sci-libs:votca-tools-1.6_rc1:20200406-005907.log

sci-libs:votca-tools-1.6_rc1:20200406-005907.log (text/plain), 31.28 KB, created by Toralf Förster on 2020-04-06 07:14:32 UTC

 * Package:    sci-libs/votca-tools-1.6_rc1
 * Repository: gentoo
 * Maintainer: [e-mail] [e-mail]
 * USE:        abi_x86_64 amd64 elibc_musl kernel_linux userland_GNU
 * FEATURES:   network-sandbox preserve-libs sandbox userpriv usersandbox
>>> Unpacking source...
>>> Unpacking votca-tools-1.6_rc1.tar.gz to /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work
>>> Source unpacked in /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work
>>> Preparing source in /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1 ...
 * Applying 197.patch ...
 [ ok ]
 * Hardcoded definition(s) removed in CMakeLists.txt:
 *    set(CMAKE_BUILD_TYPE Release CACHE STRING "Choose the type of build, option
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1 ...
>>> Working in BUILD_DIR: "/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/votca-tools-1.6_rc1_build"
cmake -C /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/votca-tools-1.6_rc1_build/gentoo_common_config.cmake -G Ninja -DCMAKE_INSTALL_PREFIX=/usr -DWITH_RC_FILES=OFF -DCMAKE_BUILD_TYPE=Gentoo -DCMAKE_TOOLCHAIN_FILE=/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/votca-tools-1.6_rc1_build/gentoo_toolchain.cmake  /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1
loading initial cache file /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/votca-tools-1.6_rc1_build/gentoo_common_config.cmake
-- The C compiler identification is GNU 9.3.0
-- The CXX compiler identification is GNU 9.3.0
-- Check for working C compiler: /usr/bin/x86_64-gentoo-linux-musl-gcc
-- Check for working C compiler: /usr/bin/x86_64-gentoo-linux-musl-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-gentoo-linux-musl-g++
-- Check for working CXX compiler: /usr/bin/x86_64-gentoo-linux-musl-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
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE  
-- Found Boost: /usr/include (found suitable version "1.72.0", minimum required is "1.53.0") found components: program_options filesystem system 
-- Check size of int
-- Check size of int - done
-- Could NOT find MKL (missing: MKL_INCLUDE_DIR MKL_Core_LINK_LIBRARY) 
-- Found Eigen3: /usr/share/eigen3/cmake
-- Found PkgConfig: x86_64-gentoo-linux-musl-pkg-config (found version "0.29.2") 
-- Checking for module 'fftw3'
--   Found fftw3, version 3.3.8
-- Found FFTW3: /usr/lib/libfftw3.so  
-- Looking for fftw_plan_r2r_1d in /usr/lib/libfftw3.so;
-- Looking for fftw_plan_r2r_1d in /usr/lib/libfftw3.so; - found
-- Looking for assert.h
-- Looking for assert.h - found
-- Looking for math.h
-- Looking for math.h - found
-- Looking for stdio.h
-- Looking for stdio.h - found
-- Looking for stdlib.h
-- Looking for stdlib.h - found
-- Looking for string.h
-- Looking for string.h - found
-- Looking for C++ include cmath
-- Looking for C++ include cmath - found
-- Looking for C++ include fstream
-- Looking for C++ include fstream - found
-- Looking for C++ include functional
-- Looking for C++ include functional - found
-- Looking for C++ include iostream
-- Looking for C++ include iostream - found
-- Looking for C++ include limits
-- Looking for C++ include limits - 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 ostream
-- Looking for C++ include ostream - found
-- Looking for C++ include sstream
-- Looking for C++ include sstream - found
-- Looking for C++ include stack
-- Looking for C++ include stack - 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 sqrt in m
-- Looking for sqrt in m - found
-- Found EXPAT: /opt/tivoli/tsm/client/ba/bin/libexpat.so (found version "2.2.9") 
-- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) 
-- The following OPTIONAL packages have been found:

 * FFTW3
 * PkgConfig

-- The following REQUIRED packages have been found:

 * Threads
 * Boost (required version >= 1.53.0)
 * Eigen3 (required version >= 3.3.0)
 * EXPAT

-- The following OPTIONAL packages have not been found:

 * MKL
 * Doxygen

-- <<< Gentoo configuration >>>
Build type      Gentoo
Install path    /usr
Compiler flags:
C               -O2 -pipe -march=native
C++             -O2 -pipe -march=native
Linker flags:
Executable      -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0
Module          -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0
Shared          -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0

