sci-chemistry:votca-csg-1.2.4-r1:20161124-203924.log

sci-chemistry:votca-csg-1.2.4-r1:20161124-203924.log (text/plain), 73.12 KB, created by Toralf Förster on 2016-11-24 20:45:59 UTC

 * Package:    sci-chemistry/votca-csg-1.2.4-r1
 * Repository: gentoo
 * Maintainer: [e-mail] [e-mail]
 * USE:        abi_x86_64 amd64 elibc_glibc gromacs kernel_linux userland_GNU
 * FEATURES:   preserve-libs sandbox userpriv usersandbox
>>> Unpacking source...
>>> Unpacking votca-csg-1.2.4.tar.gz to /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work
>>> Source unpacked in /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work
>>> Preparing source in /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 ...
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 ...
>>> Working in BUILD_DIR: "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build"
cmake --no-warn-unused-cli -C /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/gentoo_common_config.cmake -G Unix Makefiles -DCMAKE_INSTALL_PREFIX=/usr -DWITH_GMX=ON -DWITH_GMX_DEVEL=ON -DGMX_DOUBLE=OFF -DWITH_RC_FILES=OFF -DEXTERNAL_BOOST=ON -DLIB=lib64 -DCMAKE_BUILD_TYPE=Gentoo -DCMAKE_INSTALL_DO_STRIP=OFF -DCMAKE_USER_MAKE_RULES_OVERRIDE=/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/gentoo_rules.cmake -DCMAKE_TOOLCHAIN_FILE=/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/gentoo_toolchain.cmake  /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4
Not searching for unused variables given on the command line.
loading initial cache file /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/gentoo_common_config.cmake
-- The C compiler identification is GNU 4.9.4
-- The CXX compiler identification is GNU 4.9.4
-- Check for working C compiler: /usr/bin/x86_64-pc-linux-gnu-gcc
-- Check for working C compiler: /usr/bin/x86_64-pc-linux-gnu-gcc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /usr/bin/x86_64-pc-linux-gnu-g++
-- Check for working CXX compiler: /usr/bin/x86_64-pc-linux-gnu-g++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Looking for pthread_create
-- Looking for pthread_create - not found
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE  
-- Found TXT2TAGS: /usr/bin/txt2tags  
-- Boost version: 1.62.0
-- Found the following Boost libraries:
--   program_options
-- checking for module 'libvotca_tools'
--   found libvotca_tools, version 
-- Found VOTCA_TOOLS: /usr/lib64/libvotca_tools.so  
-- Looking for VotcaToolsFromC in /usr/lib64/libvotca_tools.so;
-- Looking for VotcaToolsFromC in /usr/lib64/libvotca_tools.so; - found
-- Found UnixCommands: /bin/bash  
-- Looking for assert.h
-- Looking for assert.h - found
-- Looking for C++ include algorithm
-- Looking for C++ include algorithm - found
-- Looking for C++ include fstream
-- Looking for C++ include fstream - found
-- Looking for C++ include iomanip
-- Looking for C++ include iomanip - found
-- Looking for C++ include iostream
-- Looking for C++ include iostream - found
-- Looking for C++ include list
-- Looking for C++ include list - found
-- Looking for C++ include map
-- Looking for C++ include map - found
-- Looking for C++ include numeric
-- Looking for C++ include numeric - found
-- Looking for C++ include sstream
-- Looking for C++ include sstream - found
-- Looking for C++ include stdexcept
-- Looking for C++ include stdexcept - found
-- Looking for C++ include string
-- Looking for C++ include string - found
-- Looking for C++ include vector
-- Looking for C++ include vector - found
-- Looking for C++ include cstdlib
-- Looking for C++ include cstdlib - found
-- Looking for sqrt in m
-- Looking for sqrt in m - found
CMake Warning at src/libcsg/CMakeLists.txt:18 (message):
   Using gromacs-5.0, this is very experimental, hope you know what you are doing


-- checking for module 'libgromacs'
--   found libgromacs, version 5.0.4
-- Looking for GromacsVersion in /usr/lib64/libgromacs.so
-- Looking for GromacsVersion in /usr/lib64/libgromacs.so - found
-- Looking for init_mtop in /usr/lib64/libgromacs.so
-- Looking for init_mtop in /usr/lib64/libgromacs.so - found
-- Looking for output_env_init in /usr/lib64/libgromacs.so
-- Looking for output_env_init in /usr/lib64/libgromacs.so - not found
-- Looking for init_domdec_vsites in /usr/lib64/libgromacs.so
-- Looking for init_domdec_vsites in /usr/lib64/libgromacs.so - found
-- Found GROMACS: /usr/lib64/libgromacs.so  
-- Found Doxygen: /usr/bin/doxygen  
-- <<< Gentoo configuration >>>
Build type      Gentoo
Install path    /usr
Compiler flags:
C                -march=native -O2 -pipe 
C++              -march=native -O2 -pipe 
Linker flags:
Executable       -Wl,-O1 -Wl,--as-needed
Module           -Wl,-O1 -Wl,--as-needed
Shared           -Wl,-O1 -Wl,--as-needed

-- Configuring done
-- Generating done
-- Build files have been written to: /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 ...
