MD -MP -MF .deps/find-waters.Tpo -c -o find-waters.o find-waters.cc
mv -f .deps/find-waters.Tpo .deps/find-waters.Po
mv -f .deps/dipole.Tpo .deps/dipole.Plo
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../ccp4mg-utils -I../mini-mol -I../geometry -I../ideal -I../coords -I../lidia-core -I../utils -I../coot-utils -I../compat -I../db-main -DHAVE_GSL -I/usr/include -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT backrub-rotamer.lo -MD -MP -MF .deps/backrub-rotamer.Tpo -c backrub-rotamer.cc -o backrub-rotamer.o >/dev/null 2>&1
mv -f .deps/find-ligand.Tpo .deps/find-ligand.Po
mv -f .deps/backrub-rotamer.Tpo .deps/backrub-rotamer.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DPKGDATADIR='"/usr/share/coot"'  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-ligand.la -rpath /usr/lib64 ligand.lo ligand-extras.lo residue_by_phi_psi.lo wiggly-ligand.lo monomer-utils.lo dunbrack.lo chi-angles-autogen.lo chi-angles.lo helix-placement.lo fast-ss-search.lo rigid-body.lo ideal-rna.lo richardson-rotamers.lo richardson-rotamer.lo rotamer.lo torsion-general.lo rotamer-tables.lo primitive-chi-angles.lo dipole.lo base-pairing.lo backrub-rotamer.lo ../ideal/libcoot-ideal.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coords/libcoot-coords.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../utils/libcoot-utils.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   
libtool: link: x86_64-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtbeginS.o  .libs/ligand.o .libs/ligand-extras.o .libs/residue_by_phi_psi.o .libs/wiggly-ligand.o .libs/monomer-utils.o .libs/dunbrack.o .libs/chi-angles-autogen.o .libs/chi-angles.o .libs/helix-placement.o .libs/fast-ss-search.o .libs/rigid-body.o .libs/ideal-rna.o .libs/richardson-rotamers.o .libs/richardson-rotamer.o .libs/rotamer.o .libs/torsion-general.o .libs/rotamer-tables.o .libs/primitive-chi-angles.o .libs/dipole.o .libs/base-pairing.o .libs/backrub-rotamer.o   -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ideal/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/db-main/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ccp4mg-utils/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coords/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs -Wl,-rpath -Wl,/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs -L/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs -Wl,--as-needed ../ideal/.libs/libcoot-ideal.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-extras.so /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../coords/.libs/libcoot-coords.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs/libcoot-lidia-core.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-shelx.so ../coot-utils/.libs/libcoot-coord-extras.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-map-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lmmdb -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crtn.o  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libcoot-ligand.so.0 -o .libs/libcoot-ligand.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libcoot-ligand.so.0" && ln -s "libcoot-ligand.so.0.0.0" "libcoot-ligand.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-ligand.so" && ln -s "libcoot-ligand.so.0.0.0" "libcoot-ligand.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcoot-ligand.a  ligand.o ligand-extras.o residue_by_phi_psi.o wiggly-ligand.o monomer-utils.o dunbrack.o chi-angles-autogen.o chi-angles.o helix-placement.o fast-ss-search.o rigid-body.o ideal-rna.o richardson-rotamers.o richardson-rotamer.o rotamer.o torsion-general.o rotamer-tables.o primitive-chi-angles.o dipole.o base-pairing.o backrub-rotamer.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-ligand.a
libtool: link: ( cd ".libs" && rm -f "libcoot-ligand.la" && ln -s "../libcoot-ligand.la" "libcoot-ligand.la" )
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DPKGDATADIR='"/usr/share/coot"'  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o findligand-real find-ligand.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../coot-utils/libcoot-shelx.la ../mini-mol/libcoot-mini-mol.la ../compat/libcoot-compat.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   -L/usr/lib64 -lgsl -lgslcblas -lm 
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libtool: link: x86_64-pc-linux-gnu-g++ -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/findligand-real find-ligand.o  -Wl,--as-needed ./.libs/libcoot-ligand.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ideal/.libs/libcoot-ideal.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/db-main/.libs/libcoot-db-main.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ccp4mg-utils/.libs/libccp4mg-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coords/.libs/libcoot-coords.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-map-utils.so ../ideal/.libs/libcoot-ideal.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-extras.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs/libcoot-lidia-core.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-shelx.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so ../utils/.libs/libcoot-utils.so ../coot-utils/.libs/libcoot-shelx.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../compat/.libs/libcoot-compat.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lmmdb /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm
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make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ligand'
Making all in high-res
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/high-res'
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../geometry -I../coords -I../ccp4mg-utils -I../mini-mol -I../ligand -I../utils -I../coot-utils -I../lidia-core -I../compat -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -DHAVE_GSL -I/usr/include -march=native -O2 -MT sequence-assignment.lo -MD -MP -MF .deps/sequence-assignment.Tpo -c sequence-assignment.cc -o sequence-assignment.o >/dev/null 2>&1
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libtool: link: (cd ".libs" && rm -f "libcoot-high-res.so.0" && ln -s "libcoot-high-res.so.0.0.0" "libcoot-high-res.so.0")
libtool: link: (cd ".libs" && rm -f "libcoot-high-res.so" && ln -s "libcoot-high-res.so.0.0.0" "libcoot-high-res.so")
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libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcoot-high-res.a
