==> Synchronizing chroot copy [/home/leming/armv8/root] -> [leming]...done
==> Making package: avogadrolibs 1.100.0-3 (Wed Jul  2 22:35:28 2025)
==> Retrieving sources...
  -> Cloning avogadrolibs git repo...
Cloning into bare repository '/home/leming/work/avogadrolibs/avogadrolibs'...
==> WARNING: Skipping verification of source file PGP signatures.
==> Validating source files with sha256sums...
    avogadrolibs ... Skipped
==> Making package: avogadrolibs 1.100.0-3 (Wed Jul  2 22:35:47 2025)
==> Checking runtime dependencies...
==> Checking buildtime dependencies...
==> Installing missing dependencies...
[?25lresolving dependencies...
looking for conflicting packages...
warning: dependency cycle detected:
warning: mesa will be installed before its libglvnd dependency
warning: dependency cycle detected:
warning: harfbuzz will be installed before its freetype2 dependency

Packages (102) avahi-1:0.8+r194+g3f79789-3  boost-libs-1.88.0-3
               cppdap-1.58.0-2  default-cursors-3-1  double-conversion-3.3.1-1
               duktape-2.7.0-7  fontconfig-2:2.17.1-1  freetype2-2.13.3-3
               glu-9.0.3-2  graphite-1:1.3.14-4  harfbuzz-11.2.1-1
               hicolor-icon-theme-0.18-1  hwloc-2.12.1-1  jbigkit-2.1-8
               jsoncpp-1.9.6-3  libaec-1.1.4-2  libcups-2:2.4.12-2
               libdaemon-0.14-6  libdrm-2.4.125-1  libedit-20250104_3.1-1
               libevdev-1.13.4-1  libfabric-2.1.0-1  libglvnd-1.7.0-3
               libgudev-238-3  libice-1.1.2-1  libinput-1.28.1-1
               libjpeg-turbo-3.1.1-1  libnl-3.11.0-1  libpciaccess-0.18.1-2
               libpng-1.6.50-1  libproxy-0.5.10-1  libsm-1.2.6-1
               libtiff-4.7.0-1  libuv-1.51.0-1  libwacom-2.16.1-1
               libx11-1.8.12-1  libxau-1.0.12-1  libxcb-1.17.0-1
               libxdmcp-1.1.5-1.1  libxext-1.3.6-1  libxfixes-6.0.1-2
               libxi-1.8.2-1  libxkbcommon-1.10.0-1  libxkbcommon-x11-1.10.0-1
               libxmu-1.2.1-1  libxrender-0.9.12-1  libxshmfence-1.3.3-1
               libxt-1.3.1-1  libxxf86vm-1.1.6-1  llvm-libs-20.1.7-1
               lm_sensors-1:3.6.2-1  md4c-0.5.2-1  mesa-1:25.1.4-2
               msgpack-cxx-7.0.0-1  mtdev-1.1.7-1  numactl-2.0.19-1
               openpmix-5.0.8-1  perl-error-0.17030-1  perl-mailtools-2.22-1
               perl-timedate-2.33-7  prrte-3.0.11-1  pugixml-1.15-2
               qt5-base-5.15.17+kde+r123-1  qt5-translations-5.15.17-1
               rhash-1.4.4-1  shared-mime-info-2.4-2  spirv-tools-1:1.4.313.0-1
               tslib-1.23-1  wayland-1.23.1-2  xcb-proto-1.17.0-3
               xcb-util-0.4.1-2  xcb-util-image-0.4.1-3
               xcb-util-keysyms-0.4.1-5  xcb-util-renderutil-0.3.10-2
               xcb-util-wm-0.4.2-2  xdg-utils-1.2.1-1  xkeyboard-config-2.45-1
               xorg-xprop-1.2.8-1  xorg-xset-1.2.5-2  xorgproto-2024.1-2
               zlib-ng-2.2.4-1  boost-1.88.0-3  cmake-4.0.3-1  eigen-3.4.0-2
               fast_float-8.0.2-1  fmt-11.2.0-1  genxrdpattern-1.1-4
               git-2.50.0-1  glew-2.2.0-7  hdf5-1.14.6-5  libmsym-0.2.3-10
               mmtf-cpp-1.1.0-2  nlohmann-json-3.12.0-2  onetbb-2022.2.0-1
               openmpi-5.0.8-1  pybind11-2.13.6-2  qt5-svg-5.15.17+kde+r5-1
               qt5-tools-5.15.17+kde+r3-2  spglib-2.6.0-1  utf8cpp-4.0.6-1
               verdict-1.4.2-1  vtk-9.5.0-2

Total Download Size:     21.75 MiB
Total Installed Size:  1141.23 MiB

:: Proceed with installation? [Y/n] 
:: Retrieving packages...
 qt5-base-5.15.17+kde+r123-1-aarch64 downloading...
 qt5-tools-5.15.17+kde+r3-2-aarch64 downloading...
 qt5-translations-5.15.17-1-any downloading...
 genxrdpattern-1.1-4-aarch64 downloading...
 spglib-2.6.0-1-aarch64 downloading...
 msgpack-cxx-7.0.0-1-any downloading...
 pybind11-2.13.6-2-any downloading...
 libxi-1.8.2-1-aarch64 downloading...
 qt5-svg-5.15.17+kde+r5-1-aarch64 downloading...
 libmsym-0.2.3-10-aarch64 downloading...
 mmtf-cpp-1.1.0-2-any downloading...
 libxfixes-6.0.1-2-aarch64 downloading...
checking keyring...
checking package integrity...
loading package files...
checking for file conflicts...
checking available disk space...
:: Processing package changes...
installing boost-libs...
Optional dependencies for boost-libs
    openmpi: for mpi support [pending]
installing boost...
Optional dependencies for boost
    python: for python bindings [installed]
installing cppdap...
installing hicolor-icon-theme...
installing jsoncpp...
Optional dependencies for jsoncpp
    jsoncpp-doc: documentation
installing libuv...
installing rhash...
installing cmake...
Optional dependencies for cmake
    make: for unix Makefile generator [installed]
    ninja: for ninja generator
    qt6-base: cmake-gui
installing eigen...
installing fast_float...
installing fmt...
installing perl-error...
installing perl-timedate...
installing perl-mailtools...
installing zlib-ng...
installing git...
Optional dependencies for git
    git-zsh-completion: upstream zsh completion
    tk: gitk and git gui
    openssh: ssh transport and crypto
    man: show help with `git command --help`
    perl-libwww: git svn
    perl-term-readkey: git svn and interactive.singlekey setting
    perl-io-socket-ssl: git send-email TLS support
    perl-authen-sasl: git send-email TLS support
    perl-mediawiki-api: git mediawiki support
    perl-datetime-format-iso8601: git mediawiki support
    perl-lwp-protocol-https: git mediawiki https support
    perl-cgi: gitweb (web interface) support
    python: git svn & git p4 [installed]
    subversion: git svn
    org.freedesktop.secrets: keyring credential helper
    libsecret: libsecret credential helper [installed]
installing libaec...
installing hdf5...
installing genxrdpattern...
installing xcb-proto...
installing xorgproto...
installing libxdmcp...
installing libxau...
installing libxcb...
installing libx11...
installing libxext...
installing libpciaccess...
installing libdrm...
Optional dependencies for libdrm
    cairo: needed for modetest tool
installing libxshmfence...
installing libxxf86vm...
installing libedit...
installing llvm-libs...
installing lm_sensors...
Optional dependencies for lm_sensors
    rrdtool: for logging with sensord
    perl: for sensor detection and configuration convert [installed]
installing spirv-tools...
installing default-cursors...
Optional dependencies for default-cursors
    adwaita-cursors: default cursor theme
installing wayland...
installing mesa...
Optional dependencies for mesa
    opengl-man-pages: for the OpenGL API man pages
installing libglvnd...
installing glu...
installing glew...
Optional dependencies for glew
    libx11: for glxewinfo and visualinfo [installed]
installing libmsym...
Optional dependencies for libmsym
    python: Python bindings [installed]
installing msgpack-cxx...
installing mmtf-cpp...
installing nlohmann-json...
installing hwloc...
Optional dependencies for hwloc
    cairo: PDF, Postscript, and PNG export support
    libxml2: full XML import/export support [installed]
installing numactl...
installing libfabric...
installing libnl...
installing openpmix...
Optional dependencies for openpmix
    openpmix-docs: for documentation
installing prrte...
Optional dependencies for prrte
    openssh: for execution on remote hosts via plm_ssh_agent
    prrte-docs: for documentation
installing openmpi...
Optional dependencies for openmpi
    gcc-fortran: fortran support
    openssh: for execution on remote hosts via plm_ssh_agent
installing pybind11...
Optional dependencies for pybind11
    python-setuptools: for python bindings
installing libjpeg-turbo...
installing xcb-util-keysyms...
installing xcb-util-renderutil...
installing libpng...
installing graphite...
Optional dependencies for graphite
    graphite-docs: Documentation
installing harfbuzz...
Optional dependencies for harfbuzz
    harfbuzz-utils: utilities
installing freetype2...
installing fontconfig...
Creating fontconfig configuration...
Rebuilding fontconfig cache...
installing libice...
installing libsm...
installing libxt...
installing libxmu...
installing xorg-xset...
installing xorg-xprop...
installing xdg-utils...
Optional dependencies for xdg-utils
    kde-cli-tools: for KDE Plasma5 support in xdg-open
    exo: for Xfce support in xdg-open
    pcmanfm: for LXDE support in xdg-open
    perl-file-mimeinfo: for generic support in xdg-open
    perl-net-dbus: Perl extension to dbus used in xdg-screensaver
    perl-x11-protocol: Perl X11 protocol used in xdg-screensaver
installing shared-mime-info...
installing xcb-util-wm...
installing libxrender...
installing libxfixes...
installing libxi...
installing xcb-util...
installing xcb-util-image...
installing tslib...
installing mtdev...
installing libevdev...
installing libgudev...
installing libwacom...
Optional dependencies for libwacom
    python-libevdev: for libwacom-show-stylus
    python-pyudev: for libwacom-show-stylus
installing libinput...
Optional dependencies for libinput
    gtk4: libinput debug-gui
    python-pyudev: libinput measure
    python-libevdev: libinput measure
    python-yaml: used by various tools
installing xkeyboard-config...
installing libxkbcommon...
Optional dependencies for libxkbcommon
    libxkbcommon-x11: xkbcli interactive-x11 [pending]
    wayland: xkbcli interactive-wayland [installed]
installing libxkbcommon-x11...
installing duktape...
installing libproxy...
installing libdaemon...
installing avahi...
Optional dependencies for avahi
    gtk3: avahi-discover, avahi-discover-standalone, bshell, bssh, bvnc
    libevent: libevent bindings [installed]
    nss-mdns: NSS support for mDNS
    python-dbus: avahi-bookmarks, avahi-discover
    python-gobject: avahi-bookmarks, avahi-discover
    python-twisted: avahi-bookmarks
    qt5-base: qt5 bindings [pending]
installing libcups...
installing double-conversion...
installing md4c...
installing qt5-translations...
installing qt5-base...
Optional dependencies for qt5-base
    qt5-svg: to use SVG icon themes [pending]
    qt5-wayland: to run Qt applications in a Wayland session
    postgresql-libs: PostgreSQL driver
    mariadb-libs: MariaDB driver
    unixodbc: ODBC driver
    libfbclient: Firebird/iBase driver
    freetds: MS SQL driver
    gtk3: GTK platform plugin
    perl: for fixqt4headers and syncqt [installed]
installing qt5-svg...
installing qt5-tools...
Optional dependencies for qt5-tools
    clang: for qdoc
    qt5-declarative: for qdistancefieldgenerator
installing spglib...
Optional dependencies for spglib
    gcc-libs: Fortran interface [installed]
    python-numpy: Python interface
installing onetbb...
Optional dependencies for onetbb
    python: for Python module [installed]
installing utf8cpp...
installing verdict...
installing pugixml...
installing jbigkit...
installing libtiff...
Optional dependencies for libtiff
    freeglut: for using tiffgt
installing vtk...
Optional dependencies for vtk
    graphviz: drawing tools
    libglvnd: OpenGL rendering [installed]
    java-runtime=11: java bindings
    python: python bindings [installed]
    python-matplotlib: for Matplotlib rendering
    python-mpi4py: OpenMPI python support
    qt5-declarative: QML plugin
    tk: tcl bindings
    libx11: rendering [installed]
    libxcursor: rendering
    fontconfig: rendering fonts with fontconfig support [installed]
    freetype2: rendering fonts [installed]
    gl2ps: rendering to PostScript, PDF, and SVG
    openvr: rendering for virtual reality
    openxr: rendering for virtual and augmented reality
    openmpi: OpenMPI support [installed]
    alembic: IO module
    cgns: IO module
    ffmpeg: IO module
    gdal: IO module
    hdf5: IO module [installed]
    viskores: accelerators support
    imath: IO module
    libharu: IO module
    liblas: IO module
    libogg: IO module
    libtheora: IO module
    mariadb-libs: IO module
    netcdf: IO module
    opencascade: IO module
    openvdb: IO module
    pdal: IO module
    postgresql-libs: IO module
    proj: IO module
    sqlite: IO module [installed]
    unixodbc: IO module
    fast_float: for building downstream projects [installed]
    nlohmann-json: for building downstream projects [installed]
    openmp: OpenMP support for downstream projects built with Clang
:: Running post-transaction hooks...
( 1/10) Creating system user accounts...
Creating group 'avahi' with GID 971.
Creating user 'avahi' (Avahi mDNS/DNS-SD daemon) with UID 971 and GID 971.
Creating group 'git' with GID 970.
Creating user 'git' (git daemon user) with UID 970 and GID 970.
( 2/10) Reloading system manager configuration...
  Skipped: Current root is not booted.
( 3/10) Updating udev hardware database...
( 4/10) Reloading device manager configuration...
  Skipped: Device manager is not running.
( 5/10) Arming ConditionNeedsUpdate...
( 6/10) Updating the MIME type database...
( 7/10) Updating fontconfig configuration...
( 8/10) Reloading system bus configuration...
  Skipped: Current root is not booted.
( 9/10) Checking for old perl modules...
(10/10) Updating fontconfig cache...
[?25h==> Retrieving sources...
==> WARNING: Skipping all source file integrity checks.
==> Extracting sources...
  -> Creating working copy of avogadrolibs git repo...
Cloning into 'avogadrolibs'...
done.
Switched to a new branch 'makepkg'
==> Starting prepare()...
==> Starting build()...
-- The C compiler identification is GNU 14.2.1
-- The CXX compiler identification is GNU 14.2.1
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/lib/distcc/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/lib/distcc/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Setting build type to 'Debug' as none was specified.