>>> Working in BUILD_DIR: "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build"
make -j1 VERBOSE=1 
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/usr/bin/cmake -E cmake_progress_start /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/CMakeFiles /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
make[1]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
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cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts && /usr/bin/txt2tags -q -t man -i multi_g_rdf.t2t -o multi_g_rdf.man
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make -f scripts/CMakeFiles/csg_inverse.dir/build.make scripts/CMakeFiles/csg_inverse.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts && /usr/bin/cmake -DINPUT="csg_inverse.out" -DOUTPUT="csg_inverse" -DTOP_SOURCE_DIR="/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4" -P /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/CMakeModules/hgscript.cmake
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[  4%] Built target csg_inverse
make -f scripts/CMakeFiles/csg_inverse_manpage.dir/build.make scripts/CMakeFiles/csg_inverse_manpage.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/scripts /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_inverse_manpage.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_inverse_manpage.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_inverse_manpage.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_inverse_manpage.dir/depend.internal".
Scanning dependencies of target csg_inverse_manpage
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f scripts/CMakeFiles/csg_inverse_manpage.dir/build.make scripts/CMakeFiles/csg_inverse_manpage.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[  5%] Generating csg_inverse.man
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts && CSGSHARE=/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/share /bin/bash /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/csg_inverse --help > csg_inverse.help
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts && /bin/bash /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/help2t2t csg_inverse.help > csg_inverse.t2t
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts && /usr/bin/txt2tags -q -t man -i csg_inverse.t2t -o csg_inverse.man
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[  7%] Built target csg_inverse_manpage
make -f scripts/CMakeFiles/csg_call.dir/build.make scripts/CMakeFiles/csg_call.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/scripts /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_call.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_call.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_call.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_call.dir/depend.internal".
Scanning dependencies of target csg_call
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f scripts/CMakeFiles/csg_call.dir/build.make scripts/CMakeFiles/csg_call.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts && /usr/bin/cmake -DINPUT="csg_call.out" -DOUTPUT="csg_call" -DTOP_SOURCE_DIR="/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4" -P /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/CMakeModules/hgscript.cmake
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[  7%] Built target csg_call
make -f scripts/CMakeFiles/csg_call_manpage.dir/build.make scripts/CMakeFiles/csg_call_manpage.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/scripts /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_call_manpage.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_call_manpage.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_call_manpage.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/CMakeFiles/csg_call_manpage.dir/depend.internal".
Scanning dependencies of target csg_call_manpage
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f scripts/CMakeFiles/csg_call_manpage.dir/build.make scripts/CMakeFiles/csg_call_manpage.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[  8%] Generating csg_call.man
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts && CSGSHARE=/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/share /bin/bash /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/csg_call --help > csg_call.help
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts && /bin/bash /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/help2t2t csg_call.help > csg_call.t2t
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts && /usr/bin/txt2tags -q -t man -i csg_call.t2t -o csg_call.man
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 10%] Built target csg_call_manpage
make -f src/libcsg/CMakeFiles/gmx_print_version.dir/build.make src/libcsg/CMakeFiles/gmx_print_version.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/gmx_print_version.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/gmx_print_version.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/gmx_print_version.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/gmx_print_version.dir/depend.internal".
Scanning dependencies of target gmx_print_version
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f src/libcsg/CMakeFiles/gmx_print_version.dir/build.make src/libcsg/CMakeFiles/gmx_print_version.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 12%] Building CXX object src/libcsg/CMakeFiles/gmx_print_version.dir/modules/io/gmx_print_version.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe    -o CMakeFiles/gmx_print_version.dir/modules/io/gmx_print_version.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/gmx_print_version.cc
[ 13%] Linking CXX executable gmx_print_version
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/cmake -E cmake_link_script CMakeFiles/gmx_print_version.dir/link.txt --verbose=1
/usr/bin/x86_64-pc-linux-gnu-g++    -march=native -O2 -pipe    -Wl,-O1 -Wl,--as-needed CMakeFiles/gmx_print_version.dir/modules/io/gmx_print_version.cc.o  -o gmx_print_version -rdynamic -lgromacs 
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 13%] Built target gmx_print_version
make -f src/libcsg/CMakeFiles/hgversion.dir/build.make src/libcsg/CMakeFiles/hgversion.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/hgversion.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/hgversion.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/hgversion.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/hgversion.dir/depend.internal".