libtool: link: ( cd ".libs" && rm -f "libcoot-high-res.la" && ln -s "../libcoot-high-res.la" "libcoot-high-res.la" )
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/high-res'
Making all in build
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../angles -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT CalphaBuild.lo -MD -MP -MF .deps/CalphaBuild.Tpo -c CalphaBuild.cc -o CalphaBuild.o >/dev/null 2>&1
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Making all in greg-tests
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mv -f .deps/bfactan.Tpo .deps/bfactan.Po
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../coot-utils -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT bfkurt.lo -MD -MP -MF .deps/bfkurt.Tpo -c bfkurt.cc -o bfkurt.o >/dev/null 2>&1
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/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcoot-analysis.la -rpath /usr/lib64 bfkurt.lo ../coot-utils/libcoot-coord-utils.la -lmmdb    
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libtool: link: (cd ".libs" && rm -f "libcoot-analysis.so.0" && ln -s "libcoot-analysis.so.0.0.0" "libcoot-analysis.so.0")
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make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/analysis'
Making all in tw
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -DPKGDATADIR=\"/usr/share/coot\" -march=native -O2 -MT tw.lo -MD -MP -MF .deps/tw.Tpo -c tw.cc -o tw.o >/dev/null 2>&1
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Making all in cootaneer
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libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT buccaneer-sequence.lo -MD -MP -MF .deps/buccaneer-sequence.Tpo -c buccaneer-sequence.cpp  -fPIC -DPIC -o .libs/buccaneer-sequence.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT buccaneer-lib.lo -MD -MP -MF .deps/buccaneer-lib.Tpo -c buccaneer-lib.cpp  -fPIC -DPIC -o .libs/buccaneer-lib.o
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT buccaneer-lib.lo -MD -MP -MF .deps/buccaneer-lib.Tpo -c buccaneer-lib.cpp -o buccaneer-lib.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT cootaneer-sequence.lo -MD -MP -MF .deps/cootaneer-sequence.Tpo -c cootaneer-sequence.cpp -o cootaneer-sequence.o >/dev/null 2>&1
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT buccaneer-prot.lo -MD -MP -MF .deps/buccaneer-prot.Tpo -c buccaneer-prot.cpp -o buccaneer-prot.o >/dev/null 2>&1
mv -f .deps/buccaneer-lib.Tpo .deps/buccaneer-lib.Plo
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP     -march=native -O2 -MT cootaneer-demo.o -MD -MP -MF .deps/cootaneer-demo.Tpo -c -o cootaneer-demo.o cootaneer-demo.cpp
libtool: compile:  x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I/usr/include -I/usr/include -I/usr/include/mmdb -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -march=native -O2 -MT buccaneer-sequence.lo -MD -MP -MF .deps/buccaneer-sequence.Tpo -c buccaneer-sequence.cpp -o buccaneer-sequence.o >/dev/null 2>&1
mv -f .deps/cootaneer-sequence.Tpo .deps/cootaneer-sequence.Plo
mv -f .deps/cootaneer-demo.Tpo .deps/cootaneer-demo.Po
mv -f .deps/buccaneer-sequence.Tpo .deps/buccaneer-sequence.Plo
mv -f .deps/buccaneer-prot.Tpo .deps/buccaneer-prot.Plo
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o libcootaneer.la -rpath /usr/lib64 buccaneer-lib.lo buccaneer-prot.lo buccaneer-sequence.lo cootaneer-sequence.lo -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw 
libtool: link: x86_64-pc-linux-gnu-g++  -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crti.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtbeginS.o  .libs/buccaneer-lib.o .libs/buccaneer-prot.o .libs/buccaneer-sequence.o .libs/cootaneer-sequence.o   -Wl,--as-needed -L/usr/lib64 /usr/lib64/libclipper-minimol.so -L/usr/lib /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c -lmmdb /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../x86_64-pc-linux-gnu/lib -L/usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/crtendS.o /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/../../../../lib64/crtn.o  -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu   -Wl,-soname -Wl,libcootaneer.so.0 -o .libs/libcootaneer.so.0.0.0
libtool: link: (cd ".libs" && rm -f "libcootaneer.so.0" && ln -s "libcootaneer.so.0.0.0" "libcootaneer.so.0")
libtool: link: (cd ".libs" && rm -f "libcootaneer.so" && ln -s "libcootaneer.so.0.0.0" "libcootaneer.so")
libtool: link: x86_64-pc-linux-gnu-ar cru .libs/libcootaneer.a  buccaneer-lib.o buccaneer-prot.o buccaneer-sequence.o cootaneer-sequence.o
libtool: link: x86_64-pc-linux-gnu-ranlib .libs/libcootaneer.a
libtool: link: ( cd ".libs" && rm -f "libcootaneer.la" && ln -s "../libcootaneer.la" "libcootaneer.la" )
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++  -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o cootaneer-demo cootaneer-demo.o ./libcootaneer.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb    
libtool: link: x86_64-pc-linux-gnu-g++ -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/cootaneer-demo cootaneer-demo.o  -Wl,--as-needed ./.libs/libcootaneer.so -L/usr/lib64 -L/usr/lib /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lm -lmmdb
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/cootaneer'
Making all in src
make[1]: Entering directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/src'
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o main.cc
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT svn-revision.o -MD -MP -MF .deps/svn-revision.Tpo -c -o svn-revision.o svn-revision.cc
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT c-inner-main.o -MD -MP -MF .deps/c-inner-main.Tpo -c -o c-inner-main.o c-inner-main.c
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-build.o -MD -MP -MF .deps/c-interface-build.Tpo -c -o c-interface-build.o c-interface-build.cc
mv -f .deps/svn-revision.Tpo .deps/svn-revision.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-build-gui.o -MD -MP -MF .deps/c-interface-build-gui.Tpo -c -o c-interface-build-gui.o c-interface-build-gui.cc
mv -f .deps/c-inner-main.Tpo .deps/c-inner-main.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-database.o -MD -MP -MF .deps/c-interface-database.Tpo -c -o c-interface-database.o c-interface-database.cc
mv -f .deps/c-interface-database.Tpo .deps/c-interface-database.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-pisa.o -MD -MP -MF .deps/c-interface-pisa.Tpo -c -o c-interface-pisa.o c-interface-pisa.cc