-- Configuring done
-- Generating done
-- Build files have been written to: /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/votca-tools-1.6_rc1_build
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1 ...
>>> Working in BUILD_DIR: "/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/votca-tools-1.6_rc1_build"
ninja -v -j1 -l0
[1/43] cd /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/votca-tools-1.6_rc1_build/src/libtools && /usr/bin/cmake -DTOP_SOURCE_DIR="/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1" -DGIT_EXECUTABLE="" -P /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/CMakeModules/gitversion.cmake
[2/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/akimaspline.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/akimaspline.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/akimaspline.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/akimaspline.cc
[3/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/application.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/application.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/application.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/application.cc
[4/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/calculator.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/calculator.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/calculator.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/calculator.cc
[5/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/colors.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/colors.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/colors.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/colors.cc
[6/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/correlate.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/correlate.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/correlate.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/correlate.cc
[7/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/crosscorrelate.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/crosscorrelate.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/crosscorrelate.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/crosscorrelate.cc
[8/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/cubicspline.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/cubicspline.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/cubicspline.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/cubicspline.cc
[9/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/datacollection.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/datacollection.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/datacollection.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/datacollection.cc
[10/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/edge.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/edge.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/edge.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/edge.cc
[11/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/edgecontainer.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/edgecontainer.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/edgecontainer.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/edgecontainer.cc
[12/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/elements.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/elements.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/elements.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/elements.cc
[13/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/filesystem.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/filesystem.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/filesystem.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/filesystem.cc
[14/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/globals.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/globals.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/globals.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/globals.cc
[15/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/graph.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/graph.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/graph.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/graph.cc
[16/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/graph_bf_visitor.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/graph_bf_visitor.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/graph_bf_visitor.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/graph_bf_visitor.cc
[17/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/graph_df_visitor.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/graph_df_visitor.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/graph_df_visitor.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/graph_df_visitor.cc
[18/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/graphalgorithm.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/graphalgorithm.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/graphalgorithm.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/graphalgorithm.cc
[19/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/graphdistvisitor.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/graphdistvisitor.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/graphdistvisitor.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/graphdistvisitor.cc
[20/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/graphnode.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/graphnode.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/graphnode.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/graphnode.cc