Scanning dependencies of target hgversion
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f src/libcsg/CMakeFiles/hgversion.dir/build.make src/libcsg/CMakeFiles/hgversion.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/cmake -DTOP_SOURCE_DIR="/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4" -P /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/CMakeModules/hgversion.cmake
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 13%] Built target hgversion
make -f src/libcsg/CMakeFiles/votca_csg.dir/build.make src/libcsg/CMakeFiles/votca_csg.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 14%] Generating gmx_libs_version.h
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && ./gmx_print_version > gmx_libs_version.h
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/votca_csg.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/votca_csg.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/votca_csg.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg/CMakeFiles/votca_csg.dir/depend.internal".
Scanning dependencies of target votca_csg
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f src/libcsg/CMakeFiles/votca_csg.dir/build.make src/libcsg/CMakeFiles/votca_csg.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 15%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/cgmoleculedef.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/cgmoleculedef.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/cgmoleculedef.cc
[ 16%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/exclusionlist.cc.o
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cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/gmx_version_check.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/gmx_version_check.cc
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cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/gmxtrajectorywriter.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/gmxtrajectorywriter.cc
[ 41%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/modules/io/gmxtopologyreader.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/gmxtopologyreader.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/gmxtopologyreader.cc
[ 42%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/modules/io/gmxtrajectoryreader.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/gmxtrajectoryreader.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/gmxtrajectoryreader.cc
[ 43%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/modules/io/grotopologyreader.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/grotopologyreader.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/grotopologyreader.cc
[ 45%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/modules/io/growriter.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/growriter.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/growriter.cc
[ 46%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/modules/io/pdbtopologyreader.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/pdbtopologyreader.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/pdbtopologyreader.cc
[ 47%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/modules/io/esptrajectoryreader.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/esptrajectoryreader.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/esptrajectoryreader.cc
[ 48%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/modules/io/xmltopologyreader.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/xmltopologyreader.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/xmltopologyreader.cc
[ 49%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/modules/io/xyzwriter.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/xyzwriter.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/xyzwriter.cc
[ 50%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/modules/io/esptopologyreader.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/esptopologyreader.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/esptopologyreader.cc
[ 51%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/modules/io/pdbwriter.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/pdbwriter.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/pdbwriter.cc
[ 52%] Building CXX object src/libcsg/CMakeFiles/votca_csg.dir/modules/io/lammpsreader.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/x86_64-pc-linux-gnu-g++  -DBOOST_NO_TYPEID -DGMX_SOFTWARE_INVSQRT -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg   -DNDEBUG -march=native -O2 -pipe  -fPIC   -o CMakeFiles/votca_csg.dir/modules/io/lammpsreader.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/libcsg/modules/io/lammpsreader.cc
[ 53%] Linking CXX shared library libvotca_csg.so
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/cmake -E cmake_link_script CMakeFiles/votca_csg.dir/link.txt --verbose=1
/usr/bin/x86_64-pc-linux-gnu-g++  -fPIC  -march=native -O2 -pipe   -Wl,-O1 -Wl,--as-needed -shared -Wl,-soname,libvotca_csg.so.2 -o libvotca_csg.so.2 CMakeFiles/votca_csg.dir/cgmoleculedef.cc.o CMakeFiles/votca_csg.dir/exclusionlist.cc.o CMakeFiles/votca_csg.dir/openbox.cc.o CMakeFiles/votca_csg.dir/cgengine.cc.o CMakeFiles/votca_csg.dir/imcio.cc.o CMakeFiles/votca_csg.dir/topology.cc.o CMakeFiles/votca_csg.dir/boundarycondition.cc.o CMakeFiles/votca_csg.dir/csgapplication.cc.o CMakeFiles/votca_csg.dir/trajectoryreader.cc.o CMakeFiles/votca_csg.dir/version.cc.o CMakeFiles/votca_csg.dir/beadlist.cc.o CMakeFiles/votca_csg.dir/nblist.cc.o CMakeFiles/votca_csg.dir/topologymap.cc.o CMakeFiles/votca_csg.dir/molecule.cc.o CMakeFiles/votca_csg.dir/orthorhombicbox.cc.o CMakeFiles/votca_csg.dir/topologyreader.cc.o CMakeFiles/votca_csg.dir/nblistgrid.cc.o CMakeFiles/votca_csg.dir/trajectorywriter.cc.o