mv -f .deps/c-interface-pisa.Tpo .deps/c-interface-pisa.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-pisa-gui.o -MD -MP -MF .deps/c-interface-pisa-gui.Tpo -c -o c-interface-pisa-gui.o c-interface-pisa-gui.cc
mv -f .deps/c-interface-build-gui.Tpo .deps/c-interface-build-gui.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface.o -MD -MP -MF .deps/c-interface.Tpo -c -o c-interface.o c-interface.cc
mv -f .deps/main.Tpo .deps/main.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-gui.o -MD -MP -MF .deps/c-interface-gui.Tpo -c -o c-interface-gui.o c-interface-gui.cc
mv -f .deps/c-interface-pisa-gui.Tpo .deps/c-interface-pisa-gui.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-gtk2.o -MD -MP -MF .deps/c-interface-gtk2.Tpo -c -o c-interface-gtk2.o c-interface-gtk2.cc
mv -f .deps/c-interface-gtk2.Tpo .deps/c-interface-gtk2.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-info.o -MD -MP -MF .deps/c-interface-info.Tpo -c -o c-interface-info.o c-interface-info.cc
mv -f .deps/c-interface-build.Tpo .deps/c-interface-build.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-kk.o -MD -MP -MF .deps/c-interface-kk.Tpo -c -o c-interface-kk.o c-interface-kk.cc
mv -f .deps/c-interface-gui.Tpo .deps/c-interface-gui.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-ligands.o -MD -MP -MF .deps/c-interface-ligands.Tpo -c -o c-interface-ligands.o c-interface-ligands.cc
mv -f .deps/c-interface-kk.Tpo .deps/c-interface-kk.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-ligands-gui.o -MD -MP -MF .deps/c-interface-ligands-gui.Tpo -c -o c-interface-ligands-gui.o c-interface-ligands-gui.cc
mv -f .deps/c-interface.Tpo .deps/c-interface.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-mmdb.o -MD -MP -MF .deps/c-interface-mmdb.Tpo -c -o c-interface-mmdb.o c-interface-mmdb.cc
mv -f .deps/c-interface-mmdb.Tpo .deps/c-interface-mmdb.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-mutate.o -MD -MP -MF .deps/c-interface-mutate.Tpo -c -o c-interface-mutate.o c-interface-mutate.cc
mv -f .deps/c-interface-ligands.Tpo .deps/c-interface-ligands.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-ncs.o -MD -MP -MF .deps/c-interface-ncs.Tpo -c -o c-interface-ncs.o c-interface-ncs.cc
mv -f .deps/c-interface-ligands-gui.Tpo .deps/c-interface-ligands-gui.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-network.o -MD -MP -MF .deps/c-interface-network.Tpo -c -o c-interface-network.o c-interface-network.cc
mv -f .deps/c-interface-mutate.Tpo .deps/c-interface-mutate.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-nucleotides.o -MD -MP -MF .deps/c-interface-nucleotides.Tpo -c -o c-interface-nucleotides.o c-interface-nucleotides.cc
mv -f .deps/c-interface-info.Tpo .deps/c-interface-info.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-python.o -MD -MP -MF .deps/c-interface-python.Tpo -c -o c-interface-python.o c-interface-python.cc
mv -f .deps/c-interface-network.Tpo .deps/c-interface-network.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-preferences.o -MD -MP -MF .deps/c-interface-preferences.Tpo -c -o c-interface-preferences.o c-interface-preferences.cc
mv -f .deps/c-interface-ncs.Tpo .deps/c-interface-ncs.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-refine.o -MD -MP -MF .deps/c-interface-refine.Tpo -c -o c-interface-refine.o c-interface-refine.cc
mv -f .deps/c-interface-nucleotides.Tpo .deps/c-interface-nucleotides.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-scm.o -MD -MP -MF .deps/c-interface-scm.Tpo -c -o c-interface-scm.o c-interface-scm.cc
mv -f .deps/c-interface-python.Tpo .deps/c-interface-python.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-superpose.o -MD -MP -MF .deps/c-interface-superpose.Tpo -c -o c-interface-superpose.o c-interface-superpose.cc
mv -f .deps/c-interface-scm.Tpo .deps/c-interface-scm.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-validate.o -MD -MP -MF .deps/c-interface-validate.Tpo -c -o c-interface-validate.o c-interface-validate.cc
mv -f .deps/c-interface-preferences.Tpo .deps/c-interface-preferences.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-widgets.o -MD -MP -MF .deps/c-interface-widgets.Tpo -c -o c-interface-widgets.o c-interface-widgets.cc
mv -f .deps/c-interface-superpose.Tpo .deps/c-interface-superpose.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-waters.o -MD -MP -MF .deps/c-interface-waters.Tpo -c -o c-interface-waters.o c-interface-waters.cc
mv -f .deps/c-interface-refine.Tpo .deps/c-interface-refine.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT c-interface-waters-gui.o -MD -MP -MF .deps/c-interface-waters-gui.Tpo -c -o c-interface-waters-gui.o c-interface-waters-gui.cc
mv -f .deps/c-interface-widgets.Tpo .deps/c-interface-widgets.Po
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT callbacks.o -MD -MP -MF .deps/callbacks.Tpo -c -o callbacks.o callbacks.c
mv -f .deps/c-interface-waters.Tpo .deps/c-interface-waters.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT cmtz-interface.o -MD -MP -MF .deps/cmtz-interface.Tpo -c -o cmtz-interface.o cmtz-interface.cc
mv -f .deps/c-interface-waters-gui.Tpo .deps/c-interface-waters-gui.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT command-line.o -MD -MP -MF .deps/command-line.Tpo -c -o command-line.o command-line.cc
mv -f .deps/c-interface-validate.Tpo .deps/c-interface-validate.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT coot-align.o -MD -MP -MF .deps/coot-align.Tpo -c -o coot-align.o coot-align.cc
mv -f .deps/callbacks.Tpo .deps/callbacks.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT coot-nomenclature.o -MD -MP -MF .deps/coot-nomenclature.Tpo -c -o coot-nomenclature.o coot-nomenclature.cc
mv -f .deps/coot-align.Tpo .deps/coot-align.Po
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT coot-glue.o -MD -MP -MF .deps/coot-glue.Tpo -c -o coot-glue.o coot-glue.c
mv -f .deps/coot-glue.Tpo .deps/coot-glue.Po
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT coot-glue-gtk2.o -MD -MP -MF .deps/coot-glue-gtk2.Tpo -c -o coot-glue-gtk2.o coot-glue-gtk2.c
mv -f .deps/coot-glue-gtk2.Tpo .deps/coot-glue-gtk2.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT coot-glue-gtk2-python.o -MD -MP -MF .deps/coot-glue-gtk2-python.Tpo -c -o coot-glue-gtk2-python.o coot-glue-gtk2-python.cc