[21/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/graphvisitor.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/graphvisitor.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/graphvisitor.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/graphvisitor.cc
[22/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/histogram.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/histogram.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/histogram.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/histogram.cc
[23/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/histogramnew.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/histogramnew.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/histogramnew.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/histogramnew.cc
[24/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/linalg.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/linalg.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/linalg.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/linalg.cc
[25/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/linspline.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/linspline.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/linspline.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/linspline.cc
[26/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/mutex.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/mutex.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/mutex.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/mutex.cc
[27/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/parcer.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/parcer.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/parcer.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/parcer.cc
[28/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/property.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/property.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/property.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/property.cc
[29/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/propertyiomanipulator.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/propertyiomanipulator.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/propertyiomanipulator.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/propertyiomanipulator.cc
[30/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/rangeparser.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/rangeparser.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/rangeparser.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/rangeparser.cc
[31/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/reducededge.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/reducededge.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/reducededge.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/reducededge.cc
[32/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/reducedgraph.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/reducedgraph.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/reducedgraph.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/reducedgraph.cc
[33/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/spline.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/spline.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/spline.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/spline.cc
[34/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/table.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/table.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/table.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/table.cc
[35/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/thread.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/thread.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/thread.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/thread.cc
[36/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/tokenizer.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/tokenizer.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/tokenizer.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/tokenizer.cc
[37/43] /usr/bin/x86_64-gentoo-linux-musl-g++ -Dvotca_tools_EXPORTS -Isrc/libtools -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native -fPIC   -std=c++14 -MD -MT src/libtools/CMakeFiles/votca_tools.dir/version.cc.o -MF src/libtools/CMakeFiles/votca_tools.dir/version.cc.o.d -o src/libtools/CMakeFiles/votca_tools.dir/version.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/libtools/version.cc
[38/43] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -fPIC -O2 -pipe -march=native  -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -shared -Wl,-soname,libvotca_tools.so.6 -o src/libtools/libvotca_tools.so.6 src/libtools/CMakeFiles/votca_tools.dir/akimaspline.cc.o src/libtools/CMakeFiles/votca_tools.dir/application.cc.o src/libtools/CMakeFiles/votca_tools.dir/calculator.cc.o src/libtools/CMakeFiles/votca_tools.dir/colors.cc.o src/libtools/CMakeFiles/votca_tools.dir/correlate.cc.o src/libtools/CMakeFiles/votca_tools.dir/crosscorrelate.cc.o src/libtools/CMakeFiles/votca_tools.dir/cubicspline.cc.o src/libtools/CMakeFiles/votca_tools.dir/datacollection.cc.o src/libtools/CMakeFiles/votca_tools.dir/edge.cc.o src/libtools/CMakeFiles/votca_tools.dir/edgecontainer.cc.o src/libtools/CMakeFiles/votca_tools.dir/elements.cc.o src/libtools/CMakeFiles/votca_tools.dir/filesystem.cc.o src/libtools/CMakeFiles/votca_tools.dir/globals.cc.o src/libtools/CMakeFiles/votca_tools.dir/graph.cc.o src/libtools/CMakeFiles/votca_tools.dir/graph_bf_visitor.cc.o