CMakeFiles/votca_csg.dir/nematicorder.cc.o CMakeFiles/votca_csg.dir/map.cc.o CMakeFiles/votca_csg.dir/triclinicbox.cc.o CMakeFiles/votca_csg.dir/modules/io/gmx_version.cc.o CMakeFiles/votca_csg.dir/modules/io/gmx_version_check.cc.o CMakeFiles/votca_csg.dir/modules/io/gmxtrajectorywriter.cc.o CMakeFiles/votca_csg.dir/modules/io/gmxtopologyreader.cc.o CMakeFiles/votca_csg.dir/modules/io/gmxtrajectoryreader.cc.o CMakeFiles/votca_csg.dir/modules/io/grotopologyreader.cc.o CMakeFiles/votca_csg.dir/modules/io/growriter.cc.o CMakeFiles/votca_csg.dir/modules/io/pdbtopologyreader.cc.o CMakeFiles/votca_csg.dir/modules/io/esptrajectoryreader.cc.o CMakeFiles/votca_csg.dir/modules/io/xmltopologyreader.cc.o CMakeFiles/votca_csg.dir/modules/io/xyzwriter.cc.o CMakeFiles/votca_csg.dir/modules/io/esptopologyreader.cc.o CMakeFiles/votca_csg.dir/modules/io/pdbwriter.cc.o CMakeFiles/votca_csg.dir/modules/io/lammpsreader.cc.o -lvotca_tools -lgromacs -lboost_program_options-mt -lpthread 
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg && /usr/bin/cmake -E cmake_symlink_library libvotca_csg.so.2 libvotca_csg.so.2 libvotca_csg.so
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 53%] Built target votca_csg
make -f src/tools/CMakeFiles/csg_resample.dir/build.make src/tools/CMakeFiles/csg_resample.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_resample.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_resample.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_resample.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_resample.dir/depend.internal".
Scanning dependencies of target csg_resample
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f src/tools/CMakeFiles/csg_resample.dir/build.make src/tools/CMakeFiles/csg_resample.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 54%] Building CXX object src/tools/CMakeFiles/csg_resample.dir/csg_resample.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && /usr/bin/x86_64-pc-linux-gnu-g++   -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include   -DNDEBUG -march=native -O2 -pipe    -o CMakeFiles/csg_resample.dir/csg_resample.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/tools/csg_resample.cc
[ 56%] Linking CXX executable csg_resample
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/csg_resample.dir/link.txt --verbose=1
/usr/bin/x86_64-pc-linux-gnu-g++    -march=native -O2 -pipe    -Wl,-O1 -Wl,--as-needed CMakeFiles/csg_resample.dir/csg_resample.cc.o  -o csg_resample -rdynamic ../libcsg/libvotca_csg.so.2 -lvotca_tools -lgromacs -lboost_program_options-mt -lpthread -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg: 
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 56%] Built target csg_resample
make -f src/tools/CMakeFiles/csg_resample_manpage.dir/build.make src/tools/CMakeFiles/csg_resample_manpage.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_resample_manpage.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_resample_manpage.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_resample_manpage.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_resample_manpage.dir/depend.internal".
Scanning dependencies of target csg_resample_manpage
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f src/tools/CMakeFiles/csg_resample_manpage.dir/build.make src/tools/CMakeFiles/csg_resample_manpage.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 57%] Generating csg_resample.man
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && ./csg_resample --help > csg_resample.help
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && /bin/bash /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/help2t2t csg_resample.help > csg_resample.t2t
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && /usr/bin/txt2tags -q -t man -i csg_resample.t2t -o csg_resample.man
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 57%] Built target csg_resample_manpage
make -f src/tools/CMakeFiles/csg_dump.dir/build.make src/tools/CMakeFiles/csg_dump.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_dump.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_dump.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_dump.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_dump.dir/depend.internal".
Scanning dependencies of target csg_dump
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f src/tools/CMakeFiles/csg_dump.dir/build.make src/tools/CMakeFiles/csg_dump.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 58%] Building CXX object src/tools/CMakeFiles/csg_dump.dir/csg_dump.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && /usr/bin/x86_64-pc-linux-gnu-g++   -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include   -DNDEBUG -march=native -O2 -pipe    -o CMakeFiles/csg_dump.dir/csg_dump.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/tools/csg_dump.cc
[ 59%] Linking CXX executable csg_dump
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/csg_dump.dir/link.txt --verbose=1
/usr/bin/x86_64-pc-linux-gnu-g++    -march=native -O2 -pipe    -Wl,-O1 -Wl,--as-needed CMakeFiles/csg_dump.dir/csg_dump.cc.o  -o csg_dump -rdynamic ../libcsg/libvotca_csg.so.2 -lvotca_tools -lgromacs -lboost_program_options-mt -lpthread -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg: 
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 59%] Built target csg_dump
make -f src/tools/CMakeFiles/csg_dump_manpage.dir/build.make src/tools/CMakeFiles/csg_dump_manpage.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_dump_manpage.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_dump_manpage.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_dump_manpage.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_dump_manpage.dir/depend.internal".