mv -f .deps/coot-glue-gtk2-python.Tpo .deps/coot-glue-gtk2-python.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT coot_pythonmodule.o -MD -MP -MF .deps/coot_pythonmodule.Tpo -c -o coot_pythonmodule.o coot_pythonmodule.cc
mv -f .deps/command-line.Tpo .deps/command-line.Po
swig -o coot_wrap_guile_pre_gtk1.cc -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_LIBCURL -I../src -guile -c++ ../src/coot.i
mv -f .deps/coot-nomenclature.Tpo .deps/coot-nomenclature.Po
swig -o coot_wrap_guile_pre_gtk2.cc -DCOOT_USE_GTK2_INTERFACE -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE  -DUSE_LIBCURL -I../src -guile -c++ ../src/coot.i
mv -f .deps/cmtz-interface.Tpo .deps/cmtz-interface.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT geometry-graphs.o -MD -MP -MF .deps/geometry-graphs.Tpo -c -o geometry-graphs.o geometry-graphs.cc
mv -f .deps/coot_pythonmodule.Tpo .deps/coot_pythonmodule.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT get-residue.o -MD -MP -MF .deps/get-residue.Tpo -c -o get-residue.o get-residue.cc
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT flev.o -MD -MP -MF .deps/flev.Tpo -c -o flev.o flev.cc
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT globjects.o -MD -MP -MF .deps/globjects.Tpo -c -o globjects.o globjects.cc
mv -f .deps/get-residue.Tpo .deps/get-residue.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info.o -MD -MP -MF .deps/graphics-info.Tpo -c -o graphics-info.o graphics-info.cc
mv -f .deps/geometry-graphs.Tpo .deps/geometry-graphs.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-defines.o -MD -MP -MF .deps/graphics-info-defines.Tpo -c -o graphics-info-defines.o graphics-info-defines.cc
mv -f .deps/globjects.Tpo .deps/globjects.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-refmac.o -MD -MP -MF .deps/graphics-info-refmac.Tpo -c -o graphics-info-refmac.o graphics-info-refmac.cc
mv -f .deps/flev.Tpo .deps/flev.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-graphs.o -MD -MP -MF .deps/graphics-info-graphs.Tpo -c -o graphics-info-graphs.o graphics-info-graphs.cc
mv -f .deps/graphics-info-defines.Tpo .deps/graphics-info-defines.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-gui.o -MD -MP -MF .deps/graphics-info-gui.Tpo -c -o graphics-info-gui.o graphics-info-gui.cc
mv -f .deps/graphics-info-refmac.Tpo .deps/graphics-info-refmac.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-modelling.o -MD -MP -MF .deps/graphics-info-modelling.Tpo -c -o graphics-info-modelling.o graphics-info-modelling.cc
mv -f .deps/graphics-info-graphs.Tpo .deps/graphics-info-graphs.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-navigation.o -MD -MP -MF .deps/graphics-info-navigation.Tpo -c -o graphics-info-navigation.o graphics-info-navigation.cc
mv -f .deps/graphics-info-gui.Tpo .deps/graphics-info-gui.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-navigation-gtk1.o -MD -MP -MF .deps/graphics-info-navigation-gtk1.Tpo -c -o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk1.cc
mv -f .deps/graphics-info.Tpo .deps/graphics-info.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-navigation-gtk2.o -MD -MP -MF .deps/graphics-info-navigation-gtk2.Tpo -c -o graphics-info-navigation-gtk2.o graphics-info-navigation-gtk2.cc
mv -f .deps/graphics-info-navigation-gtk1.Tpo .deps/graphics-info-navigation-gtk1.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-preferences.o -MD -MP -MF .deps/graphics-info-preferences.Tpo -c -o graphics-info-preferences.o graphics-info-preferences.cc
mv -f .deps/graphics-info-navigation.Tpo .deps/graphics-info-navigation.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-network.o -MD -MP -MF .deps/graphics-info-network.Tpo -c -o graphics-info-network.o graphics-info-network.cc
mv -f .deps/graphics-info-modelling.Tpo .deps/graphics-info-modelling.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-mutate.o -MD -MP -MF .deps/graphics-info-mutate.Tpo -c -o graphics-info-mutate.o graphics-info-mutate.cc
mv -f .deps/graphics-info-navigation-gtk2.Tpo .deps/graphics-info-navigation-gtk2.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-lsq.o -MD -MP -MF .deps/graphics-info-lsq.Tpo -c -o graphics-info-lsq.o graphics-info-lsq.cc
mv -f .deps/graphics-info-preferences.Tpo .deps/graphics-info-preferences.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-pick.o -MD -MP -MF .deps/graphics-info-pick.Tpo -c -o graphics-info-pick.o graphics-info-pick.cc
mv -f .deps/graphics-info-network.Tpo .deps/graphics-info-network.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-render.o -MD -MP -MF .deps/graphics-info-render.Tpo -c -o graphics-info-render.o graphics-info-render.cc
mv -f .deps/graphics-info-lsq.Tpo .deps/graphics-info-lsq.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-state.o -MD -MP -MF .deps/graphics-info-state.Tpo -c -o graphics-info-state.o graphics-info-state.cc
mv -f .deps/graphics-info-mutate.Tpo .deps/graphics-info-mutate.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT graphics-info-superpose.o -MD -MP -MF .deps/graphics-info-superpose.Tpo -c -o graphics-info-superpose.o graphics-info-superpose.cc
mv -f .deps/graphics-info-pick.Tpo .deps/graphics-info-pick.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT gl-matrix.o -MD -MP -MF .deps/gl-matrix.Tpo -c -o gl-matrix.o gl-matrix.cc
mv -f .deps/gl-matrix.Tpo .deps/gl-matrix.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT gtk-manual.o -MD -MP -MF .deps/gtk-manual.Tpo -c -o gtk-manual.o gtk-manual.cc
mv -f .deps/graphics-info-superpose.Tpo .deps/graphics-info-superpose.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT gtk-widget-conversion-utils.o -MD -MP -MF .deps/gtk-widget-conversion-utils.Tpo -c -o gtk-widget-conversion-utils.o gtk-widget-conversion-utils.cc
mv -f .deps/graphics-info-render.Tpo .deps/graphics-info-render.Po
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT gtk2-interface.o -MD -MP -MF .deps/gtk2-interface.Tpo -c -o gtk2-interface.o gtk2-interface.c
mv -f .deps/gtk-widget-conversion-utils.Tpo .deps/gtk-widget-conversion-utils.Po
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT interface.o -MD -MP -MF .deps/interface.Tpo -c -o interface.o interface.c
mv -f .deps/gtk-manual.Tpo .deps/gtk-manual.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT lbg-graph.o -MD -MP -MF .deps/lbg-graph.Tpo -c -o lbg-graph.o lbg-graph.cc
mv -f .deps/interface.Tpo .deps/interface.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT molecule-class-info.o -MD -MP -MF .deps/molecule-class-info.Tpo -c -o molecule-class-info.o molecule-class-info.cc