-- Performing Test HAVE_GCC_ERROR_RETURN_TYPE
-- Performing Test HAVE_GCC_ERROR_RETURN_TYPE - Success
-- Found Git: /usr/bin/git (found version "2.50.0")
-- Determined Source Version : 1.100.0
-- Found nlohmann_json: /usr/share/cmake/nlohmann_json/nlohmann_jsonConfig.cmake (found suitable version "3.12.0", minimum required is "3.3.0")
-- Component omp of Spglib: NOT FOUND
-- Component fortran of Spglib: FOUND (LIB_TYPE: shared)
-- Found package: Spglib
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE
-- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY
-- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY - Success
-- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY
-- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success
-- Performing Test COMPILER_HAS_DEPRECATED_ATTR
-- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success
-- Found HDF5: hdf5-shared (found version "1.14.6") found components: C
-- Found MMTF: /usr/include
-- Found OpenGL: /usr/lib/libOpenGL.so
-- Found GLEW: /usr/include (found version "2.2.0")
CMake Warning (dev) at avogadro/qtgui/CMakeLists.txt:22 (find_package):
  Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules
  are removed.  Run "cmake --help-policy CMP0148" for policy details.  Use
  the cmake_policy command to set the policy and suppress this warning.

This warning is for project developers.  Use -Wno-dev to suppress it.

-- Found PythonInterp: /usr/bin/python3 (found suitable version "3.13.5", minimum required is "3")
-- Found MPI_C: /usr/lib/libmpi.so (found version "3.1")
-- Found MPI: TRUE (found version "3.1") found components: C
-- Found X11: /usr/include
-- Looking for XOpenDisplay in /usr/lib/libX11.so;/usr/lib/libXext.so
-- Looking for XOpenDisplay in /usr/lib/libX11.so;/usr/lib/libXext.so - found
-- Looking for gethostbyname
-- Looking for gethostbyname - found
-- Looking for connect
-- Looking for connect - found
-- Looking for remove
-- Looking for remove - found
-- Looking for shmat
-- Looking for shmat - found
-- Looking for IceConnectionNumber in ICE
-- Looking for IceConnectionNumber in ICE - found
-- Found EXPAT: /usr/lib/libexpat.so (found suitable version "2.7.1", minimum required is "2.5.0")
-- Found LZMA: /usr/lib/liblzma.so (found version "5.8.1")
-- Found LZ4: /usr/lib/liblz4.so (found version "1.10.0")
-- Found Eigen3: /usr/include/eigen3 (found version "3.4.0")
-- Found TIFF: /usr/lib/libtiff.so (found version "4.7.0")
-- Found ZLIB: /usr/lib/libz.so (found version "1.3.1")
-- Found PNG: /usr/lib/libpng.so (found version "1.6.50")
-- Found JPEG: /usr/lib/libjpeg.so (found version "80")
-- Found utf8cpp: /usr/include/utf8cpp
-- Could NOT find freetype (missing: freetype_DIR)
-- Found Freetype: /usr/lib/libfreetype.so (found version "2.13.3")
-- Found OpenMP_C: -fopenmp (found version "4.5")
-- Found OpenMP_CXX: -fopenmp (found version "4.5")
-- Found OpenMP: TRUE (found version "4.5")
-- Found double-conversion: /usr/lib/libdouble-conversion.so
-- Found nlohmann_json: /usr/share/cmake/nlohmann_json/nlohmann_jsonConfig.cmake (found version "3.12.0")
Avogadro Generators not found at /build/avogadrolibs/src/avogadrolibs/../avogadrogenerators!
-- Found LibArchive: /usr/lib/libarchive.so (found version "3.8.1")
CMake Deprecation Warning at python/CMakeLists.txt:1 (cmake_minimum_required):
  Compatibility with CMake < 3.10 will be removed from a future version of
  CMake.

  Update the VERSION argument <min> value.  Or, use the <min>...<max> syntax
  to tell CMake that the project requires at least <min> but has been updated
  to work with policies introduced by <max> or earlier.


-- Found Python: /usr/bin/python3.13 (found version "3.13.5") found components: Interpreter Development Development.Module Development.Embed
-- Performing Test HAS_FLTO
-- Performing Test HAS_FLTO - Success
-- Found pybind11: /usr/include (found version "2.13.6")
-- Configuring done (15.2s)
-- Generating done (1.3s)
-- Build files have been written to: /build/avogadrolibs/src/build
[  0%] Built target Headers
[  0%] Building C object thirdparty/CMakeFiles/struct.dir/struct/struct.c.o
[  0%] Building C object thirdparty/libgwavi/CMakeFiles/gwavi.dir/gwavi.c.o
[  0%] Building C object thirdparty/libgwavi/CMakeFiles/gwavi.dir/fileio.c.o
[  0%] Building CXX object utilities/encodefile/CMakeFiles/encodefile.dir/encodefile.cxx.o
[  0%] Building C object thirdparty/libgwavi/CMakeFiles/gwavi.dir/avi-utils.c.o
[  0%] Building C object thirdparty/CMakeFiles/struct.dir/struct/struct_endian.c.o
[  0%] Building CXX object utilities/bodr/CMakeFiles/bodrparse.dir/bodrparse.cxx.o
[  0%] Building CXX object utilities/resdata/CMakeFiles/resdataparse.dir/resdataparse.cxx.o
[  0%] Building CXX object avogadro/core/CMakeFiles/Core.dir/angleiterator.cpp.o
[  1%] Building CXX object avogadro/core/CMakeFiles/Core.dir/atomutilities.cpp.o
[  1%] Building CXX object avogadro/core/CMakeFiles/Core.dir/coordinateblockgenerator.cpp.o
[  2%] Linking C static library libgwavi.a
[  3%] Linking C static library libstruct.a
[  3%] Built target gwavi
[  3%] Linking CXX executable ../../bin/encodefile
[  3%] Building CXX object avogadro/core/CMakeFiles/Core.dir/crystaltools.cpp.o
[  3%] Built target struct
[  3%] Building CXX object avogadro/core/CMakeFiles/Core.dir/cube.cpp.o
[  3%] Built target encodefile
[  3%] Building CXX object avogadro/core/CMakeFiles/Core.dir/elements.cpp.o
[  3%] Linking CXX executable ../../bin/bodrparse
[  3%] Linking CXX executable ../../bin/resdataparse
[  3%] Built target bodrparse
[  3%] Building CXX object avogadro/core/CMakeFiles/Core.dir/dihedraliterator.cpp.o
[  3%] Built target resdataparse
[  3%] Building CXX object avogadro/core/CMakeFiles/Core.dir/gaussianset.cpp.o
[  4%] Building CXX object avogadro/core/CMakeFiles/Core.dir/gaussiansettools.cpp.o
[  4%] Building CXX object avogadro/core/CMakeFiles/Core.dir/graph.cpp.o
In file included from /usr/include/eigen3/Eigen/Core:257,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/atom.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp:8:
In member function 'void Eigen::internal::mul_assign_op<DstScalar, SrcScalar>::assignCoeff(DstScalar&, const SrcScalar&) const [with DstScalar = double; SrcScalar = double]',
    inlined from 'void Eigen::internal::generic_dense_assignment_kernel<DstEvaluatorTypeT, SrcEvaluatorTypeT, Functor, Version>::assignCoeff(Eigen::Index, Eigen::Index) [with DstEvaluatorTypeT = Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >; SrcEvaluatorTypeT = Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >; Functor = Eigen::internal::mul_assign_op<double, double>; int Version = 0]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:654:26,
    inlined from 'void Eigen::internal::generic_dense_assignment_kernel<DstEvaluatorTypeT, SrcEvaluatorTypeT, Functor, Version>::assignCoeffByOuterInner(Eigen::Index, Eigen::Index) [with DstEvaluatorTypeT = Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >; SrcEvaluatorTypeT = Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >; Functor = Eigen::internal::mul_assign_op<double, double>; int Version = 0]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:668:16,
    inlined from 'static void Eigen::internal::copy_using_evaluator_DefaultTraversal_CompleteUnrolling<Kernel, Index, Stop>::run(Kernel&) [with Kernel = Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >, Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >, Eigen::internal::mul_assign_op<double, double>, 0>; int Index = 2; int Stop = 3]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:211:35,
    inlined from 'static void Eigen::internal::dense_assignment_loop<Kernel, 3, 2>::run(Kernel&) [with Kernel = Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >, Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >, Eigen::internal::mul_assign_op<double, double>, 0>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:456:92,
    inlined from 'void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Matrix<double, 3, 1>; SrcXprType = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Functor = mul_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:785:37,
    inlined from 'static void Eigen::internal::Assignment<DstXprType, SrcXprType, Functor, Eigen::internal::Dense2Dense, Weak>::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Matrix<double, 3, 1>; SrcXprType = Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Functor = Eigen::internal::mul_assign_op<double, double>; Weak = void]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:954:31,
    inlined from 'void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix<double, 3, 1>; Src = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Func = mul_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:890:49,
    inlined from 'void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing<Src>::value), void*>::type) [with Dst = Eigen::Matrix<double, 3, 1>; Src = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Func = mul_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:858:27,
    inlined from 'Derived& Eigen::DenseBase<Derived>::operator*=(const Scalar&) [with Derived = Eigen::Matrix<double, 3, 1>]' at /usr/include/eigen3/Eigen/src/Core/SelfCwiseBinaryOp.h:20:28,
    inlined from 'std::string Avogadro::Core::CoordinateBlockGenerator::generateCoordinateBlock()' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp:108:18:
/usr/include/eigen3/Eigen/src/Core/functors/AssignmentFunctors.h:92:71: warning: 'pos3d.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[2]' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp: In member function 'std::string Avogadro::Core::CoordinateBlockGenerator::generateCoordinateBlock()':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp:65:11: note: 'pos3d.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[2]' was declared here
In file included from /usr/include/c++/14.2.1/istream:41,
                 from /usr/include/c++/14.2.1/sstream:40,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.h:11,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp:6:
In member function 'std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(double) [with _CharT = char; _Traits = std::char_traits<char>]',
    inlined from 'std::string Avogadro::Core::CoordinateBlockGenerator::generateCoordinateBlock()' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp:168:76:
/usr/include/c++/14.2.1/ostream:232:25: warning: '*(Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 1>::Scalar*)((char*)&fpos3d + offsetof(Eigen::Vector3, Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::MatrixBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 3>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 1>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 0>::<unnamed>))' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp: In member function 'std::string Avogadro::Core::CoordinateBlockGenerator::generateCoordinateBlock()':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp:66:11: note: '*(Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 1>::Scalar*)((char*)&fpos3d + offsetof(Eigen::Vector3, Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::MatrixBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 3>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 1>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 0>::<unnamed>))' was declared here
In member function 'std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(double) [with _CharT = char; _Traits = std::char_traits<char>]',
    inlined from 'std::string Avogadro::Core::CoordinateBlockGenerator::generateCoordinateBlock()' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp:176:76:
/usr/include/c++/14.2.1/ostream:232:25: warning: 'fpos3d.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[1]' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp: In member function 'std::string Avogadro::Core::CoordinateBlockGenerator::generateCoordinateBlock()':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp:66:11: note: 'fpos3d.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[1]' was declared here
In member function 'std::basic_ostream<_CharT, _Traits>::__ostream_type& std::basic_ostream<_CharT, _Traits>::operator<<(double) [with _CharT = char; _Traits = std::char_traits<char>]',
    inlined from 'std::string Avogadro::Core::CoordinateBlockGenerator::generateCoordinateBlock()' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp:184:76:
/usr/include/c++/14.2.1/ostream:232:25: warning: 'fpos3d.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[2]' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp: In member function 'std::string Avogadro::Core::CoordinateBlockGenerator::generateCoordinateBlock()':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/coordinateblockgenerator.cpp:66:11: note: 'fpos3d.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[2]' was declared here
[  4%] Building CXX object avogadro/core/CMakeFiles/Core.dir/layer.cpp.o
[  4%] Building CXX object avogadro/core/CMakeFiles/Core.dir/layermanager.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/core/cube.cpp: In member function 'float Avogadro::Core::Cube::getData(int, int, int) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/cube.cpp:296:9: warning: unused variable 'nx' [-Wunused-variable]
[  4%] Building CXX object avogadro/core/CMakeFiles/Core.dir/mesh.cpp.o
[  4%] Building CXX object avogadro/core/CMakeFiles/Core.dir/molecule.cpp.o
[  4%] Building CXX object avogadro/core/CMakeFiles/Core.dir/mutex.cpp.o
[  5%] Building CXX object avogadro/core/CMakeFiles/Core.dir/nameatomtyper.cpp.o
[  5%] Building CXX object avogadro/core/CMakeFiles/Core.dir/neighborperceiver.cpp.o
[  5%] Building CXX object avogadro/core/CMakeFiles/Core.dir/residue.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp: In member function 'void Avogadro::Core::Graph::removeEdge(std::size_t, std::size_t)':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp:308:5: warning: 'edgeIndex' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp:296:10: note: 'edgeIndex' was declared here
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp: In member function 'void Avogadro::Core::Graph::swapEdgeIndices(std::size_t, std::size_t)':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp:418:17: warning: 'changeTo2.std::array<long unsigned int*, 2>::_M_elems[0]' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp:389:26: note: 'changeTo2.std::array<long unsigned int*, 2>::_M_elems[0]' was declared here
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp:419:17: warning: 'changeTo2.std::array<long unsigned int*, 2>::_M_elems[1]' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp:389:26: note: 'changeTo2.std::array<long unsigned int*, 2>::_M_elems[1]' was declared here
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp:420:17: warning: 'changeTo1.std::array<long unsigned int*, 2>::_M_elems[0]' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp:402:26: note: 'changeTo1.std::array<long unsigned int*, 2>::_M_elems[0]' was declared here
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp:421:17: warning: 'changeTo1.std::array<long unsigned int*, 2>::_M_elems[1]' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/graph.cpp:402:26: note: 'changeTo1.std::array<long unsigned int*, 2>::_M_elems[1]' was declared here
[  5%] Building CXX object avogadro/core/CMakeFiles/Core.dir/ringperceiver.cpp.o
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In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/core/mesh.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/core/mesh.h: In copy constructor 'Avogadro::Core::Mesh::Mesh(const Avogadro::Core::Mesh&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/mesh.h:238:10: warning: 'Avogadro::Core::Mesh::m_lock' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/mesh.h:232:25: warning:   'Avogadro::Core::Array<Eigen::Matrix<float, 3, 1> > Avogadro::Core::Mesh::m_triangles' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/mesh.cpp:20:1: warning:   when initialized here [-Wreorder]
[  6%] Building CXX object avogadro/core/CMakeFiles/Core.dir/spacegroups.cpp.o
[  6%] Building CXX object avogadro/core/CMakeFiles/Core.dir/symbolatomtyper.cpp.o
[  6%] Building CXX object avogadro/core/CMakeFiles/Core.dir/unitcell.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/core/ringperceiver.cpp:69:17: warning: 'Avogadro::Core::{anonymous}::DistanceMatrix& Avogadro::Core::{anonymous}::DistanceMatrix::operator=(Avogadro::Core::{anonymous}::DistanceMatrix)' defined but not used [-Wunused-function]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/ringperceiver.cpp:60:1: warning: 'Avogadro::Core::{anonymous}::DistanceMatrix::DistanceMatrix(const Avogadro::Core::{anonymous}::DistanceMatrix&)' defined but not used [-Wunused-function]