src/libtools/CMakeFiles/votca_tools.dir/graph_df_visitor.cc.o src/libtools/CMakeFiles/votca_tools.dir/graphalgorithm.cc.o src/libtools/CMakeFiles/votca_tools.dir/graphdistvisitor.cc.o src/libtools/CMakeFiles/votca_tools.dir/graphnode.cc.o src/libtools/CMakeFiles/votca_tools.dir/graphvisitor.cc.o src/libtools/CMakeFiles/votca_tools.dir/histogram.cc.o src/libtools/CMakeFiles/votca_tools.dir/histogramnew.cc.o src/libtools/CMakeFiles/votca_tools.dir/linalg.cc.o src/libtools/CMakeFiles/votca_tools.dir/linspline.cc.o src/libtools/CMakeFiles/votca_tools.dir/mutex.cc.o src/libtools/CMakeFiles/votca_tools.dir/parcer.cc.o src/libtools/CMakeFiles/votca_tools.dir/property.cc.o src/libtools/CMakeFiles/votca_tools.dir/propertyiomanipulator.cc.o src/libtools/CMakeFiles/votca_tools.dir/rangeparser.cc.o src/libtools/CMakeFiles/votca_tools.dir/reducededge.cc.o src/libtools/CMakeFiles/votca_tools.dir/reducedgraph.cc.o src/libtools/CMakeFiles/votca_tools.dir/spline.cc.o src/libtools/CMakeFiles/votca_tools.dir/table.cc.o src/libtools/CMakeFiles/votca_tools.dir/thread.cc.o src/libtools/CMakeFiles/votca_tools.dir/tokenizer.cc.o src/libtools/CMakeFiles/votca_tools.dir/version.cc.o  -Wl,-rpath,/opt/tivoli/tsm/client/ba/bin:  /usr/lib/libboost_program_options-mt.so  /usr/lib/libboost_filesystem-mt.so  /usr/lib/libboost_system-mt.so  /opt/tivoli/tsm/client/ba/bin/libexpat.so  -lm  /usr/lib/libfftw3.so && :
[39/43] /usr/bin/cmake -E cmake_symlink_library src/libtools/libvotca_tools.so.6 src/libtools/libvotca_tools.so.6 src/libtools/libvotca_tools.so && :
[40/43] /usr/bin/x86_64-gentoo-linux-musl-g++  -I/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/include -Iinclude -isystem /usr/include/eigen3  -DNDEBUG -O2 -pipe -march=native   -std=c++14 -MD -MT src/tools/CMakeFiles/votca_property.dir/votca_property.cc.o -MF src/tools/CMakeFiles/votca_property.dir/votca_property.cc.o.d -o src/tools/CMakeFiles/votca_property.dir/votca_property.cc.o -c /var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1/src/tools/votca_property.cc
[41/43] : && /usr/bin/x86_64-gentoo-linux-musl-g++  -O2 -pipe -march=native  -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 src/tools/CMakeFiles/votca_property.dir/votca_property.cc.o  -o src/tools/votca_property  -Wl,-rpath,/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/votca-tools-1.6_rc1_build/src/libtools:  src/libtools/libvotca_tools.so.6  /usr/lib/libboost_program_options-mt.so && :
[31mFAILED: [0msrc/tools/votca_property 
: && /usr/bin/x86_64-gentoo-linux-musl-g++  -O2 -pipe -march=native  -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 src/tools/CMakeFiles/votca_property.dir/votca_property.cc.o  -o src/tools/votca_property  -Wl,-rpath,/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/votca-tools-1.6_rc1_build/src/libtools:  src/libtools/libvotca_tools.so.6  /usr/lib/libboost_program_options-mt.so && :
/usr/lib/gcc/x86_64-gentoo-linux-musl/9.3.0/../../../../x86_64-gentoo-linux-musl/bin/ld: warning: libc.so.6, needed by /opt/tivoli/tsm/client/ba/bin/libexpat.so, not found (try using -rpath or -rpath-link)
/usr/lib/gcc/x86_64-gentoo-linux-musl/9.3.0/../../../../x86_64-gentoo-linux-musl/bin/ld: /opt/tivoli/tsm/client/ba/bin/libexpat.so: undefined reference to `__assert_fail@GLIBC_2.2.5'
/usr/lib/gcc/x86_64-gentoo-linux-musl/9.3.0/../../../../x86_64-gentoo-linux-musl/bin/ld: /opt/tivoli/tsm/client/ba/bin/libexpat.so: undefined reference to `memcpy@GLIBC_2.2.5'
/usr/lib/gcc/x86_64-gentoo-linux-musl/9.3.0/../../../../x86_64-gentoo-linux-musl/bin/ld: /opt/tivoli/tsm/client/ba/bin/libexpat.so: undefined reference to `malloc@GLIBC_2.2.5'
/usr/lib/gcc/x86_64-gentoo-linux-musl/9.3.0/../../../../x86_64-gentoo-linux-musl/bin/ld: /opt/tivoli/tsm/client/ba/bin/libexpat.so: undefined reference to `getpid@GLIBC_2.2.5'
/usr/lib/gcc/x86_64-gentoo-linux-musl/9.3.0/../../../../x86_64-gentoo-linux-musl/bin/ld: /opt/tivoli/tsm/client/ba/bin/libexpat.so: undefined reference to `free@GLIBC_2.2.5'
/usr/lib/gcc/x86_64-gentoo-linux-musl/9.3.0/../../../../x86_64-gentoo-linux-musl/bin/ld: /opt/tivoli/tsm/client/ba/bin/libexpat.so: undefined reference to `memmove@GLIBC_2.2.5'
/usr/lib/gcc/x86_64-gentoo-linux-musl/9.3.0/../../../../x86_64-gentoo-linux-musl/bin/ld: /opt/tivoli/tsm/client/ba/bin/libexpat.so: undefined reference to `realloc@GLIBC_2.2.5'
/usr/lib/gcc/x86_64-gentoo-linux-musl/9.3.0/../../../../x86_64-gentoo-linux-musl/bin/ld: /opt/tivoli/tsm/client/ba/bin/libexpat.so: undefined reference to `gettimeofday@GLIBC_2.2.5'
/usr/lib/gcc/x86_64-gentoo-linux-musl/9.3.0/../../../../x86_64-gentoo-linux-musl/bin/ld: /opt/tivoli/tsm/client/ba/bin/libexpat.so: undefined reference to `memset@GLIBC_2.2.5'
collect2: error: ld returned 1 exit status
ninja: build stopped: subcommand failed.
 * ERROR: sci-libs/votca-tools-1.6_rc1::gentoo failed (compile phase):
 *   ninja -v -j1 -l0 failed
 * 
 * Call stack:
 *     ebuild.sh, line  125:  Called src_compile
 *   environment, line 2059:  Called cmake-utils_src_compile
 *   environment, line  745:  Called cmake-utils_src_make
 *   environment, line  926:  Called _cmake_ninja_src_make
 *   environment, line  477:  Called eninja
 *   environment, line 1231:  Called die
 * The specific snippet of code:
 *       "$@" || die "${nonfatal_args[@]}" "${*} failed"
 * 
 * If you need support, post the output of `emerge --info '=sci-libs/votca-tools-1.6_rc1::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-libs/votca-tools-1.6_rc1::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-libs:votca-tools-1.6_rc1:20200406-005907.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/votca-tools-1.6_rc1_build'
 * S: '/var/tmp/portage/sci-libs/votca-tools-1.6_rc1/work/tools-1.6_rc1'