mv -f .deps/graphics-info-state.Tpo .deps/graphics-info-state.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT molecule-class-info-maps.o -MD -MP -MF .deps/molecule-class-info-maps.Tpo -c -o molecule-class-info-maps.o molecule-class-info-maps.cc
mv -f .deps/lbg-graph.Tpo .deps/lbg-graph.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT molecule-class-info-other.o -MD -MP -MF .deps/molecule-class-info-other.Tpo -c -o molecule-class-info-other.o molecule-class-info-other.cc
mv -f .deps/molecule-class-info-maps.Tpo .deps/molecule-class-info-maps.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT molecule-class-info-mutate.o -MD -MP -MF .deps/molecule-class-info-mutate.Tpo -c -o molecule-class-info-mutate.o molecule-class-info-mutate.cc
mv -f .deps/molecule-class-info.Tpo .deps/molecule-class-info.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT molecule-class-info-residues.o -MD -MP -MF .deps/molecule-class-info-residues.Tpo -c -o molecule-class-info-residues.o molecule-class-info-residues.cc
mv -f .deps/gtk2-interface.Tpo .deps/gtk2-interface.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT molecule-class-info-refine.o -MD -MP -MF .deps/molecule-class-info-refine.Tpo -c -o molecule-class-info-refine.o molecule-class-info-refine.cc
mv -f .deps/molecule-class-info-other.Tpo .deps/molecule-class-info-other.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT molecule-class-info-kk.o -MD -MP -MF .deps/molecule-class-info-kk.Tpo -c -o molecule-class-info-kk.o molecule-class-info-kk.cc
mv -f .deps/molecule-class-info-residues.Tpo .deps/molecule-class-info-residues.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT molecule-class-info-surface.o -MD -MP -MF .deps/molecule-class-info-surface.Tpo -c -o molecule-class-info-surface.o molecule-class-info-surface.cc
mv -f .deps/molecule-class-info-refine.Tpo .deps/molecule-class-info-refine.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT molecule-class-info-ncs.o -MD -MP -MF .deps/molecule-class-info-ncs.Tpo -c -o molecule-class-info-ncs.o molecule-class-info-ncs.cc
mv -f .deps/molecule-class-info-mutate.Tpo .deps/molecule-class-info-mutate.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT molecule-class-info-widget-work.o -MD -MP -MF .deps/molecule-class-info-widget-work.Tpo -c -o molecule-class-info-widget-work.o molecule-class-info-widget-work.cc
mv -f .deps/molecule-class-info-kk.Tpo .deps/molecule-class-info-kk.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT nsv.o -MD -MP -MF .deps/nsv.Tpo -c -o nsv.o nsv.cc
mv -f .deps/molecule-class-info-surface.Tpo .deps/molecule-class-info-surface.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT pick.o -MD -MP -MF .deps/pick.Tpo -c -o pick.o pick.cc
mv -f .deps/molecule-class-info-widget-work.Tpo .deps/molecule-class-info-widget-work.Po
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT read-phs.o -MD -MP -MF .deps/read-phs.Tpo -c -o read-phs.o read-phs.c
mv -f .deps/read-phs.Tpo .deps/read-phs.Po
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT read-cif.o -MD -MP -MF .deps/read-cif.Tpo -c -o read-cif.o read-cif.c
mv -f .deps/read-cif.Tpo .deps/read-cif.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT rama_mousey.o -MD -MP -MF .deps/rama_mousey.Tpo -c -o rama_mousey.o rama_mousey.cc
mv -f .deps/nsv.Tpo .deps/nsv.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT rama_plot.o -MD -MP -MF .deps/rama_plot.Tpo -c -o rama_plot.o rama_plot.cc
mv -f .deps/rama_mousey.Tpo .deps/rama_mousey.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT restraints-editor.o -MD -MP -MF .deps/restraints-editor.Tpo -c -o restraints-editor.o restraints-editor.cc
mv -f .deps/pick.Tpo .deps/pick.Po
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT support.o -MD -MP -MF .deps/support.Tpo -c -o support.o support.c
mv -f .deps/support.Tpo .deps/support.Po
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT support-gtk2-extras.o -MD -MP -MF .deps/support-gtk2-extras.Tpo -c -o support-gtk2-extras.o support-gtk2-extras.c
mv -f .deps/support-gtk2-extras.Tpo .deps/support-gtk2-extras.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT testing.o -MD -MP -MF .deps/testing.Tpo -c -o testing.o testing.cc
mv -f .deps/rama_plot.Tpo .deps/rama_plot.Po
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT trackball.o -MD -MP -MF .deps/trackball.Tpo -c -o trackball.o trackball.c
mv -f .deps/trackball.Tpo .deps/trackball.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT sequence-view.o -MD -MP -MF .deps/sequence-view.Tpo -c -o sequence-view.o sequence-view.cc
mv -f .deps/molecule-class-info-ncs.Tpo .deps/molecule-class-info-ncs.Po
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -march=native -O2 -MT seq-view-interface.o -MD -MP -MF .deps/seq-view-interface.Tpo -c -o seq-view-interface.o seq-view-interface.c
mv -f .deps/seq-view-interface.Tpo .deps/seq-view-interface.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT user-mods.o -MD -MP -MF .deps/user-mods.Tpo -c -o user-mods.o user-mods.cc
mv -f .deps/restraints-editor.Tpo .deps/restraints-editor.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT xmap-utils.o -MD -MP -MF .deps/xmap-utils.Tpo -c -o xmap-utils.o xmap-utils.cc
mv -f .deps/xmap-utils.Tpo .deps/xmap-utils.Po
swig -o coot_wrap_python_pre_gtk2.cc -DCOOT_USE_GTK2_INTERFACE -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DUSE_LIBCURL -I../src -shadow -python -c++ ../src/coot.i && mv coot.py coot_gtk2.py
mv -f .deps/sequence-view.Tpo .deps/sequence-view.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT density-score-by-residue-src.o -MD -MP -MF .deps/density-score-by-residue-src.Tpo -c -o density-score-by-residue-src.o density-score-by-residue-src.cc
mv -f .deps/user-mods.Tpo .deps/user-mods.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT fix-nomenclature.o -MD -MP -MF .deps/fix-nomenclature.Tpo -c -o fix-nomenclature.o fix-nomenclature.cc
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT align.o -MD -MP -MF .deps/align.Tpo -c -o align.o align.cc
mv -f .deps/fix-nomenclature.Tpo .deps/fix-nomenclature.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT test-chol.o -MD -MP -MF .deps/test-chol.Tpo -c -o test-chol.o test-chol.cc
mv -f .deps/density-score-by-residue-src.Tpo .deps/density-score-by-residue-src.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT test-lbg-graph.o -MD -MP -MF .deps/test-lbg-graph.Tpo -c -o test-lbg-graph.o test-lbg-graph.cc