[  6%] Building CXX object avogadro/core/CMakeFiles/Core.dir/variantmap.cpp.o
[  6%] Building CXX object avogadro/core/CMakeFiles/Core.dir/version.cpp.o
[  6%] Building CXX object avogadro/core/CMakeFiles/Core.dir/sharedmutex.cpp.o
[  6%] Building CXX object avogadro/core/CMakeFiles/Core.dir/avospglib.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.h: In copy constructor 'Avogadro::Core::Molecule::Molecule(const Avogadro::Core::Molecule&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.h:856:24: warning: 'Avogadro::Core::Molecule::m_atomicNumbers' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.h:849:19: warning:   'Eigen::VectorXd Avogadro::Core::Molecule::m_frozenAtomMask' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.cpp:33:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.h: In constructor 'Avogadro::Core::Molecule::Molecule(Avogadro::Core::Molecule&&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.h:856:24: warning: 'Avogadro::Core::Molecule::m_atomicNumbers' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.h:849:19: warning:   'Eigen::VectorXd Avogadro::Core::Molecule::m_frozenAtomMask' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.cpp:129:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.cpp: In member function 'void Avogadro::Core::Molecule::setFrozenAtom(Avogadro::Index, bool)':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.cpp:363:31: warning: comparison of integer expressions of different signedness: 'Eigen::Index' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.cpp:372:18: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'Eigen::Index' {aka 'long int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.cpp: In member function 'bool Avogadro::Core::Molecule::frozenAtom(Avogadro::Index) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.cpp:382:18: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'Eigen::Index' {aka 'long int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.cpp: In member function 'void Avogadro::Core::Molecule::setFrozenAtomAxis(Avogadro::Index, int, bool)':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.cpp:394:31: warning: comparison of integer expressions of different signedness: 'Eigen::Index' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.cpp:403:18: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'Eigen::Index' {aka 'long int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/residue.cpp: In function 'void __static_initialization_and_destruction_0()':
/build/avogadrolibs/src/avogadrolibs/avogadro/core/residue.cpp:166:1: note: variable tracking size limit exceeded with '-fvar-tracking-assignments', retrying without
[  7%] Linking CXX shared library ../../lib/libAvogadroCore.so
[  7%] Built target Core
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In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/primitive.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/drawable.h:12,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/meshgeometry.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arcsector.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arcsector.cpp:6:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<float, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = Eigen::Matrix<float, 3, 1>; _Args = {const Eigen::Matrix<float, 3, 1, 0, 3, 1>&}]' at /usr/include/c++/14.2.1/bits/stl_construct.h:119:7,
    inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:267:21,
    inlined from 'static _ForwardIterator std::__uninitialized_fill_n<_TrivialValueType>::__uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; bool _TrivialValueType = false]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:284:34,
    inlined from '_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:327:17,
    inlined from '_ForwardIterator std::__uninitialized_fill_n_a(_ForwardIterator, _Size, const _Tp&, allocator<_Tp2>&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; _Tp2 = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:472:39,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_fill_initialize(size_type, const value_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1709:33,
    inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:572:27,
    inlined from 'Avogadro::Core::internal::ArrayRefContainer<T>::ArrayRefContainer(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:45:17,
    inlined from 'Avogadro::Core::Array<T>::Array(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:117:9,
    inlined from 'void Avogadro::Rendering::ArcSector::setArcSector(const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&, float, float)' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arcsector.cpp:28:33:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arcsector.cpp: In member function 'void Avogadro::Rendering::ArcSector::setArcSector(const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&, float, float)':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arcsector.cpp:28:33: note: '<anonymous>' declared here
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/chargemodel.cpp: In member function 'virtual Avogadro::Vector3 Avogadro::Calc::ChargeModel::dipoleMoment(const Avogadro::Core::Molecule&) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/chargemodel.cpp:36:22: warning: comparison of integer expressions of different signedness: 'Eigen::Index' {aka 'long int'} and 'std::size_t' {aka 'long unsigned int'} [-Wsign-compare]
[ 11%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/arrowgeometry.cpp.o
[ 11%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/beziergeometry.cpp.o
[ 11%] Building CXX object avogadro/calc/CMakeFiles/Calc.dir/defaultmodel.cpp.o
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/primitive.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/drawable.h:12,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/linestripgeometry.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arcstrip.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arcstrip.cpp:6:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<float, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = Eigen::Matrix<float, 3, 1>; _Args = {const Eigen::Matrix<float, 3, 1, 0, 3, 1>&}]' at /usr/include/c++/14.2.1/bits/stl_construct.h:119:7,
    inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:267:21,
    inlined from 'static _ForwardIterator std::__uninitialized_fill_n<_TrivialValueType>::__uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; bool _TrivialValueType = false]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:284:34,
    inlined from '_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:327:17,
    inlined from '_ForwardIterator std::__uninitialized_fill_n_a(_ForwardIterator, _Size, const _Tp&, allocator<_Tp2>&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; _Tp2 = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:472:39,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_fill_initialize(size_type, const value_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1709:33,
    inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:572:27,
    inlined from 'Avogadro::Core::internal::ArrayRefContainer<T>::ArrayRefContainer(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:45:17,
    inlined from 'Avogadro::Core::Array<T>::Array(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:117:9,
    inlined from 'void Avogadro::Rendering::ArcStrip::setArc(const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&, float, float, float)' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arcstrip.cpp:23:39:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arcstrip.cpp: In member function 'void Avogadro::Rendering::ArcStrip::setArc(const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&, float, float, float)':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arcstrip.cpp:23:39: note: '<anonymous>' declared here
[ 11%] Building CXX object avogadro/calc/CMakeFiles/Calc.dir/energycalculator.cpp.o
[ 11%] Building CXX object avogadro/calc/CMakeFiles/Calc.dir/energymanager.cpp.o
[ 11%] Building CXX object avogadro/calc/CMakeFiles/Calc.dir/lennardjones.cpp.o
[ 11%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/bufferobject.cpp.o
[ 12%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/bsplinegeometry.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h: In member function 'virtual bool Avogadro::Calc::EnergyCalculator::setConfiguration(Avogadro::Core::VariantMap&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h:54:51: warning: unused parameter 'config' [-Wunused-parameter]
[ 12%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/cartoongeometry.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arrowgeometry.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arrowgeometry.h: In constructor 'Avogadro::Rendering::ArrowGeometry::ArrowGeometry()':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arrowgeometry.h:85:12: warning: 'Avogadro::Rendering::ArrowGeometry::d' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arrowgeometry.h:80:13: warning:   'Avogadro::Vector3ub Avogadro::Rendering::ArrowGeometry::m_color' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/arrowgeometry.cpp:44:1: warning:   when initialized here [-Wreorder]
[ 12%] Building CXX object avogadro/io/CMakeFiles/IO.dir/fileformatmanager.cpp.o
[ 12%] Building CXX object avogadro/io/CMakeFiles/IO.dir/gromacsformat.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.h:11,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h: In member function 'virtual bool Avogadro::Calc::EnergyCalculator::setConfiguration(Avogadro::Core::VariantMap&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h:54:51: warning: unused parameter 'config' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.h: In constructor 'Avogadro::Calc::LennardJones::LennardJones()':
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.h:58:7: warning: 'Avogadro::Calc::LennardJones::m_exponent' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.h:54:19: warning:   'Avogadro::Core::UnitCell* Avogadro::Calc::LennardJones::m_cell' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:14:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.h:54:19: warning: 'Avogadro::Calc::LennardJones::m_cell' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.h:53:19: warning:   'Avogadro::Core::Molecule* Avogadro::Calc::LennardJones::m_molecule' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:14:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp: In member function 'virtual void Avogadro::Calc::LennardJones::setMolecule(Avogadro::Core::Molecule*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:44:23: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:53:29: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp: In member function 'virtual Avogadro::Real Avogadro::Calc::LennardJones::value(const Eigen::VectorXd&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:82:25: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:84:31: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:96:25: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:98:31: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp: In member function 'virtual void Avogadro::Calc::LennardJones::gradient(const Eigen::VectorXd&, Eigen::VectorXd&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:126:25: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:128:31: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:152:25: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/lennardjones.cpp:154:31: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
[ 12%] Building CXX object avogadro/io/CMakeFiles/IO.dir/lammpsformat.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/calc/energymanager.cpp:7:
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h: In member function 'virtual bool Avogadro::Calc::EnergyCalculator::setConfiguration(Avogadro::Core::VariantMap&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h:54:51: warning: unused parameter 'config' [-Wunused-parameter]
[ 12%] Building CXX object avogadro/io/CMakeFiles/IO.dir/mdlformat.cpp.o
[ 13%] Linking CXX shared library ../../lib/libAvogadroCalc.so
[ 13%] Building CXX object avogadro/io/CMakeFiles/IO.dir/pdbformat.cpp.o
[ 13%] Built target Calc
[ 14%] Building CXX object avogadro/io/CMakeFiles/IO.dir/sdfformat.cpp.o
[ 14%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/camera.cpp.o
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/primitive.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:12,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/bufferobject.h:12,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/bsplinegeometry.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:6:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<unsigned char, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = unsigned char; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8,
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_Tp1> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:46:21:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: 'vert1.Avogadro::Rendering::ColorNormalVertex::color.Eigen::Matrix<unsigned char, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<unsigned char, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp: In member function 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:43:23: note: 'vert1' declared here
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_Tp1> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:46:21:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert1.Avogadro::Rendering::ColorNormalVertex::unusedAlign' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp: In member function 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:43:23: note: 'vert1' declared here
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_Tp1> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:46:21:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert1.Avogadro::Rendering::ColorNormalVertex::padding' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp: In member function 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:43:23: note: 'vert1' declared here
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<unsigned char, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = unsigned char; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8,
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_Tp1> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:51:21:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: 'vert2.Avogadro::Rendering::ColorNormalVertex::color.Eigen::Matrix<unsigned char, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<unsigned char, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp: In member function 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:48:23: note: 'vert2' declared here
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_Tp1> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:51:21:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert2.Avogadro::Rendering::ColorNormalVertex::unusedAlign' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp: In member function 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:48:23: note: 'vert2' declared here
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_Tp1> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:51:21:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert2.Avogadro::Rendering::ColorNormalVertex::padding' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp: In member function 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::Cartoon::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cartoongeometry.cpp:48:23: note: 'vert2' declared here
[ 14%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/curvegeometry.cpp.o
[ 14%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/cylindergeometry.cpp.o
[ 14%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/dashedlinegeometry.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/io/lammpsformat.cpp: In member function 'virtual bool Avogadro::Io::LammpsTrajectoryFormat::read(std::istream&, Avogadro::Core::Molecule&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/io/lammpsformat.cpp:258:5: warning: 'numAtoms2' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/io/lammpsformat.cpp:221:10: note: 'numAtoms2' was declared here
[ 14%] Building CXX object avogadro/io/CMakeFiles/IO.dir/trrformat.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/io/mdlformat.cpp: In member function 'virtual bool Avogadro::Io::MdlFormat::read(std::istream&, Avogadro::Core::Molecule&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/io/mdlformat.cpp:206:16: warning: unused variable 'index' [-Wunused-variable]