Scanning dependencies of target csg_dump_manpage
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f src/tools/CMakeFiles/csg_dump_manpage.dir/build.make src/tools/CMakeFiles/csg_dump_manpage.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 60%] Generating csg_dump.man
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && ./csg_dump --help > csg_dump.help
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && /bin/bash /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/scripts/help2t2t csg_dump.help > csg_dump.t2t
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && /usr/bin/txt2tags -q -t man -i csg_dump.t2t -o csg_dump.man
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 60%] Built target csg_dump_manpage
make -f src/tools/CMakeFiles/csg_stat.dir/build.make src/tools/CMakeFiles/csg_stat.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_stat.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_stat.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_stat.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_stat.dir/depend.internal".
Scanning dependencies of target csg_stat
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f src/tools/CMakeFiles/csg_stat.dir/build.make src/tools/CMakeFiles/csg_stat.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 61%] Building CXX object src/tools/CMakeFiles/csg_stat.dir/csg_stat.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && /usr/bin/x86_64-pc-linux-gnu-g++   -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include   -DNDEBUG -march=native -O2 -pipe    -o CMakeFiles/csg_stat.dir/csg_stat.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/tools/csg_stat.cc
[ 62%] Building CXX object src/tools/CMakeFiles/csg_stat.dir/csg_stat_imc.cc.o
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && /usr/bin/x86_64-pc-linux-gnu-g++   -I/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/include   -DNDEBUG -march=native -O2 -pipe    -o CMakeFiles/csg_stat.dir/csg_stat_imc.cc.o -c /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/tools/csg_stat_imc.cc
[ 63%] Linking CXX executable csg_stat
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/csg_stat.dir/link.txt --verbose=1
/usr/bin/x86_64-pc-linux-gnu-g++    -march=native -O2 -pipe    -Wl,-O1 -Wl,--as-needed CMakeFiles/csg_stat.dir/csg_stat.cc.o CMakeFiles/csg_stat.dir/csg_stat_imc.cc.o  -o csg_stat -rdynamic ../libcsg/libvotca_csg.so.2 -lvotca_tools -lgromacs -lboost_program_options-mt -lpthread -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/libcsg: 
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 63%] Built target csg_stat
make -f src/tools/CMakeFiles/csg_stat_manpage.dir/build.make src/tools/CMakeFiles/csg_stat_manpage.dir/depend
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4 /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_stat_manpage.dir/DependInfo.cmake
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_stat_manpage.dir/DependInfo.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_stat_manpage.dir/depend.internal".
Dependee "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools/CMakeFiles/csg_stat_manpage.dir/depend.internal".
Scanning dependencies of target csg_stat_manpage
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
make -f src/tools/CMakeFiles/csg_stat_manpage.dir/build.make src/tools/CMakeFiles/csg_stat_manpage.dir/build
make[2]: Entering directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
[ 64%] Generating csg_stat.man
cd /var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build/src/tools && ./csg_stat --help > csg_stat.help
/bin/sh: line 1: 28174 Segmentation fault      ./csg_stat --help > csg_stat.help
src/tools/CMakeFiles/csg_stat_manpage.dir/build.make:60: recipe for target 'src/tools/csg_stat.man' failed
make[2]: *** [src/tools/csg_stat.man] Error 139
make[2]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
CMakeFiles/Makefile2:800: recipe for target 'src/tools/CMakeFiles/csg_stat_manpage.dir/all' failed
make[1]: *** [src/tools/CMakeFiles/csg_stat_manpage.dir/all] Error 2
make[1]: Leaving directory '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
Makefile:127: recipe for target 'all' failed
make: *** [all] Error 2
 * ERROR: sci-chemistry/votca-csg-1.2.4-r1::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-chemistry/votca-csg-1.2.4-r1::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-chemistry/votca-csg-1.2.4-r1::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-chemistry:votca-csg-1.2.4-r1:20161124-203924.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4_build'
 * S: '/var/tmp/portage/sci-chemistry/votca-csg-1.2.4-r1/work/votca-csg-1.2.4'