mv -f .deps/test-chol.Tpo .deps/test-chol.Po
cp coot_gtk2.py coot.py
/bin/sh ../src/post-process-coot-wrap-guile.sh "/usr/bin/guile-config" gtk1 coot_wrap_guile_pre_gtk1.cc coot_wrap_guile_gtk1.cc
guile_config: /usr/bin/guile-config
guile_version: guile-config - Guile version 1.8.8
gtk2: gtk1
sed -e s/SCM_STRING_CHARS/scm_to_locale_string/ -e s/SCM_STRINGP/scm_is_string/ -e s/SCM_STRING_LENGTH/scm_c_string_length/ -e s/static char .gswig_const_COOT_SCHEME_DIR/static const char *gswig_const_COOT_SCHEME_DIR/ -e /.libguile.h./{x;s/.*/#include <cstdio>/;G;} coot_wrap_guile_pre_gtk1.cc ..to.. coot_wrap_guile_pre_gtk1.cc.tmp
adding gtk2 and guile ifdefs from coot_wrap_guile_pre_gtk1.cc.tmp coot_wrap_guile_gtk1.cc
/bin/sh ../src/post-process-coot-wrap-guile.sh "/usr/bin/guile-config" gtk2 coot_wrap_guile_pre_gtk2.cc coot_wrap_guile_gtk2.cc
guile_config: /usr/bin/guile-config
guile_version: guile-config - Guile version 1.8.8
gtk2: gtk2
sed -e s/SCM_STRING_CHARS/scm_to_locale_string/ -e s/SCM_STRINGP/scm_is_string/ -e s/SCM_STRING_LENGTH/scm_c_string_length/ -e s/static char .gswig_const_COOT_SCHEME_DIR/static const char *gswig_const_COOT_SCHEME_DIR/ -e /.libguile.h./{x;s/.*/#include <cstdio>/;G;} coot_wrap_guile_pre_gtk2.cc ..to.. coot_wrap_guile_pre_gtk2.cc.tmp
adding gtk2 and guile ifdefs from coot_wrap_guile_pre_gtk2.cc.tmp coot_wrap_guile_gtk2.cc
/bin/sh ../src/post-process-coot-wrap-python.sh  gtk2 coot_wrap_python_pre_gtk2.cc coot_wrap_python_gtk2.cc
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o density-score-by-residue-real density-score-by-residue-src.o ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-shelx.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   -L/usr/lib64 -lgsl -lgslcblas -lm 
mv -f .deps/test-lbg-graph.Tpo .deps/test-lbg-graph.Po
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o fix-nomenclature-errors fix-nomenclature.o coot-nomenclature.o ../ligand/libcoot-ligand.la ../db-main/libcoot-db-main.la ../ideal/libcoot-ideal.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-shelx.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -L/usr/lib64 -lgsl -lgslcblas -lm -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb  		 
mv -f .deps/align.Tpo .deps/align.Po
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o test-cholesky test-chol.o gl-matrix.o ../coords/libcoot-coords.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-shelx.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   -L/usr/lib64 -lgsl -lgslcblas -lm 
libtool: link: x86_64-pc-linux-gnu-g++ -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-GenuineIntel---python-gtk2\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/density-score-by-residue-real density-score-by-residue-src.o  -Wl,--as-needed ../geometry/.libs/libcoot-geometry.so -L/usr/lib64 -L/usr/lib ../coords/.libs/libcoot-coords.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs/libcoot-lidia-core.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-shelx.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-shelx.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lmmdb /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm -pthread
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o test-lbg-graph test-lbg-graph.o lbg-graph.o -lmmdb   
libtool: link: x86_64-pc-linux-gnu-g++ -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-GenuineIntel---python-gtk2\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o test-lbg-graph test-lbg-graph.o lbg-graph.o  -Wl,--as-needed -lmmdb -pthread
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT coot_wrap_guile_gtk1.o -MD -MP -MF .deps/coot_wrap_guile_gtk1.Tpo -c -o coot_wrap_guile_gtk1.o coot_wrap_guile_gtk1.cc
libtool: link: x86_64-pc-linux-gnu-g++ -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-GenuineIntel---python-gtk2\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/test-cholesky test-chol.o gl-matrix.o  -Wl,--as-needed ../coords/.libs/libcoot-coords.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs/libcoot-lidia-core.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-shelx.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-shelx.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so ../geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lmmdb /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lm -pthread
libtool: link: x86_64-pc-linux-gnu-g++ -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-GenuineIntel---python-gtk2\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/fix-nomenclature-errors fix-nomenclature.o coot-nomenclature.o  -Wl,--as-needed ../ligand/.libs/libcoot-ligand.so -L/usr/lib64 -L/usr/lib /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ideal/.libs/libcoot-ideal.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/db-main/.libs/libcoot-db-main.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ccp4mg-utils/.libs/libccp4mg-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coords/.libs/libcoot-coords.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-map-utils.so ../db-main/.libs/libcoot-db-main.so ../ideal/.libs/libcoot-ideal.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-extras.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs/libcoot-lidia-core.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-shelx.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng ../coot-utils/.libs/libcoot-coord-extras.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-shelx.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lm -lmmdb -pthread
mv -f .deps/coot_wrap_guile_gtk1.Tpo .deps/coot_wrap_guile_gtk1.Po
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT coot_wrap_guile_gtk2.o -MD -MP -MF .deps/coot_wrap_guile_gtk2.Tpo -c -o coot_wrap_guile_gtk2.o coot_wrap_guile_gtk2.cc