/build/avogadrolibs/src/avogadrolibs/avogadro/io/mdlformat.cpp:229:16: warning: unused variable 'index' [-Wunused-variable]
/build/avogadrolibs/src/avogadrolibs/avogadro/io/mdlformat.cpp:235:14: warning: unused variable 'isotope' [-Wunused-variable]
/build/avogadrolibs/src/avogadrolibs/avogadro/io/mdlformat.cpp: In member function 'bool Avogadro::Io::MdlFormat::readV3000(std::istream&, Avogadro::Core::Molecule&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/io/mdlformat.cpp:428:15: warning: unused variable 'isotope' [-Wunused-variable]
[ 14%] Building CXX object avogadro/io/CMakeFiles/IO.dir/turbomoleformat.cpp.o
[ 14%] Building CXX object avogadro/io/CMakeFiles/IO.dir/vaspformat.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/bufferobject.h:12,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:6:
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_Tp1> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::CurveGeometry::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:63:21:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert1.Avogadro::Rendering::ColorNormalVertex::unusedAlign' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp: In member function 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::CurveGeometry::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:59:23: note: 'vert1' declared here
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_Tp1> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::CurveGeometry::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:63:21:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert1.Avogadro::Rendering::ColorNormalVertex::padding' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp: In member function 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::CurveGeometry::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:59:23: note: 'vert1' declared here
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_Tp1> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::CurveGeometry::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:69:21:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert2.Avogadro::Rendering::ColorNormalVertex::unusedAlign' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp: In member function 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::CurveGeometry::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:65:23: note: 'vert2' declared here
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_Tp1> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::CurveGeometry::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:69:21:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert2.Avogadro::Rendering::ColorNormalVertex::padding' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp: In member function 'virtual std::vector<Avogadro::Rendering::ColorNormalVertex> Avogadro::Rendering::CurveGeometry::computeCirclePoints(const Eigen::Affine3f&, const Eigen::Affine3f&, bool) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:65:23: note: 'vert2' declared here
In file included from /usr/include/eigen3/Eigen/src/Core/util/ConfigureVectorization.h:392,
                 from /usr/include/eigen3/Eigen/Core:22,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/primitive.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:12:
In function 'float32x2_t vsub_f32(float32x2_t, float32x2_t)',
    inlined from 'Packet Eigen::internal::psub(const Packet&, const Packet&) [with Packet = __Float32x2_t]' at /usr/include/eigen3/Eigen/src/Core/arch/NEON/PacketMath.h:834:98,
    inlined from 'const Packet Eigen::internal::scalar_difference_op<LhsScalar, RhsScalar>::packetOp(const Packet&, const Packet&) const [with Packet = __Float32x2_t; LhsScalar = float; RhsScalar = float]' at /usr/include/eigen3/Eigen/src/Core/functors/BinaryFunctors.h:362:26,
    inlined from 'PacketType Eigen::internal::binary_evaluator<Eigen::CwiseBinaryOp<BinaryOp, Lhs, Rhs>, Eigen::internal::IndexBased, Eigen::internal::IndexBased>::packet(Eigen::Index, Eigen::Index) const [with int LoadMode = 0; PacketType = __Float32x2_t; BinaryOp = Eigen::internal::scalar_difference_op<float, float>; Lhs = const Eigen::Matrix<float, 3, 1>; Rhs = const Eigen::Matrix<float, 3, 1>]' at /usr/include/eigen3/Eigen/src/Core/CoreEvaluators.h:782:31,
    inlined from 'PacketType Eigen::internal::unary_evaluator<Eigen::CwiseUnaryOp<UnaryOp, ArgType>, Eigen::internal::IndexBased>::packet(Eigen::Index, Eigen::Index) const [with int LoadMode = 0; PacketType = __Float32x2_t; UnaryOp = Eigen::internal::scalar_abs2_op<float>; ArgType = const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/CoreEvaluators.h:596:81,
    inlined from 'PacketType Eigen::internal::redux_evaluator<_XprType>::packetByOuterInner(Eigen::Index, Eigen::Index) const [with int LoadMode = 0; PacketType = __Float32x2_t; _XprType = Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:386:54,
    inlined from 'static PacketType Eigen::internal::redux_vec_unroller<Func, Evaluator, Start, 1>::run(const Evaluator&, const Func&) [with PacketType = __Float32x2_t; Func = Eigen::internal::scalar_sum_op<float, float>; Evaluator = Eigen::internal::redux_evaluator<Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > > >; int Start = 0]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:177:66,
    inlined from 'static Eigen::internal::redux_impl<Func, Evaluator, 3, 2>::Scalar Eigen::internal::redux_impl<Func, Evaluator, 3, 2>::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > >; Func = Eigen::internal::scalar_sum_op<float, float>; Evaluator = Eigen::internal::redux_evaluator<Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > > >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:344:115,
    inlined from 'typename Eigen::internal::traits<T>::Scalar Eigen::DenseBase<Derived>::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op<float, float>; Derived = Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:418:56,
    inlined from 'typename Eigen::internal::traits<T>::Scalar Eigen::DenseBase<Derived>::sum() const [with Derived = Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:463:25,
    inlined from 'typename Eigen::NumTraits<typename Eigen::internal::traits<T>::Scalar>::Real Eigen::MatrixBase<Derived>::squaredNorm() const [with Derived = Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/Dot.h:98:46,
    inlined from 'const Eigen::MatrixBase<Derived>::PlainObject Eigen::MatrixBase<Derived>::normalized() const [with Derived = Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/Dot.h:128:31,
    inlined from 'virtual void Avogadro::Rendering::CurveGeometry::update(int)' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:97:45:
/usr/lib/gcc/aarch64-unknown-linux-gnu/14.2.1/include/arm_neon.h:1619:16: warning: '*(__Float32x2_t*)((char*)&previous + offsetof(Eigen::Vector3f, Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::MatrixBase<Eigen::Matrix<float, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseBase<Eigen::Matrix<float, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<float, 3, 1, 0, 3, 1>, 3>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<float, 3, 1, 0, 3, 1>, 1>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<float, 3, 1, 0, 3, 1>, 0>::<unnamed>))' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp: In member function 'virtual void Avogadro::Rendering::CurveGeometry::update(int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:87:12: note: '*(__Float32x2_t*)((char*)&previous + offsetof(Eigen::Vector3f, Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::MatrixBase<Eigen::Matrix<float, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseBase<Eigen::Matrix<float, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<float, 3, 1, 0, 3, 1>, 3>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<float, 3, 1, 0, 3, 1>, 1>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<float, 3, 1, 0, 3, 1>, 0>::<unnamed>))' was declared here
In file included from /usr/include/eigen3/Eigen/Core:253:
In member function 'const Eigen::internal::scalar_difference_op<LhsScalar, RhsScalar>::result_type Eigen::internal::scalar_difference_op<LhsScalar, RhsScalar>::operator()(const LhsScalar&, const RhsScalar&) const [with LhsScalar = float; RhsScalar = float]',
    inlined from 'Eigen::internal::binary_evaluator<Eigen::CwiseBinaryOp<BinaryOp, Lhs, Rhs>, Eigen::internal::IndexBased, Eigen::internal::IndexBased>::CoeffReturnType Eigen::internal::binary_evaluator<Eigen::CwiseBinaryOp<BinaryOp, Lhs, Rhs>, Eigen::internal::IndexBased, Eigen::internal::IndexBased>::coeff(Eigen::Index, Eigen::Index) const [with BinaryOp = Eigen::internal::scalar_difference_op<float, float>; Lhs = const Eigen::Matrix<float, 3, 1>; Rhs = const Eigen::Matrix<float, 3, 1>]' at /usr/include/eigen3/Eigen/src/Core/CoreEvaluators.h:769:22,
    inlined from 'Eigen::internal::unary_evaluator<Eigen::CwiseUnaryOp<UnaryOp, ArgType>, Eigen::internal::IndexBased>::CoeffReturnType Eigen::internal::unary_evaluator<Eigen::CwiseUnaryOp<UnaryOp, ArgType>, Eigen::internal::IndexBased>::coeff(Eigen::Index, Eigen::Index) const [with UnaryOp = Eigen::internal::scalar_abs2_op<float>; ArgType = const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/CoreEvaluators.h:583:40,
    inlined from 'Eigen::internal::redux_evaluator<_XprType>::CoeffReturnType Eigen::internal::redux_evaluator<_XprType>::coeffByOuterInner(Eigen::Index, Eigen::Index) const [with _XprType = Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:381:23,
    inlined from 'static Eigen::internal::redux_novec_unroller<Func, Evaluator, Start, 1>::Scalar Eigen::internal::redux_novec_unroller<Func, Evaluator, Start, 1>::run(const Evaluator&, const Func&) [with Func = Eigen::internal::scalar_sum_op<float, float>; Evaluator = Eigen::internal::redux_evaluator<Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > > >; int Start = 2]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:128:34,
    inlined from 'static Eigen::internal::redux_impl<Func, Evaluator, 3, 2>::Scalar Eigen::internal::redux_impl<Func, Evaluator, 3, 2>::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > >; Func = Eigen::internal::scalar_sum_op<float, float>; Evaluator = Eigen::internal::redux_evaluator<Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > > >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:346:103,
    inlined from 'typename Eigen::internal::traits<T>::Scalar Eigen::DenseBase<Derived>::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op<float, float>; Derived = Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:418:56,
    inlined from 'typename Eigen::internal::traits<T>::Scalar Eigen::DenseBase<Derived>::sum() const [with Derived = Eigen::CwiseUnaryOp<Eigen::internal::scalar_abs2_op<float>, const Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> > >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:463:25,
    inlined from 'typename Eigen::NumTraits<typename Eigen::internal::traits<T>::Scalar>::Real Eigen::MatrixBase<Derived>::squaredNorm() const [with Derived = Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/Dot.h:98:46,
    inlined from 'const Eigen::MatrixBase<Derived>::PlainObject Eigen::MatrixBase<Derived>::normalized() const [with Derived = Eigen::CwiseBinaryOp<Eigen::internal::scalar_difference_op<float, float>, const Eigen::Matrix<float, 3, 1>, const Eigen::Matrix<float, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/Dot.h:128:31,
    inlined from 'virtual void Avogadro::Rendering::CurveGeometry::update(int)' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:97:45:
/usr/include/eigen3/Eigen/src/Core/functors/BinaryFunctors.h:359:99: warning: 'previous.Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<float, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<float, 3, 0, 0>::array[2]' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp: In member function 'virtual void Avogadro::Rendering::CurveGeometry::update(int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/curvegeometry.cpp:87:12: note: 'previous.Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<float, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<float, 3, 0, 0>::array[2]' was declared here
[ 14%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/drawable.cpp.o
[ 14%] Building CXX object avogadro/io/CMakeFiles/IO.dir/xyzformat.cpp.o
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/pybind11/eigen/matrix.h:28,
                 from /usr/include/pybind11/eigen.h:12,
                 from /build/avogadrolibs/src/avogadrolibs/python/core.cpp:1:
In member function 'Eigen::PlainObjectBase<Derived>& Eigen::PlainObjectBase<Derived>::operator=(Eigen::PlainObjectBase<Derived>&&) [with Derived = Eigen::Matrix<double, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&&) [with _Scalar = double; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:281:22,
    inlined from 'bool pybind11::detail::type_caster<Type, typename std::enable_if<std::integral_constant<bool, (pybind11::detail::negation<std::integral_constant<bool, (decltype (pybind11::detail::is_template_base_of_impl<Eigen::DenseBase>::check((typename pybind11::detail::intrinsic_type<T>::type*)(nullptr)))::value && std::is_base_of<Eigen::MapBase<Derived, 0>, T>::value)> >::value && decltype (pybind11::detail::is_template_base_of_impl<Eigen::PlainObjectBase>::check((typename pybind11::detail::intrinsic_type<T>::type*)(nullptr)))::value)>::value, void>::type>::load(pybind11::handle, bool) [with Type = Eigen::Matrix<double, 3, 1>]' at /usr/include/pybind11/eigen/matrix.h:320:15:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:504:7: warning: '<unnamed>.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/usr/include/pybind11/eigen/matrix.h: In member function 'bool pybind11::detail::type_caster<Type, typename std::enable_if<std::integral_constant<bool, (pybind11::detail::negation<std::integral_constant<bool, (decltype (pybind11::detail::is_template_base_of_impl<Eigen::DenseBase>::check((typename pybind11::detail::intrinsic_type<T>::type*)(nullptr)))::value && std::is_base_of<Eigen::MapBase<Derived, 0>, T>::value)> >::value && decltype (pybind11::detail::is_template_base_of_impl<Eigen::PlainObjectBase>::check((typename pybind11::detail::intrinsic_type<T>::type*)(nullptr)))::value)>::value, void>::type>::load(pybind11::handle, bool) [with Type = Eigen::Matrix<double, 3, 1>]':
/usr/include/pybind11/eigen/matrix.h:320:17: note: '<anonymous>' declared here
In member function 'Eigen::PlainObjectBase<Derived>& Eigen::PlainObjectBase<Derived>::operator=(Eigen::PlainObjectBase<Derived>&&) [with Derived = Eigen::Matrix<double, 3, 3>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>& Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::operator=(Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&&) [with _Scalar = double; int _Rows = 3; int _Cols = 3; int _Options = 0; int _MaxRows = 3; int _MaxCols = 3]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:281:22,
    inlined from 'bool pybind11::detail::type_caster<Type, typename std::enable_if<std::integral_constant<bool, (pybind11::detail::negation<std::integral_constant<bool, (decltype (pybind11::detail::is_template_base_of_impl<Eigen::DenseBase>::check((typename pybind11::detail::intrinsic_type<T>::type*)(nullptr)))::value && std::is_base_of<Eigen::MapBase<Derived, 0>, T>::value)> >::value && decltype (pybind11::detail::is_template_base_of_impl<Eigen::PlainObjectBase>::check((typename pybind11::detail::intrinsic_type<T>::type*)(nullptr)))::value)>::value, void>::type>::load(pybind11::handle, bool) [with Type = Eigen::Matrix<double, 3, 3>]' at /usr/include/pybind11/eigen/matrix.h:320:15:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:504:7: warning: '<unnamed>.Eigen::Matrix<double, 3, 3, 0, 3, 3>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 3> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/usr/include/pybind11/eigen/matrix.h: In member function 'bool pybind11::detail::type_caster<Type, typename std::enable_if<std::integral_constant<bool, (pybind11::detail::negation<std::integral_constant<bool, (decltype (pybind11::detail::is_template_base_of_impl<Eigen::DenseBase>::check((typename pybind11::detail::intrinsic_type<T>::type*)(nullptr)))::value && std::is_base_of<Eigen::MapBase<Derived, 0>, T>::value)> >::value && decltype (pybind11::detail::is_template_base_of_impl<Eigen::PlainObjectBase>::check((typename pybind11::detail::intrinsic_type<T>::type*)(nullptr)))::value)>::value, void>::type>::load(pybind11::handle, bool) [with Type = Eigen::Matrix<double, 3, 3>]':
/usr/include/pybind11/eigen/matrix.h:320:17: note: '<anonymous>' declared here
[ 14%] Linking CXX shared module ../lib/avogadro/core.cpython-313-aarch64-linux-gnu.so
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp:9:
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'void Avogadro::Rendering::CylinderGeometry::update()' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp:118:35:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert.Avogadro::Rendering::ColorNormalVertex::unusedAlign' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp: In member function 'void Avogadro::Rendering::CylinderGeometry::update()':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp:112:25: note: 'vert' declared here
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'void Avogadro::Rendering::CylinderGeometry::update()' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp:118:35:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert.Avogadro::Rendering::ColorNormalVertex::padding' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp: In member function 'void Avogadro::Rendering::CylinderGeometry::update()':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp:112:25: note: 'vert' declared here
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'void Avogadro::Rendering::CylinderGeometry::update()' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp:121:35:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert2.Avogadro::Rendering::ColorNormalVertex::unusedAlign' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp: In member function 'void Avogadro::Rendering::CylinderGeometry::update()':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp:113:25: note: 'vert2' declared here
In copy constructor 'Avogadro::Rendering::ColorNormalVertex::ColorNormalVertex(const Avogadro::Rendering::ColorNormalVertex&)',
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::Rendering::ColorNormalVertex; _Args = {const Avogadro::Rendering::ColorNormalVertex&}; _Tp = Avogadro::Rendering::ColorNormalVertex]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::Rendering::ColorNormalVertex; _Alloc = std::allocator<Avogadro::Rendering::ColorNormalVertex>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'void Avogadro::Rendering::CylinderGeometry::update()' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp:121:35:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/scene.h:67:8: warning: 'vert2.Avogadro::Rendering::ColorNormalVertex::padding' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp: In member function 'void Avogadro::Rendering::CylinderGeometry::update()':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/cylindergeometry.cpp:113:25: note: 'vert2' declared here
[ 15%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/geometrynode.cpp.o
[ 15%] Built target avogadrocorepython
[ 15%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/geometryvisitor.cpp.o
[ 15%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/groupnode.cpp.o
[ 15%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/glrenderer.cpp.o
[ 15%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/glrendervisitor.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/io/cjsonformat.cpp: In function 'json Avogadro::Io::eigenColToJson(const Avogadro::MatrixX&, int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/io/cjsonformat.cpp:83:23: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'Eigen::Index' {aka 'long int'} [-Wsign-compare]
[ 15%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/linestripgeometry.cpp.o
[ 15%] Building CXX object avogadro/io/CMakeFiles/IO.dir/hdf5dataformat.cpp.o
[ 15%] Building CXX object avogadro/io/CMakeFiles/IO.dir/mmtfformat.cpp.o
[ 15%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/meshgeometry.cpp.o
[ 16%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/node.cpp.o
[ 16%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/plyvisitor.cpp.o
[ 16%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/povrayvisitor.cpp.o
[ 16%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/quad.cpp.o
[ 16%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/quadoutline.cpp.o
[ 16%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/scene.cpp.o
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/primitive.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/drawable.h:12,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/linestripgeometry.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/quadoutline.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/quadoutline.cpp:6:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<float, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = Eigen::Matrix<float, 3, 1>; _Args = {const Eigen::Matrix<float, 3, 1, 0, 3, 1>&}]' at /usr/include/c++/14.2.1/bits/stl_construct.h:119:7,
    inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:267:21,
    inlined from 'static _ForwardIterator std::__uninitialized_fill_n<_TrivialValueType>::__uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; bool _TrivialValueType = false]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:284:34,
    inlined from '_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:327:17,
    inlined from '_ForwardIterator std::__uninitialized_fill_n_a(_ForwardIterator, _Size, const _Tp&, allocator<_Tp2>&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; _Tp2 = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:472:39,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_fill_initialize(size_type, const value_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1709:33,
    inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:572:27,
    inlined from 'Avogadro::Core::internal::ArrayRefContainer<T>::ArrayRefContainer(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:45:17,
    inlined from 'Avogadro::Core::Array<T>::Array(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:117:9,
    inlined from 'void Avogadro::Rendering::QuadOutline::setQuad(const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&, float)' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/quadoutline.cpp:16:26:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1> >::m_storage' is used uninitialized [-Wuninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/quadoutline.cpp: In member function 'void Avogadro::Rendering::QuadOutline::setQuad(const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&, float)':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/quadoutline.cpp:16:26: note: '<anonymous>' declared here
[ 16%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/shader.cpp.o
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/primitive.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/drawable.h:12,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/meshgeometry.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/quad.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/quad.cpp:6:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<float, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = Eigen::Matrix<float, 3, 1>; _Args = {const Eigen::Matrix<float, 3, 1, 0, 3, 1>&}]' at /usr/include/c++/14.2.1/bits/stl_construct.h:119:7,
    inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:267:21,
    inlined from 'static _ForwardIterator std::__uninitialized_fill_n<_TrivialValueType>::__uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; bool _TrivialValueType = false]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:284:34,
    inlined from '_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:327:17,
    inlined from '_ForwardIterator std::__uninitialized_fill_n_a(_ForwardIterator, _Size, const _Tp&, allocator<_Tp2>&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; _Tp2 = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:472:39,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_fill_initialize(size_type, const value_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1709:33,
    inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:572:27,
    inlined from 'Avogadro::Core::internal::ArrayRefContainer<T>::ArrayRefContainer(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:45:17,
    inlined from 'Avogadro::Core::Array<T>::Array(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:117:9,
    inlined from 'void Avogadro::Rendering::Quad::setQuad(const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/quad.cpp:20:26:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1> >::m_storage' is used uninitialized [-Wuninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/quad.cpp: In member function 'void Avogadro::Rendering::Quad::setQuad(const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&, const Avogadro::Vector3f&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/quad.cpp:20:26: note: '<anonymous>' declared here
[ 17%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/shaderprogram.cpp.o
[ 17%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/solidpipeline.cpp.o
[ 17%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/spheregeometry.cpp.o
[ 17%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/textlabel2d.cpp.o
[ 17%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/textlabel3d.cpp.o
[ 17%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/textlabelbase.cpp.o
[ 17%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/textproperties.cpp.o
[ 18%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/textrenderstrategy.cpp.o
[ 18%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/texture2d.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/solidpipeline.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/solidpipeline.h: In constructor 'Avogadro::Rendering::SolidPipeline::SolidPipeline()':
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/solidpipeline.h:133:9: warning: 'Avogadro::Rendering::SolidPipeline::m_fogStrength' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/solidpipeline.h:128:9: warning:   'float Avogadro::Rendering::SolidPipeline::m_fogPosition' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/solidpipeline.cpp:86:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/solidpipeline.h:137:7: warning: 'Avogadro::Rendering::SolidPipeline::m_height' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/solidpipeline.h:125:9: warning:   'float Avogadro::Rendering::SolidPipeline::m_dofStrength' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/rendering/solidpipeline.cpp:86:1: warning:   when initialized here [-Wreorder]
[ 18%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/transformnode.cpp.o
[ 18%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/visitor.cpp.o
[ 18%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/volumegeometry.cpp.o
[ 18%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/vrmlvisitor.cpp.o
[ 18%] Building CXX object avogadro/rendering/CMakeFiles/Rendering.dir/ambientocclusionspheregeometry.cpp.o
[ 18%] Linking CXX shared library ../../lib/libAvogadroIO.so
[ 18%] Built target IO
[ 18%] Built target QtGui_autogen_timestamp_deps
[ 18%] Building CXX object avogadro/command/CMakeFiles/avobabel.dir/avobabel.cpp.o
[ 18%] Building CXX object avogadro/command/CMakeFiles/avocjsontocml.dir/cjsontocml.cpp.o
[ 18%] Building CXX object avogadro/quantumio/CMakeFiles/QuantumIO.dir/gamessus.cpp.o
[ 18%] Building CXX object avogadro/quantumio/CMakeFiles/QuantumIO.dir/gaussianfchk.cpp.o
[ 18%] Building CXX object avogadro/quantumio/CMakeFiles/QuantumIO.dir/gaussiancube.cpp.o
[ 18%] Building CXX object avogadro/quantumio/CMakeFiles/QuantumIO.dir/genericoutput.cpp.o
[ 18%] Automatic MOC for target QtGui
[ 19%] Linking CXX shared library ../../lib/libAvogadroRendering.so
[ 19%] Linking CXX executable ../../bin/avocjsontocml
[ 19%] Linking CXX executable ../../bin/avobabel
[ 19%] Building CXX object avogadro/quantumio/CMakeFiles/QuantumIO.dir/molden.cpp.o
[ 19%] Built target avocjsontocml
[ 19%] Building CXX object avogadro/quantumio/CMakeFiles/QuantumIO.dir/mopacaux.cpp.o
[ 19%] Built target avobabel
[ 20%] Building CXX object avogadro/quantumio/CMakeFiles/QuantumIO.dir/nwchemjson.cpp.o
[ 20%] Building CXX object avogadro/quantumio/CMakeFiles/QuantumIO.dir/nwchemlog.cpp.o
[ 20%] Built target QtGui_autogen
[ 20%] Generating ui_insertfragmentdialog.h
[ 20%] Generating qrc_qtgui.cpp
[ 20%] Building CXX object avogadro/quantumio/CMakeFiles/QuantumIO.dir/orca.cpp.o
[ 20%] Generating ui_customelementdialog.h
[ 21%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/QtGui_autogen/mocs_compilation.cpp.o
[ 21%] Built target Rendering
[ 21%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/backgroundfileformat.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/gaussianfchk.cpp: In member function 'void Avogadro::QuantumIO::GaussianFchk::processLine(std::istream&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/gaussianfchk.cpp:209:32: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/gaussianfchk.cpp:226:23: warning: comparison of integer expressions of different signedness: 'std::vector<double>::size_type' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/gaussianfchk.cpp:227:34: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/gaussianfchk.cpp:229:36: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
[ 21%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/colorbutton.cpp.o
[ 21%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/containerwidget.cpp.o
[ 21%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/customelementdialog.cpp.o
[ 21%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/elementdetail_p.cpp.o
[ 21%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/elementitem_p.cpp.o
[ 22%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/elementtranslator.cpp.o
[ 22%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/extensionplugin.cpp.o
[ 22%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/filebrowsewidget.cpp.o
[ 22%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/fileformatdialog.cpp.o
[ 22%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/gaussiansetconcurrent.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtgui/extensionplugin.cpp: In member function 'virtual void Avogadro::QtGui::ExtensionPlugin::setCamera(Avogadro::Rendering::Camera*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtgui/extensionplugin.cpp:28:52: warning: unused parameter 'camera' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtgui/extensionplugin.cpp: In member function 'virtual void Avogadro::QtGui::ExtensionPlugin::setActiveWidget(QWidget*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtgui/extensionplugin.cpp:30:48: warning: unused parameter 'widget' [-Wunused-parameter]
[ 22%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/generichighlighter.cpp.o
[ 22%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/hydrogentools.cpp.o
[ 22%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/insertfragmentdialog.cpp.o
[ 23%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/interfacescript.cpp.o
[ 23%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/interfacewidget.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtgui/insertfragmentdialog.cpp: In constructor 'Avogadro::QtGui::InsertFragmentDialog::InsertFragmentDialog(QWidget*, QString)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtgui/insertfragmentdialog.cpp:84:10: warning: declaration of 'dir' shadows a previous local [-Wshadow]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtgui/insertfragmentdialog.cpp:80:8: note: shadowed declaration is here
[ 23%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/jsonwidget.cpp.o
[ 23%] Building CXX object avogadro/qtgui/CMakeFiles/QtGui.dir/layermodel.cpp.o
In file included from /usr/include/eigen3/Eigen/Core:257,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/matrix.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/crystaltools.h:13,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/nwchemjson.cpp:8:
In member function 'void Eigen::internal::mul_assign_op<DstScalar, SrcScalar>::assignCoeff(DstScalar&, const SrcScalar&) const [with DstScalar = double; SrcScalar = double]',
    inlined from 'void Eigen::internal::generic_dense_assignment_kernel<DstEvaluatorTypeT, SrcEvaluatorTypeT, Functor, Version>::assignCoeff(Eigen::Index, Eigen::Index) [with DstEvaluatorTypeT = Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >; SrcEvaluatorTypeT = Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >; Functor = Eigen::internal::mul_assign_op<double, double>; int Version = 0]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:654:26,
    inlined from 'void Eigen::internal::generic_dense_assignment_kernel<DstEvaluatorTypeT, SrcEvaluatorTypeT, Functor, Version>::assignCoeffByOuterInner(Eigen::Index, Eigen::Index) [with DstEvaluatorTypeT = Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >; SrcEvaluatorTypeT = Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >; Functor = Eigen::internal::mul_assign_op<double, double>; int Version = 0]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:668:16,