x86_64-pc-linux-gnu-g++ -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.6.2\" -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/\" -I. -I../compat -I../coords -I../ccp4mg-utils -I../utils -I../coot-utils -I../intl -I../skeleton -I../angles -I../db-main -I../mini-mol -I../ligand -I../geometry -I../ideal -I../coot-surface -I../surface -I../density-contour -I../build -I../high-res -I../analysis -I../cootaneer -I../lidia-core -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK  -pthread  -DHAVE_GNOME_CANVAS -pthread -DQT_SHARED -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -DCOOT_USE_GTK2_INTERFACE  -pthread -DQT_SHARED -I/usr/include/gtkglext-1.0 -I/usr/lib64/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore -I/usr/include/atk-1.0   -I/usr/include/libglade-2.0 -pthread -DQT_SHARED -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore   -I/usr/include/mmdb   -DHAVE_MMDB_IGNORE_HASH -DHAVE_MMDB_WITH_CISPEP -I/usr/include -I/usr/include -I/usr/include -pthread -DQT_SHARED -I/usr/include/pygtk-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng14 -I/usr/include/qt4 -I/usr/include/qt4/QtGui -I/usr/include/libdrm -I/usr/include/qt4/QtCore                       -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2 -MT coot_wrap_python_gtk2.o -MD -MP -MF .deps/coot_wrap_python_gtk2.Tpo -c -o coot_wrap_python_gtk2.o coot_wrap_python_gtk2.cc
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o test-coot-align align.o coot-align.o ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-shelx.la ../utils/libcoot-utils.la -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lmmdb   
libtool: link: x86_64-pc-linux-gnu-g++ -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-GenuineIntel---python-gtk2\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/test-coot-align align.o coot-align.o  -Wl,--as-needed ../geometry/.libs/libcoot-geometry.so -L/usr/lib64 -L/usr/lib ../coords/.libs/libcoot-coords.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs/libcoot-lidia-core.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-shelx.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-shelx.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so -lm -lmmdb -pthread
mv -f .deps/testing.Tpo .deps/testing.Po
mv -f .deps/coot_wrap_guile_gtk2.Tpo .deps/coot_wrap_guile_gtk2.Po
mv -f .deps/coot_wrap_python_gtk2.Tpo .deps/coot_wrap_python_gtk2.Po
/bin/sh ../libtool --tag=CXX   --mode=link x86_64-pc-linux-gnu-g++ -DPKGDATADIR='"/usr/share/coot"' -DPACKAGE_LOCALE_DIR='"/usr/share/coot/locale"' -DDATADIR='"/usr/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-GenuineIntel---python-gtk2"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK  -DHAVE_GSL -fopenmp -march=native -O2  -Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu -o coot-real main.o svn-revision.o c-inner-main.o c-interface-build.o c-interface-build-gui.o c-interface-database.o c-interface-pisa.o c-interface-pisa-gui.o c-interface.o c-interface-gui.o c-interface-gtk2.o c-interface-info.o c-interface-kk.o c-interface-ligands.o c-interface-ligands-gui.o c-interface-mmdb.o c-interface-mutate.o c-interface-ncs.o c-interface-network.o c-interface-nucleotides.o c-interface-python.o c-interface-preferences.o c-interface-refine.o c-interface-scm.o c-interface-superpose.o c-interface-validate.o c-interface-widgets.o c-interface-waters.o c-interface-waters-gui.o callbacks.o cmtz-interface.o command-line.o coot-align.o coot-nomenclature.o coot-glue.o coot-glue-gtk2.o coot-glue-gtk2-python.o coot_pythonmodule.o coot_wrap_guile_gtk1.o coot_wrap_guile_gtk2.o geometry-graphs.o get-residue.o flev.o globjects.o graphics-info.o graphics-info-defines.o graphics-info-refmac.o graphics-info-graphs.o graphics-info-gui.o graphics-info-modelling.o graphics-info-navigation.o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk2.o graphics-info-preferences.o graphics-info-network.o graphics-info-mutate.o graphics-info-lsq.o graphics-info-pick.o graphics-info-render.o graphics-info-state.o graphics-info-superpose.o gl-matrix.o gtk-manual.o gtk-widget-conversion-utils.o gtk2-interface.o interface.o lbg-graph.o molecule-class-info.o molecule-class-info-maps.o molecule-class-info-other.o molecule-class-info-mutate.o molecule-class-info-residues.o molecule-class-info-refine.o molecule-class-info-kk.o molecule-class-info-surface.o molecule-class-info-ncs.o molecule-class-info-widget-work.o nsv.o pick.o read-phs.o read-cif.o rama_mousey.o rama_plot.o restraints-editor.o support.o support-gtk2-extras.o testing.o trackball.o sequence-view.o seq-view-interface.o user-mods.o xmap-utils.o coot_wrap_python_gtk2.o  -fopenmp ../ligand/libcoot-ligand.la ../lidia-core/libcoot-lidia-core.la ../density-contour/libcoot-isosurface.la ../build/libcoot-cabuild.la ../skeleton/libcoot-skeleton.la ../angles/libcoot-AngleInfo.la ../db-main/libcoot-db-main.la ../high-res/libcoot-high-res.la ../ideal/libcoot-ideal.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-surface/libcoot-surface.la ../surface/libccp4mg-surface.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-shelx.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../cootaneer/libcootaneer.la ../compat/libcoot-compat.la  		 -lguilegtk-2.0 -pthread -L/usr/lib64 -lguile -lltdl -lgmp -lcrypt -lm -lltdl -L/usr/lib64 -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-cif -lclipper-contrib -lclipper-ccp4 -lclipper-phs -lclipper-core -lccp4c -L/usr/lib -lmmdb -lsrfftw -lsfftw -lssm -lmmdb   -lmmdb   -L/usr/lib64/python2.7/config -lpython2.7 -lutil  -Wl,--export-dynamic -pthread -lgtkglext-x11-1.0 -lgdkglext-x11-1.0 -lGLU -lGL -lXmu -lXt -lSM -lICE -lgtk-x11-2.0 -lpangox-1.0 -lX11 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lm -lcairo -lpng14 -lpango-1.0 -lfreetype -lfontconfig -lgobject-2.0 -lgmodule-2.0 -lgthread-2.0 -lrt -lglib-2.0   -lglut  -lXmu -pthread -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lm -lcairo -lpng14 -lpango-1.0 -lfreetype -lfontconfig -lgobject-2.0 -lgmodule-2.0 -lgthread-2.0 -lrt -lglib-2.0    -pthread -lgnomecanvas-2 -lart_lgpl_2 -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lm -lcairo -lpng14 -lpango-1.0 -lfreetype -lfontconfig -lgobject-2.0 -lgmodule-2.0 -lgthread-2.0 -lrt -lglib-2.0   -L/usr/lib64 -lgsl -lgslcblas -lm  -lcurl -lssl -lcrypto -lrt -lssl -lcrypto -ldl -lz -lz -lglade-2.0 -pthread -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lm -lcairo -lpng14 -lpango-1.0 -lfreetype -lfontconfig -lgobject-2.0 -lgmodule-2.0 -lgthread-2.0 -lrt -lglib-2.0  	 