    inlined from 'static void Eigen::internal::copy_using_evaluator_DefaultTraversal_CompleteUnrolling<Kernel, Index, Stop>::run(Kernel&) [with Kernel = Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >, Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >, Eigen::internal::mul_assign_op<double, double>, 0>; int Index = 2; int Stop = 3]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:211:35,
    inlined from 'static void Eigen::internal::dense_assignment_loop<Kernel, 3, 2>::run(Kernel&) [with Kernel = Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >, Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >, Eigen::internal::mul_assign_op<double, double>, 0>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:456:92,
    inlined from 'void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Matrix<double, 3, 1>; SrcXprType = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Functor = mul_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:785:37,
    inlined from 'static void Eigen::internal::Assignment<DstXprType, SrcXprType, Functor, Eigen::internal::Dense2Dense, Weak>::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Matrix<double, 3, 1>; SrcXprType = Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Functor = Eigen::internal::mul_assign_op<double, double>; Weak = void]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:954:31,
    inlined from 'void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix<double, 3, 1>; Src = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Func = mul_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:890:49,
    inlined from 'void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing<Src>::value), void*>::type) [with Dst = Eigen::Matrix<double, 3, 1>; Src = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Func = mul_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:858:27,
    inlined from 'Derived& Eigen::DenseBase<Derived>::operator*=(const Scalar&) [with Derived = Eigen::Matrix<double, 3, 1>]' at /usr/include/eigen3/Eigen/src/Core/SelfCwiseBinaryOp.h:20:28,
    inlined from 'virtual bool Avogadro::QuantumIO::NWChemJson::read(std::istream&, Avogadro::Core::Molecule&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/nwchemjson.cpp:138:21:
/usr/include/eigen3/Eigen/src/Core/functors/AssignmentFunctors.h:92:71: warning: '*(double*)((char*)&position + offsetof(Eigen::Vector3, Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[2]))' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/nwchemjson.cpp: In member function 'virtual bool Avogadro::QuantumIO::NWChemJson::read(std::istream&, Avogadro::Core::Molecule&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/nwchemjson.cpp:133:15: note: '*(double*)((char*)&position + offsetof(Eigen::Vector3, Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[2]))' was declared here
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/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:690:16: warning: variable 'wavenumbers' set but not used [-Wunused-but-set-variable]
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:896:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<std::__cxx11::basic_string<char> >::size_type' {aka 'long unsigned int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:899:29: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long unsigned int'} [-Wsign-compare]
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/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:953:18: note: shadowed declaration is here
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/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:989:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long unsigned int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:995:31: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long unsigned int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:169:9: warning: variable 'vibScaling' set but not used [-Wunused-but-set-variable]
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/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:685:7: note: here
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/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:713:7: note: here
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:546:39: warning: '<anonymous>' may be used uninitialized [-Wmaybe-uninitialized]
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.h:10,
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/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:546:39: note: '<anonymous>' declared here
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:548:44: warning: '<anonymous>' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:244:8: note: by argument 2 of type 'const Avogadro::Core::Array<Eigen::Matrix<double, 3, 1> >::ValueType&' {aka 'const Eigen::Matrix<double, 3, 1>&'} to 'void Avogadro::Core::Array<T>::push_back(const ValueType&) [with T = Eigen::Matrix<double, 3, 1>]' declared here
/build/avogadrolibs/src/avogadrolibs/avogadro/quantumio/orca.cpp:548:61: note: '<anonymous>' declared here
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"SRC:/avogadro/qtplugins/forcefield/obmmenergy.cpp"
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[ 38%] Building CXX object avogadro/molequeue/CMakeFiles/MoleQueue.dir/molequeuewidget.cpp.o
[ 38%] Linking CXX static library ../../../lib/avogadro2/staticplugins/ApplyColors.a
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/bonding/bonding.cpp: In member function 'virtual bool Avogadro::QtPlugins::Bonding::handleCommand(const QString&, const QVariantMap&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/bonding/bonding.cpp:79:72: warning: unused parameter 'options' [-Wunused-parameter]
[ 38%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Bonding.a
[ 38%] Building CXX object avogadro/molequeue/CMakeFiles/MoleQueue.dir/client/client.cpp.o
[ 38%] Built target ApplyColors
[ 39%] Building CXX object avogadro/molequeue/CMakeFiles/MoleQueue.dir/client/jobobject.cpp.o
[ 39%] Built target Bonding
[ 40%] Generating ui_coordinateeditordialog.h
[ 40%] Building CXX object avogadro/qtplugins/coordinateeditor/CMakeFiles/CoordinateEditor.dir/CoordinateEditor_autogen/mocs_compilation.cpp.o
[ 40%] Building CXX object avogadro/qtplugins/configurepython/CMakeFiles/ConfigurePython.dir/condadialog.cpp.o
[ 40%] Building CXX object avogadro/qtplugins/configurepython/CMakeFiles/ConfigurePython.dir/configurepython.cpp.o
[ 40%] Building CXX object avogadro/qtplugins/configurepython/CMakeFiles/ConfigurePython.dir/configurepythondialog.cpp.o
[ 40%] Building CXX object avogadro/molequeue/CMakeFiles/MoleQueue.dir/client/jsonrpcclient.cpp.o
[ 40%] Building CXX object avogadro/qtplugins/coordinateeditor/CMakeFiles/CoordinateEditor.dir/coordinateeditor.cpp.o
[ 40%] Linking CXX shared library ../../lib/libAvogadroVtk.so
[ 40%] Building CXX object avogadro/qtplugins/configurepython/CMakeFiles/ConfigurePython.dir/ConfigurePythonPlugin.cpp.o
In file included from /usr/include/eigen3/Eigen/src/Core/util/ConfigureVectorization.h:392,
                 from /usr/include/eigen3/Eigen/Core:22,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/atom.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/bond.h:11,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.h:14,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtgui/molecule.h:15,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/centroid/centroid.cpp:9:
In function 'float64x2_t vld1q_f64(const float64_t*)',
    inlined from 'Packet Eigen::internal::ploadu(const typename unpacket_traits<T>::type*) [with Packet = __Float64x2_t]' at /usr/include/eigen3/Eigen/src/Core/arch/NEON/PacketMath.h:3816:19,
    inlined from 'Packet Eigen::internal::ploadt(const typename unpacket_traits<T>::type*) [with Packet = __Float64x2_t; int Alignment = 0]' at /usr/include/eigen3/Eigen/src/Core/GenericPacketMath.h:969:26,
    inlined from 'void Eigen::internal::div_assign_op<DstScalar, SrcScalar>::assignPacket(DstScalar*, const Packet&) const [with int Alignment = 0; Packet = __Float64x2_t; DstScalar = double; SrcScalar = double]' at /usr/include/eigen3/Eigen/src/Core/functors/AssignmentFunctors.h:117:102,
    inlined from 'void Eigen::internal::generic_dense_assignment_kernel<DstEvaluatorTypeT, SrcEvaluatorTypeT, Functor, Version>::assignPacket(Eigen::Index, Eigen::Index) [with int StoreMode = 0; int LoadMode = 16; PacketType = __Float64x2_t; DstEvaluatorTypeT = Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >; SrcEvaluatorTypeT = Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >; Functor = Eigen::internal::div_assign_op<double, double>; int Version = 0]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:675:47,
    inlined from 'void Eigen::internal::generic_dense_assignment_kernel<DstEvaluatorTypeT, SrcEvaluatorTypeT, Functor, Version>::assignPacketByOuterInner(Eigen::Index, Eigen::Index) [with int StoreMode = 0; int LoadMode = 16; PacketType = __Float64x2_t; DstEvaluatorTypeT = Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >; SrcEvaluatorTypeT = Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >; Functor = Eigen::internal::div_assign_op<double, double>; int Version = 0]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:689:48,
    inlined from 'static void Eigen::internal::copy_using_evaluator_innervec_CompleteUnrolling<Kernel, Index, Stop>::run(Kernel&) [with Kernel = Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >, Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >, Eigen::internal::div_assign_op<double, double>, 0>; int Index = 0; int Stop = 2]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:279:85,
    inlined from 'static void Eigen::internal::dense_assignment_loop<Kernel, 3, 2>::run(Kernel&) [with Kernel = Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >, Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >, Eigen::internal::div_assign_op<double, double>, 0>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:455:81,
    inlined from 'void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Matrix<double, 3, 1>; SrcXprType = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Functor = div_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:785:37,
    inlined from 'static void Eigen::internal::Assignment<DstXprType, SrcXprType, Functor, Eigen::internal::Dense2Dense, Weak>::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Matrix<double, 3, 1>; SrcXprType = Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Functor = Eigen::internal::div_assign_op<double, double>; Weak = void]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:954:31,
    inlined from 'void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix<double, 3, 1>; Src = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Func = div_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:890:49,
    inlined from 'void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing<Src>::value), void*>::type) [with Dst = Eigen::Matrix<double, 3, 1>; Src = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Func = div_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:858:27,
    inlined from 'Derived& Eigen::DenseBase<Derived>::operator/=(const Scalar&) [with Derived = Eigen::Matrix<double, 3, 1>]' at /usr/include/eigen3/Eigen/src/Core/SelfCwiseBinaryOp.h:41:28,
    inlined from 'void Avogadro::QtPlugins::Centroid::addCentroid()' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/centroid/centroid.cpp:71:13:
/usr/lib/gcc/aarch64-unknown-linux-gnu/14.2.1/include/arm_neon.h:12538:36: warning: '*(__Float64x2_t*)((char*)&center + offsetof(Eigen::Vector3, Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::MatrixBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 3>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 1>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 0>::<unnamed>))' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/centroid/centroid.cpp: In member function 'void Avogadro::QtPlugins::Centroid::addCentroid()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/centroid/centroid.cpp:58:11: note: 'center' declared here
In file included from /usr/include/eigen3/Eigen/Core:257:
In member function 'void Eigen::internal::div_assign_op<DstScalar, SrcScalar>::assignCoeff(DstScalar&, const SrcScalar&) const [with DstScalar = double; SrcScalar = double]',
    inlined from 'void Eigen::internal::generic_dense_assignment_kernel<DstEvaluatorTypeT, SrcEvaluatorTypeT, Functor, Version>::assignCoeff(Eigen::Index, Eigen::Index) [with DstEvaluatorTypeT = Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >; SrcEvaluatorTypeT = Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >; Functor = Eigen::internal::div_assign_op<double, double>; int Version = 0]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:654:26,
    inlined from 'void Eigen::internal::generic_dense_assignment_kernel<DstEvaluatorTypeT, SrcEvaluatorTypeT, Functor, Version>::assignCoeffByOuterInner(Eigen::Index, Eigen::Index) [with DstEvaluatorTypeT = Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >; SrcEvaluatorTypeT = Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >; Functor = Eigen::internal::div_assign_op<double, double>; int Version = 0]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:668:16,
    inlined from 'static void Eigen::internal::copy_using_evaluator_DefaultTraversal_CompleteUnrolling<Kernel, Index, Stop>::run(Kernel&) [with Kernel = Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >, Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >, Eigen::internal::div_assign_op<double, double>, 0>; int Index = 2; int Stop = 3]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:211:35,
    inlined from 'static void Eigen::internal::dense_assignment_loop<Kernel, 3, 2>::run(Kernel&) [with Kernel = Eigen::internal::generic_dense_assignment_kernel<Eigen::internal::evaluator<Eigen::Matrix<double, 3, 1> >, Eigen::internal::evaluator<Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> > >, Eigen::internal::div_assign_op<double, double>, 0>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:456:92,
    inlined from 'void Eigen::internal::call_dense_assignment_loop(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Matrix<double, 3, 1>; SrcXprType = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Functor = div_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:785:37,
    inlined from 'static void Eigen::internal::Assignment<DstXprType, SrcXprType, Functor, Eigen::internal::Dense2Dense, Weak>::run(DstXprType&, const SrcXprType&, const Functor&) [with DstXprType = Eigen::Matrix<double, 3, 1>; SrcXprType = Eigen::CwiseNullaryOp<Eigen::internal::scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Functor = Eigen::internal::div_assign_op<double, double>; Weak = void]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:954:31,
    inlined from 'void Eigen::internal::call_assignment_no_alias(Dst&, const Src&, const Func&) [with Dst = Eigen::Matrix<double, 3, 1>; Src = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Func = div_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:890:49,
    inlined from 'void Eigen::internal::call_assignment(Dst&, const Src&, const Func&, typename enable_if<(! evaluator_assume_aliasing<Src>::value), void*>::type) [with Dst = Eigen::Matrix<double, 3, 1>; Src = Eigen::CwiseNullaryOp<scalar_constant_op<double>, Eigen::Matrix<double, 3, 1> >; Func = div_assign_op<double, double>]' at /usr/include/eigen3/Eigen/src/Core/AssignEvaluator.h:858:27,
    inlined from 'Derived& Eigen::DenseBase<Derived>::operator/=(const Scalar&) [with Derived = Eigen::Matrix<double, 3, 1>]' at /usr/include/eigen3/Eigen/src/Core/SelfCwiseBinaryOp.h:41:28,
    inlined from 'void Avogadro::QtPlugins::Centroid::addCentroid()' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/centroid/centroid.cpp:71:13:
/usr/include/eigen3/Eigen/src/Core/functors/AssignmentFunctors.h:113:71: warning: 'center.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[2]' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/centroid/centroid.cpp: In member function 'void Avogadro::QtPlugins::Centroid::addCentroid()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/centroid/centroid.cpp:58:11: note: 'center' declared here
[ 40%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Centroid.a
[ 40%] Built target Centroid
[ 40%] Building CXX object avogadro/qtplugins/coordinateeditor/CMakeFiles/CoordinateEditor.dir/coordinateeditordialog.cpp.o
[ 40%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Cartoons.a
[ 40%] Linking CXX shared library ../../lib/libAvogadroMoleQueue.so
[ 40%] Building CXX object avogadro/qtplugins/copypaste/CMakeFiles/CopyPaste.dir/CopyPaste_autogen/mocs_compilation.cpp.o
[ 40%] Building CXX object avogadro/qtplugins/coordinateeditor/CMakeFiles/CoordinateEditor.dir/CoordinateEditorPlugin.cpp.o
[ 40%] Building CXX object avogadro/qtplugins/coordinateeditor/CMakeFiles/CoordinateEditor.dir/coordinatetextedit.cpp.o
[ 40%] Built target Cartoons
[ 40%] Generating ui_volumescalingdialog.h
[ 40%] Generating ui_importcrystaldialog.h
[ 40%] Generating ui_supercelldialog.h
[ 40%] Generating ui_unitcelldialog.h
[ 40%] Building CXX object avogadro/qtplugins/crystal/CMakeFiles/Crystal.dir/Crystal_autogen/mocs_compilation.cpp.o
[ 40%] Linking CXX static library ../../../lib/avogadro2/staticplugins/ConfigurePython.a
[ 40%] Built target ConfigurePython
[ 40%] Building CXX object avogadro/qtplugins/crystal/CMakeFiles/CrystalScene.dir/CrystalScene_autogen/mocs_compilation.cpp.o
[ 40%] Built target MoleQueue
[ 40%] Building CXX object avogadro/qtplugins/crystal/CMakeFiles/Crystal.dir/crystal.cpp.o
[ 40%] Built target Vtk
[ 40%] Building CXX object avogadro/qtplugins/customelements/CMakeFiles/CustomElements.dir/CustomElements_autogen/mocs_compilation.cpp.o
[ 40%] Building CXX object avogadro/qtplugins/copypaste/CMakeFiles/CopyPaste.dir/copypaste.cpp.o
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[ 40%] Building CXX object avogadro/qtplugins/copypaste/CMakeFiles/CopyPaste.dir/CopyPastePlugin.cpp.o
[ 41%] Building CXX object avogadro/qtplugins/crystal/CMakeFiles/Crystal.dir/importcrystaldialog.cpp.o
[ 41%] Building CXX object avogadro/qtplugins/crystal/CMakeFiles/Crystal.dir/supercelldialog.cpp.o
[ 42%] Building CXX object avogadro/qtplugins/crystal/CMakeFiles/CrystalScene.dir/crystalscene.cpp.o
[ 42%] Building CXX object avogadro/qtplugins/crystal/CMakeFiles/CrystalScene.dir/CrystalScenePlugin.cpp.o
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/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/crystal/crystal.cpp: In member function 'virtual bool Avogadro::QtPlugins::Crystal::handleCommand(const QString&, const QVariantMap&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/crystal/crystal.cpp:180:72: warning: unused parameter 'options' [-Wunused-parameter]
[ 42%] Building CXX object avogadro/qtplugins/crystal/CMakeFiles/Crystal.dir/unitcelldialog.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/coordinateeditor/coordinateeditordialog.cpp: In member function 'void Avogadro::QtPlugins::CoordinateEditorDialog::validateInputWorker()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/coordinateeditor/coordinateeditordialog.cpp:418:15: warning: unused variable 'index' [-Wunused-variable]
In copy constructor '{anonymous}::AtomStruct::AtomStruct(const {anonymous}::AtomStruct&)',
    inlined from 'void QVector<T>::append(const T&) [with T = {anonymous}::AtomStruct]' at /usr/include/qt/QtCore/qvector.h:793:13,
    inlined from 'QVector<T>& QVector<T>::operator<<(const T&) [with T = {anonymous}::AtomStruct]' at /usr/include/qt/QtCore/qvector.h:293:13,
    inlined from 'void Avogadro::QtPlugins::CoordinateEditorDialog::validateInputWorker()' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/coordinateeditor/coordinateeditordialog.cpp:514:28:
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/coordinateeditor/coordinateeditordialog.cpp:97:8: warning: 'atom.{anonymous}::AtomStruct::atomicNumber' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/coordinateeditor/coordinateeditordialog.cpp: In member function 'void Avogadro::QtPlugins::CoordinateEditorDialog::validateInputWorker()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/coordinateeditor/coordinateeditordialog.cpp:345:16: note: 'atom.{anonymous}::AtomStruct::atomicNumber' was declared here
[ 42%] Linking CXX static library ../../../lib/avogadro2/staticplugins/CoordinateEditor.a
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[ 42%] Building CXX object avogadro/qtplugins/dipole/CMakeFiles/Dipole.dir/Dipole_autogen/mocs_compilation.cpp.o
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[ 43%] Building CXX object avogadro/qtplugins/dipole/CMakeFiles/Dipole.dir/DipolePlugin.cpp.o
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[ 43%] Building CXX object avogadro/qtplugins/crystal/CMakeFiles/Crystal.dir/volumescalingdialog.cpp.o
[ 43%] Built target Editor_autogen_timestamp_deps
[ 43%] Building CXX object avogadro/qtplugins/crystal/CMakeFiles/Crystal.dir/CrystalPlugin.cpp.o
[ 43%] Building CXX object avogadro/qtplugins/fetchpdb/CMakeFiles/FetchPDB.dir/FetchPDB_autogen/mocs_compilation.cpp.o
[ 43%] Generating ui_forcefielddialog.h
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[ 43%] Building CXX object avogadro/qtplugins/fetchpdb/CMakeFiles/FetchPDB.dir/fetchpdb.cpp.o
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[ 43%] Building CXX object avogadro/qtplugins/fetchpdb/CMakeFiles/FetchPDB.dir/FetchPDBPlugin.cpp.o
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[ 44%] Building CXX object avogadro/qtplugins/importpqr/CMakeFiles/ImportPQR.dir/ImportPQR_autogen/mocs_compilation.cpp.o
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/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/dipole/dipole.cpp: In member function 'virtual void Avogadro::QtPlugins::Dipole::process(const Avogadro::QtGui::Molecule&, Avogadro::Rendering::GroupNode&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/dipole/dipole.cpp:39:28: warning: comparison of unsigned expression in '< 0' is always false [-Wtype-limits]
[ 44%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Dipole.a
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[ 45%] Building CXX object avogadro/qtplugins/hydrogens/CMakeFiles/Hydrogens.dir/HydrogensPlugin.cpp.o
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[ 45%] Built target Crystal
[ 45%] Building CXX object avogadro/qtplugins/importpqr/CMakeFiles/ImportPQR.dir/pqrwidget.cpp.o
[ 46%] Generating ui_insertdnadialog.h
[ 46%] Building CXX object avogadro/qtplugins/insertdna/CMakeFiles/NucleicInput.dir/NucleicInput_autogen/mocs_compilation.cpp.o
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[ 46%] Building CXX object avogadro/qtplugins/insertfragment/CMakeFiles/InsertFragment.dir/insertfragment.cpp.o
[ 47%] Building CXX object avogadro/qtplugins/forcefield/CMakeFiles/Forcefield.dir/obmmenergy.cpp.o
[ 47%] Building CXX object avogadro/qtplugins/insertdna/CMakeFiles/NucleicInput.dir/insertdna.cpp.o
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[ 47%] Building CXX object avogadro/qtplugins/forcefield/CMakeFiles/Forcefield.dir/ForcefieldPlugin.cpp.o
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[ 47%] Building CXX object avogadro/qtplugins/label/CMakeFiles/Label.dir/Label_autogen/mocs_compilation.cpp.o
[ 48%] Building CXX object avogadro/qtplugins/label/CMakeFiles/Label.dir/label.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:8:
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h: In member function 'virtual bool Avogadro::Calc::EnergyCalculator::setConfiguration(Avogadro::Core::VariantMap&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h:54:51: warning: unused parameter 'config' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp: In member function 'void Avogadro::QtPlugins::Forcefield::optimize()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:271:25: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:335:12: warning: declaration of 'isFinite' shadows a previous local [-Wshadow]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:332:10: note: shadowed declaration is here
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:337:19: warning: declaration of 'i' shadows a previous local [-Wshadow]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:314:21: note: shadowed declaration is here
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:337:28: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:335:12: warning: variable 'isFinite' set but not used [-Wunused-but-set-variable]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp: In member function 'void Avogadro::QtPlugins::Forcefield::forces()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:424:25: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:444:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp: In member function 'void Avogadro::QtPlugins::Forcefield::freezeSelected()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:495:23: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp: In member function 'void Avogadro::QtPlugins::Forcefield::unfreezeSelected()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:509:23: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/forcefield.cpp:27:
/build/avogadrolibs/src/build/avogadro/qtgui/avogadropython.h: At global scope:
/build/avogadrolibs/src/build/avogadro/qtgui/avogadropython.h:2:20: warning: 'Avogadro::pythonInterpreterPath' defined but not used [-Wunused-variable]
[ 48%] Building CXX object avogadro/qtplugins/label/CMakeFiles/Label.dir/LabelPlugin.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/insertfragment/insertfragment.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/insertfragment/insertfragment.h: In constructor 'Avogadro::QtPlugins::InsertFragment::InsertFragment(QObject*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/insertfragment/insertfragment.h:50:32: warning: 'Avogadro::QtPlugins::InsertFragment::m_crystalDialog' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/insertfragment/insertfragment.h:49:32: warning:   'Avogadro::QtGui::InsertFragmentDialog* Avogadro::QtPlugins::InsertFragment::m_moleculeDialog' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/insertfragment/insertfragment.cpp:28:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/insertfragment/insertfragment.h:55:19: warning: 'Avogadro::QtPlugins::InsertFragment::m_reader' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/insertfragment/insertfragment.h:54:20: warning:   'Avogadro::QtGui::Molecule* Avogadro::QtPlugins::InsertFragment::m_molecule' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/insertfragment/insertfragment.cpp:28:1: warning:   when initialized here [-Wreorder]
[ 48%] Building CXX object avogadro/qtplugins/insertfragment/CMakeFiles/InsertFragment.dir/InsertFragmentPlugin.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h: In member function 'virtual bool Avogadro::Calc::EnergyCalculator::setConfiguration(Avogadro::Core::VariantMap&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h:54:51: warning: unused parameter 'config' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.h: In constructor 'Avogadro::QtPlugins::OBMMEnergy::OBMMEnergy(const std::string&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.h:86:15: warning: 'Avogadro::QtPlugins::OBMMEnergy::m_name' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.h:81:13: warning:   'QProcess* Avogadro::QtPlugins::OBMMEnergy::m_process' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.cpp:20:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.h:81:13: warning: 'Avogadro::QtPlugins::OBMMEnergy::m_process' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.h:79:19: warning:   'Avogadro::Core::Molecule* Avogadro::QtPlugins::OBMMEnergy::m_molecule' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.cpp:20:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.cpp: In member function 'virtual Avogadro::Real Avogadro::QtPlugins::OBMMEnergy::value(const Eigen::VectorXd&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.cpp:235:23: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'Eigen::EigenBase<Eigen::Matrix<double, -1, 1> >::Index' {aka 'long int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.cpp: In member function 'virtual void Avogadro::QtPlugins::OBMMEnergy::gradient(const Eigen::VectorXd&, Eigen::VectorXd&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/obmmenergy.cpp:269:23: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'Eigen::EigenBase<Eigen::Matrix<double, -1, 1> >::Index' {aka 'long int'} [-Wsign-compare]
[ 48%] Built target LabelEditor_autogen_timestamp_deps
[ 48%] Generating ui_lammpsinputdialog.h
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/lammpsinput/lammpsinputdialog.ui: Warning: Tab-stop assignment: 'moreButton' is not a valid widget.
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/lammpsinput/lammpsinputdialog.ui: Warning: Tab-stop assignment: 'previewText' is not a valid widget.
[ 48%] Building CXX object avogadro/qtplugins/lammpsinput/CMakeFiles/LammpsInput.dir/LammpsInput_autogen/mocs_compilation.cpp.o
[ 48%] Linking CXX static library ../../../lib/avogadro2/staticplugins/ImportPQR.a
[ 48%] Built target ImportPQR
[ 48%] Building CXX object avogadro/qtplugins/lammpsinput/CMakeFiles/LammpsInput.dir/lammpsinputdialog.cpp.o
[ 49%] Building CXX object avogadro/qtplugins/lammpsinput/CMakeFiles/LammpsInput.dir/lammpsinput.cpp.o
[ 49%] Linking CXX static library ../../../lib/avogadro2/staticplugins/InsertFragment.a
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/scriptenergy.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/scriptenergy.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h: In member function 'virtual bool Avogadro::Calc::EnergyCalculator::setConfiguration(Avogadro::Core::VariantMap&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/calc/energycalculator.h:54:51: warning: unused parameter 'config' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/scriptenergy.h: In constructor 'Avogadro::QtPlugins::ScriptEnergy::ScriptEnergy(const QString&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/scriptenergy.h:92:8: warning: 'Avogadro::QtPlugins::ScriptEnergy::m_valid' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/scriptenergy.h:87:10: warning:   'Avogadro::QtPlugins::ScriptEnergy::Format Avogadro::QtPlugins::ScriptEnergy::m_inputFormat' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/scriptenergy.cpp:32:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/scriptenergy.cpp: In member function 'virtual Avogadro::Real Avogadro::QtPlugins::ScriptEnergy::value(const Eigen::VectorXd&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/scriptenergy.cpp:119:23: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'Eigen::EigenBase<Eigen::Matrix<double, -1, 1> >::Index' {aka 'long int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/scriptenergy.cpp: In member function 'virtual void Avogadro::QtPlugins::ScriptEnergy::gradient(const Eigen::VectorXd&, Eigen::VectorXd&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/forcefield/scriptenergy.cpp:155:23: warning: comparison of integer expressions of different signedness: 'Avogadro::Index' {aka 'long unsigned int'} and 'Eigen::EigenBase<Eigen::Matrix<double, -1, 1> >::Index' {aka 'long int'} [-Wsign-compare]
[ 49%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Forcefield.a
[ 49%] Built target InsertFragment
[ 49%] Generating ui_lineformatinputdialog.h
[ 49%] Building CXX object avogadro/qtplugins/lineformatinput/CMakeFiles/LineFormatInput.dir/LineFormatInput_autogen/mocs_compilation.cpp.o
[ 49%] Built target Manipulator_autogen_timestamp_deps
[ 49%] Building CXX object avogadro/qtplugins/lammpsinput/CMakeFiles/LammpsInput.dir/LammpsInputPlugin.cpp.o
[ 49%] Built target Forcefield
[ 49%] Built target MeasureTool_autogen_timestamp_deps
[ 49%] Building CXX object avogadro/qtplugins/lineformatinput/CMakeFiles/LineFormatInput.dir/lineformatinput.cpp.o
[ 49%] Building CXX object avogadro/qtplugins/molecularproperties/CMakeFiles/MolecularProperties.dir/MolecularProperties_autogen/mocs_compilation.cpp.o
[ 49%] Building CXX object avogadro/qtplugins/molecularproperties/CMakeFiles/MolecularProperties.dir/molecularproperties.cpp.o
[ 49%] Linking CXX static library ../../../lib/avogadro2/staticplugins/NucleicInput.a
[ 49%] Building CXX object avogadro/qtplugins/molecularproperties/CMakeFiles/MolecularProperties.dir/molecularmodel.cpp.o
[ 49%] Built target NucleicInput
[ 50%] Building CXX object avogadro/qtplugins/molecularproperties/CMakeFiles/MolecularProperties.dir/molecularview.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/label/label.cpp: In member function 'void Avogadro::QtPlugins::LayerLabel::setupWidget(Avogadro::QtPlugins::Label*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/label/label.cpp:225:16: warning: declaration of 'val' shadows a previous local [-Wshadow]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/label/label.cpp:176:12: note: shadowed declaration is here
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/label/label.cpp:226:23: warning: declaration of 'text' shadows a previous local [-Wshadow]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/label/label.cpp:177:19: note: shadowed declaration is here