libtool: link: x86_64-pc-linux-gnu-g++ -DPKGDATADIR=\"/usr/share/coot\" -DPACKAGE_LOCALE_DIR=\"/usr/share/coot/locale\" -DDATADIR=\"/usr/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-GenuineIntel---python-gtk2\" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -pthread -DUSE_PYTHON -I/usr/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -march=native -O2 -Wl,-O1 -Wl,--hash-style=gnu -o .libs/coot-real main.o svn-revision.o c-inner-main.o c-interface-build.o c-interface-build-gui.o c-interface-database.o c-interface-pisa.o c-interface-pisa-gui.o c-interface.o c-interface-gui.o c-interface-gtk2.o c-interface-info.o c-interface-kk.o c-interface-ligands.o c-interface-ligands-gui.o c-interface-mmdb.o c-interface-mutate.o c-interface-ncs.o c-interface-network.o c-interface-nucleotides.o c-interface-python.o c-interface-preferences.o c-interface-refine.o c-interface-scm.o c-interface-superpose.o c-interface-validate.o c-interface-widgets.o c-interface-waters.o c-interface-waters-gui.o callbacks.o cmtz-interface.o command-line.o coot-align.o coot-nomenclature.o coot-glue.o coot-glue-gtk2.o coot-glue-gtk2-python.o coot_pythonmodule.o coot_wrap_guile_gtk1.o coot_wrap_guile_gtk2.o geometry-graphs.o get-residue.o flev.o globjects.o graphics-info.o graphics-info-defines.o graphics-info-refmac.o graphics-info-graphs.o graphics-info-gui.o graphics-info-modelling.o graphics-info-navigation.o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk2.o graphics-info-preferences.o graphics-info-network.o graphics-info-mutate.o graphics-info-lsq.o graphics-info-pick.o graphics-info-render.o graphics-info-state.o graphics-info-superpose.o gl-matrix.o gtk-manual.o gtk-widget-conversion-utils.o gtk2-interface.o interface.o lbg-graph.o molecule-class-info.o molecule-class-info-maps.o molecule-class-info-other.o molecule-class-info-mutate.o molecule-class-info-residues.o molecule-class-info-refine.o molecule-class-info-kk.o molecule-class-info-surface.o molecule-class-info-ncs.o molecule-class-info-widget-work.o nsv.o pick.o read-phs.o read-cif.o rama_mousey.o rama_plot.o restraints-editor.o support.o support-gtk2-extras.o testing.o trackball.o sequence-view.o seq-view-interface.o user-mods.o xmap-utils.o coot_wrap_python_gtk2.o -fopenmp -pthread -Wl,--export-dynamic -pthread -pthread -pthread -pthread  -Wl,--as-needed ../ligand/.libs/libcoot-ligand.so -L/usr/lib64 -L/usr/lib ../lidia-core/.libs/libcoot-lidia-core.so ../density-contour/.libs/libcoot-isosurface.so ../build/.libs/libcoot-cabuild.so ../skeleton/.libs/libcoot-skeleton.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/angles/.libs/libcoot-AngleInfo.so ../angles/.libs/libcoot-AngleInfo.so ../db-main/.libs/libcoot-db-main.so ../high-res/.libs/libcoot-high-res.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ligand/.libs/libcoot-ligand.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ideal/.libs/libcoot-ideal.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/db-main/.libs/libcoot-db-main.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/ccp4mg-utils/.libs/libccp4mg-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coords/.libs/libcoot-coords.so ../ideal/.libs/libcoot-ideal.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-extras.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/lidia-core/.libs/libcoot-lidia-core.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-shelx.so ../coot-surface/.libs/libcoot-surface.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/surface/.libs/libccp4mg-surface.so ../surface/.libs/libccp4mg-surface.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng ../coot-utils/.libs/libcoot-map-heavy.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-shelx.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/coot-utils/.libs/libcoot-coord-utils.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/geometry/.libs/libcoot-geometry.so /tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/utils/.libs/libcoot-utils.so ../cootaneer/.libs/libcootaneer.so ../compat/.libs/libcoot-compat.so /usr/lib64/libguilegtk-2.0.so /usr/lib64/libguile.so /usr/lib64/libgmp.so -lcrypt /usr/lib64/libltdl.so /usr/lib64/libclipper-minimol.so /usr/lib64/libclipper-mmdb.so /usr/lib64/libclipper-cns.so /usr/lib64/libclipper-cif.so /usr/lib64/libclipper-contrib.so /usr/lib64/libclipper-ccp4.so /usr/lib64/libclipper-phs.so /usr/lib64/libclipper-core.so -lpthread -lccp4c /usr/lib64/libsrfftw.so /usr/lib64/libsfftw.so /usr/lib64/libssm.so -lmmdb -L/usr/lib64/python2.7/config -lpython2.7 -lutil /usr/lib64/libgtkglext-x11-1.0.so /usr/lib64/libgdkglext-x11-1.0.so -lGLU -lGL -lXt -lSM -lICE -lpangox-1.0 -lX11 -lglut -lXmu -lgnomecanvas-2 /usr/lib64/libart_lgpl_2.so /usr/lib64/libgsl.so /usr/lib64/libgslcblas.so -lcurl -lssl -lcrypto -ldl -lglade-2.0 /usr/lib64/libgtk-x11-2.0.so /usr/lib64/libgdk-x11-2.0.so /usr/lib64/libatk-1.0.so -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lm -lcairo -lpng14 -lpango-1.0 /usr/lib64/libfontconfig.so -lfreetype -lz -lbz2 -lexpat -lgobject-2.0 -lgmodule-2.0 -lgthread-2.0 -lrt -lglib-2.0 -pthread
/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/surface/.libs/libccp4mg-surface.so: undefined reference to `GOMP_parallel_start'
/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/surface/.libs/libccp4mg-surface.so: undefined reference to `GOMP_critical_name_end'
/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/surface/.libs/libccp4mg-surface.so: undefined reference to `GOMP_loop_dynamic_start'
/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/surface/.libs/libccp4mg-surface.so: undefined reference to `GOMP_critical_name_start'
/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/surface/.libs/libccp4mg-surface.so: undefined reference to `GOMP_loop_end_nowait'
/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/surface/.libs/libccp4mg-surface.so: undefined reference to `GOMP_loop_dynamic_next'
/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/surface/.libs/libccp4mg-surface.so: undefined reference to `GOMP_parallel_end'
collect2: ld returned 1 exit status
make[1]: *** [coot-real] Error 1
make[1]: Leaving directory `/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2/src'
make: *** [all-recursive] Error 1
emake failed
 * ERROR: sci-chemistry/coot-0.6.2 failed (compile phase):
 *   emake failed
 * 
 * Call stack:
 *     ebuild.sh, line  56:  Called src_compile
 *   environment, line 5838:  Called die
 * The specific snippet of code:
 *       emake || die "emake failed";
 * 
 * If you need support, post the output of 'emerge --info =sci-chemistry/coot-0.6.2',
 * the complete build log and the output of 'emerge -pqv =sci-chemistry/coot-0.6.2'.
 * The complete build log is located at '/home/ago/log/build/sci-chemistry/coot-0.6.2:20111005-200008.log'.
 * The ebuild environment file is located at '/tmp/portage/sci-chemistry/coot-0.6.2/temp/environment'.
 * S: '/tmp/portage/sci-chemistry/coot-0.6.2/work/coot-0.6.2'