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/label/label.cpp:176:12: warning: unused variable 'val' [-Wunused-variable]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/label/label.cpp: In member function 'void Avogadro::QtPlugins::Label::processBond(const Avogadro::Core::Molecule&, Avogadro::Rendering::GroupNode&, size_t)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/label/label.cpp:419:60: warning: unused parameter 'layer' [-Wunused-parameter]
[ 50%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Label.a
[ 50%] Built target Label
[ 50%] Building CXX object avogadro/qtplugins/lineformatinput/CMakeFiles/LineFormatInput.dir/lineformatinputdialog.cpp.o
[ 50%] Building CXX object avogadro/qtplugins/lineformatinput/CMakeFiles/LineFormatInput.dir/LineFormatInputPlugin.cpp.o
[ 50%] Built target Navigator_autogen_timestamp_deps
[ 50%] Building CXX object avogadro/qtplugins/molecularproperties/CMakeFiles/MolecularProperties.dir/MolecularPropertiesPlugin.cpp.o
[ 50%] Building CXX object avogadro/qtplugins/networkdatabases/CMakeFiles/NetworkDatabases.dir/NetworkDatabases_autogen/mocs_compilation.cpp.o
[ 50%] Building CXX object avogadro/qtplugins/networkdatabases/CMakeFiles/NetworkDatabases.dir/networkdatabases.cpp.o
[ 51%] Linking CXX static library ../../../lib/avogadro2/staticplugins/LineFormatInput.a
[ 51%] Built target LineFormatInput
[ 51%] Building CXX object avogadro/qtplugins/networkdatabases/CMakeFiles/NetworkDatabases.dir/NetworkDatabasesPlugin.cpp.o
[ 51%] Linking CXX static library ../../../lib/avogadro2/staticplugins/LammpsInput.a
[ 52%] Generating ui_obforcefielddialog.h
[ 52%] Built target LammpsInput
[ 52%] Generating ui_openmminputdialog.h
[ 52%] Generating ui_conformersearchdialog.h
[ 52%] Building CXX object avogadro/qtplugins/openbabel/CMakeFiles/OpenBabel.dir/OpenBabel_autogen/mocs_compilation.cpp.o
[ 52%] Building CXX object avogadro/qtplugins/openmminput/CMakeFiles/OpenMMInput.dir/OpenMMInput_autogen/mocs_compilation.cpp.o
[ 52%] Building CXX object avogadro/qtplugins/openmminput/CMakeFiles/OpenMMInput.dir/openmminputdialog.cpp.o
[ 52%] Built target PlayerTool_autogen_timestamp_deps
[ 52%] Building CXX object avogadro/qtplugins/ply/CMakeFiles/PLY.dir/PLY_autogen/mocs_compilation.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/molecularproperties/molecularview.cpp: In member function 'virtual void Avogadro::MolecularView::selectionChanged(const QItemSelection&, const QItemSelection&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/molecularproperties/molecularview.cpp:56:60: warning: unused parameter 'selected' [-Wunused-parameter]
[ 52%] Building CXX object avogadro/qtplugins/ply/CMakeFiles/PLY.dir/ply.cpp.o
[ 53%] Building CXX object avogadro/qtplugins/openmminput/CMakeFiles/OpenMMInput.dir/openmminput.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/molecularproperties/molecularmodel.cpp: In member function 'virtual QVariant Avogadro::MolecularModel::data(const QModelIndex&, int) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/molecularproperties/molecularmodel.cpp:225:7: warning: unused variable 'col' [-Wunused-variable]
[ 53%] Linking CXX static library ../../../lib/avogadro2/staticplugins/MolecularProperties.a
[ 53%] Building CXX object avogadro/qtplugins/ply/CMakeFiles/PLY.dir/PLYPlugin.cpp.o
[ 53%] Building CXX object avogadro/qtplugins/openmminput/CMakeFiles/OpenMMInput.dir/OpenMMInputPlugin.cpp.o
[ 53%] Built target MolecularProperties
[ 54%] Building CXX object avogadro/qtplugins/povray/CMakeFiles/POVRay.dir/POVRay_autogen/mocs_compilation.cpp.o
[ 54%] Building CXX object avogadro/qtplugins/openbabel/CMakeFiles/OpenBabel.dir/conformersearchdialog.cpp.o
[ 54%] Building CXX object avogadro/qtplugins/openbabel/CMakeFiles/OpenBabel.dir/obcharges.cpp.o
[ 54%] Building CXX object avogadro/qtplugins/povray/CMakeFiles/POVRay.dir/povray.cpp.o
[ 55%] Linking CXX static library ../../../lib/avogadro2/staticplugins/NetworkDatabases.a
[ 55%] Building CXX object avogadro/qtplugins/propertytables/CMakeFiles/PropertyTables.dir/PropertyTables_autogen/mocs_compilation.cpp.o
[ 55%] Built target NetworkDatabases
[ 55%] Building CXX object avogadro/qtplugins/povray/CMakeFiles/POVRay.dir/POVRayPlugin.cpp.o
[ 55%] Built target ResetView_autogen_timestamp_deps
[ 55%] Building CXX object avogadro/qtplugins/openbabel/CMakeFiles/OpenBabel.dir/obfileformat.cpp.o
[ 55%] Linking CXX static library ../../../lib/avogadro2/staticplugins/PLY.a
[ 55%] Building CXX object avogadro/qtplugins/openbabel/CMakeFiles/OpenBabel.dir/obforcefielddialog.cpp.o
[ 55%] Built target PLY
[ 55%] Building CXX object avogadro/qtplugins/propertytables/CMakeFiles/PropertyTables.dir/propertytables.cpp.o
[ 55%] Building CXX object avogadro/qtplugins/propertytables/CMakeFiles/PropertyTables.dir/propertymodel.cpp.o
[ 55%] Linking CXX static library ../../../lib/avogadro2/staticplugins/OpenMMInput.a
[ 55%] Linking CXX static library ../../../lib/avogadro2/staticplugins/POVRay.a
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/openbabel/obcharges.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/openbabel/obcharges.h: In constructor 'Avogadro::QtPlugins::OBCharges::OBCharges(const std::string&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/openbabel/obcharges.h:66:15: warning: 'Avogadro::QtPlugins::OBCharges::m_identifier' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/openbabel/obcharges.cpp:65:77: warning:   base 'Avogadro::Calc::ChargeModel' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/openbabel/obcharges.cpp:65:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/openbabel/obcharges.cpp: In member function 'virtual Avogadro::MatrixX Avogadro::QtPlugins::OBCharges::partialCharges(const Avogadro::Core::Molecule&) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/openbabel/obcharges.cpp:172:22: warning: comparison of integer expressions of different signedness: 'Eigen::Index' {aka 'long int'} and 'Avogadro::Index' {aka 'long unsigned int'} [-Wsign-compare]
[ 56%] Building CXX object avogadro/qtplugins/propertytables/CMakeFiles/PropertyTables.dir/propertyview.cpp.o
[ 56%] Built target POVRay
[ 56%] Built target OpenMMInput
[ 56%] Building CXX object avogadro/qtplugins/select/CMakeFiles/Select.dir/Select_autogen/mocs_compilation.cpp.o
[ 56%] Built target Selection_autogen_timestamp_deps
[ 56%] Building CXX object avogadro/qtplugins/select/CMakeFiles/Select.dir/select.cpp.o
[ 56%] Building CXX object avogadro/qtplugins/select/CMakeFiles/Select.dir/SelectPlugin.cpp.o
[ 56%] Building CXX object avogadro/qtplugins/propertytables/CMakeFiles/PropertyTables.dir/PropertyTablesPlugin.cpp.o
[ 56%] Building CXX object avogadro/qtplugins/spacegroup/CMakeFiles/SpaceGroup.dir/SpaceGroup_autogen/mocs_compilation.cpp.o
[ 56%] Building CXX object avogadro/qtplugins/openbabel/CMakeFiles/OpenBabel.dir/obprocess.cpp.o
[ 56%] Building CXX object avogadro/qtplugins/spacegroup/CMakeFiles/SpaceGroup.dir/spacegroup.cpp.o
[ 56%] Built target Surfaces_autogen_timestamp_deps
[ 56%] Building CXX object avogadro/qtplugins/spacegroup/CMakeFiles/SpaceGroup.dir/SpaceGroupPlugin.cpp.o
[ 56%] Built target Orbitals_autogen_timestamp_deps
[ 56%] Built target SVG_autogen_timestamp_deps
[ 57%] Building CXX object avogadro/qtplugins/openbabel/CMakeFiles/OpenBabel.dir/openbabel.cpp.o
[ 57%] Built target TemplateTool_autogen_timestamp_deps
[ 57%] Generating ui_vibrationdialog.h
[ 57%] Building CXX object avogadro/qtplugins/vibrations/CMakeFiles/Vibrations.dir/Vibrations_autogen/mocs_compilation.cpp.o
[ 57%] Building CXX object avogadro/qtplugins/vibrations/CMakeFiles/Vibrations.dir/vibrationdialog.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/propertytables/propertyview.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/propertytables/propertyview.h: In constructor 'Avogadro::PropertyView::PropertyView(Avogadro::PropertyType, QWidget*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/propertytables/propertyview.h:39:20: warning: 'Avogadro::PropertyView::m_molecule' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/propertytables/propertyview.h:38:16: warning:   'Avogadro::PropertyType Avogadro::PropertyView::m_type' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/propertytables/propertyview.cpp:38:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/propertytables/propertyview.cpp: In member function 'virtual void Avogadro::PropertyView::selectionChanged(const QItemSelection&, const QItemSelection&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/propertytables/propertyview.cpp:116:18: warning: comparison of integer expressions of different signedness: 'int' and 'Avogadro::Index' {aka 'long unsigned int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/propertytables/propertyview.cpp:121:18: warning: comparison of integer expressions of different signedness: 'int' and 'Avogadro::Index' {aka 'long unsigned int'} [-Wsign-compare]
[ 57%] Building CXX object avogadro/qtplugins/vrml/CMakeFiles/VRML.dir/VRML_autogen/mocs_compilation.cpp.o
[ 57%] Building CXX object avogadro/qtplugins/vrml/CMakeFiles/VRML.dir/vrml.cpp.o
[ 57%] Linking CXX static library ../../../lib/avogadro2/staticplugins/PropertyTables.a
[ 57%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Select.a
[ 57%] Built target PropertyTables
[ 57%] Built target ColorOpacityMap_autogen_timestamp_deps
[ 57%] Built target Select
[ 57%] Building CXX object avogadro/qtplugins/vrml/CMakeFiles/VRML.dir/VRMLPlugin.cpp.o
[ 57%] Built target Spectra_autogen_timestamp_deps
[ 57%] Building CXX object avogadro/qtplugins/openbabel/CMakeFiles/OpenBabel.dir/OpenBabelPlugin.cpp.o
[ 57%] Building CXX object avogadro/qtplugins/vibrations/CMakeFiles/Vibrations.dir/vibrationmodel.cpp.o
[ 58%] Building CXX object avogadro/qtplugins/vibrations/CMakeFiles/Vibrations.dir/vibrations.cpp.o
[ 58%] Building CXX object avogadro/qtplugins/vibrations/CMakeFiles/Vibrations.dir/VibrationsPlugin.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spacegroup/spacegroup.cpp: In member function 'virtual bool Avogadro::QtPlugins::SpaceGroup::handleCommand(const QString&, const QVariantMap&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spacegroup/spacegroup.cpp:120:51: warning: unused parameter 'options' [-Wunused-parameter]
[ 58%] Linking CXX static library ../../../lib/avogadro2/staticplugins/SpaceGroup.a
[ 58%] Built target PlotPdf_autogen_timestamp_deps
[ 58%] Built target PlotRmsd_autogen_timestamp_deps
[ 58%] Built target PlotXrd_autogen_timestamp_deps
[ 58%] Built target Yaehmop_autogen_timestamp_deps
[ 58%] Building CXX object avogadro/qtplugins/commandscripts/CMakeFiles/commands.dir/commands_autogen/mocs_compilation.cpp.o
[ 58%] Built target SpaceGroup
[ 58%] Built target QuantumInput_autogen_timestamp_deps
[ 58%] Building CXX object avogadro/qtplugins/commandscripts/CMakeFiles/commands.dir/command.cpp.o
[ 58%] Building CXX object avogadro/qtplugins/scriptcharges/CMakeFiles/ScriptCharges.dir/ScriptCharges_autogen/mocs_compilation.cpp.o
[ 58%] Building CXX object avogadro/qtplugins/scriptcharges/CMakeFiles/ScriptCharges.dir/scriptchargemodel.cpp.o
[ 58%] Building CXX object avogadro/qtplugins/scriptcharges/CMakeFiles/ScriptCharges.dir/scriptcharges.cpp.o
[ 58%] Linking CXX static library ../../../lib/avogadro2/staticplugins/VRML.a
[ 58%] Building CXX object avogadro/qtplugins/commandscripts/CMakeFiles/commands.dir/commandsPlugin.cpp.o
[ 58%] Built target VRML
[ 59%] Building CXX object avogadro/qtplugins/scriptcharges/CMakeFiles/ScriptCharges.dir/ScriptChargesPlugin.cpp.o
[ 59%] Building CXX object avogadro/qtplugins/scriptfileformats/CMakeFiles/ScriptFileFormats.dir/ScriptFileFormats_autogen/mocs_compilation.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/openbabel/openbabel.cpp: In member function 'void Avogadro::QtPlugins::OpenBabel::onGenerateConformersFinished(const QByteArray&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/openbabel/openbabel.cpp:714:24: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
[ 59%] Linking CXX static library ../../../lib/avogadro2/staticplugins/OpenBabel.a
[ 59%] Building CXX object avogadro/qtplugins/scriptfileformats/CMakeFiles/ScriptFileFormats.dir/scriptfileformats.cpp.o
[ 59%] Building CXX object avogadro/qtplugins/scriptfileformats/CMakeFiles/ScriptFileFormats.dir/fileformatscript.cpp.o
[ 59%] Built target OpenBabel
[ 59%] Building CXX object avogadro/qtplugins/scriptfileformats/CMakeFiles/ScriptFileFormats.dir/ScriptFileFormatsPlugin.cpp.o
[ 59%] Generating ui_downloaderwidget.h
[ 59%] Building CXX object avogadro/qtplugins/plugindownloader/CMakeFiles/PluginDownloader.dir/PluginDownloader_autogen/mocs_compilation.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/vibrations/vibrations.cpp: In member function 'void Avogadro::QtPlugins::Vibrations::moleculeChanged(unsigned int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/vibrations/vibrations.cpp:70:47: warning: unused parameter 'changes' [-Wunused-parameter]
[ 59%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Vibrations.a
[ 59%] Built target Vibrations
[ 59%] Generating ui_symmetrywidget.h
[ 60%] Building CXX object avogadro/qtplugins/symmetry/CMakeFiles/Symmetry.dir/Symmetry_autogen/mocs_compilation.cpp.o
[ 60%] Building CXX object avogadro/qtplugins/symmetry/CMakeFiles/Symmetry.dir/symmetry.cpp.o
[ 60%] Building CXX object avogadro/qtplugins/symmetry/CMakeFiles/Symmetry.dir/symmetrywidget.cpp.o
[ 60%] Building CXX object avogadro/qtplugins/plugindownloader/CMakeFiles/PluginDownloader.dir/plugindownloader.cpp.o
[ 61%] Linking CXX static library ../../../lib/avogadro2/staticplugins/commands.a
[ 61%] Built target commands
[ 62%] Building CXX object avogadro/qtplugins/symmetry/CMakeFiles/SymmetryScene.dir/SymmetryScene_autogen/mocs_compilation.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/scriptcharges/scriptchargemodel.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/scriptcharges/scriptchargemodel.h: In constructor 'Avogadro::QtPlugins::ScriptChargeModel::ScriptChargeModel(const QString&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/scriptcharges/scriptchargemodel.h:88:8: warning: 'Avogadro::QtPlugins::ScriptChargeModel::m_electrostatics' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/scriptcharges/scriptchargemodel.h:84:10: warning:   'Avogadro::QtPlugins::ScriptChargeModel::Format Avogadro::QtPlugins::ScriptChargeModel::m_inputFormat' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/scriptcharges/scriptchargemodel.cpp:29:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/scriptcharges/scriptchargemodel.cpp: In member function 'virtual Avogadro::MatrixX Avogadro::QtPlugins::ScriptChargeModel::partialCharges(const Avogadro::Core::Molecule&) const':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/scriptcharges/scriptchargemodel.cpp:96:30: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
[ 62%] Linking CXX static library ../../../lib/avogadro2/staticplugins/ScriptCharges.a
[ 62%] Building CXX object avogadro/qtplugins/plugindownloader/CMakeFiles/PluginDownloader.dir/downloaderwidget.cpp.o
[ 62%] Built target ScriptCharges
[ 63%] Building CXX object avogadro/qtplugins/plugindownloader/CMakeFiles/PluginDownloader.dir/zipextracter.cpp.o
[ 63%] Building CXX object avogadro/qtplugins/plugindownloader/CMakeFiles/PluginDownloader.dir/PluginDownloaderPlugin.cpp.o
[ 63%] Building CXX object avogadro/qtplugins/symmetry/CMakeFiles/SymmetryScene.dir/symmetryscene.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/plugindownloader/zipextracter.cpp: In member function 'QList<QString> Avogadro::QtPlugins::ZipExtracter::extract(std::string, std::string)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/plugindownloader/zipextracter.cpp:110:8: warning: unused variable 'itrCount' [-Wunused-variable]
[ 63%] Building CXX object avogadro/qtplugins/symmetry/CMakeFiles/SymmetryScene.dir/SymmetryScenePlugin.cpp.o
[ 64%] Linking CXX static library ../../../lib/avogadro2/staticplugins/ScriptFileFormats.a
[ 64%] Building CXX object avogadro/qtplugins/symmetry/CMakeFiles/Symmetry.dir/operationstablemodel.cpp.o
[ 64%] Built target ScriptFileFormats
[ 64%] Building CXX object avogadro/qtplugins/ballandstick/CMakeFiles/BallStick.dir/BallStick_autogen/mocs_compilation.cpp.o
[ 64%] Building CXX object avogadro/qtplugins/ballandstick/CMakeFiles/BallStick.dir/ballandstick.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetry.cpp: In member function 'void Avogadro::QtPlugins::Symmetry::symmetrizeMolecule()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetry.cpp:360:15: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
[ 64%] Building CXX object avogadro/qtplugins/closecontacts/CMakeFiles/CloseContacts.dir/CloseContacts_autogen/mocs_compilation.cpp.o
[ 64%] Building CXX object avogadro/qtplugins/force/CMakeFiles/Force.dir/Force_autogen/mocs_compilation.cpp.o
[ 64%] Building CXX object avogadro/qtplugins/force/CMakeFiles/Force.dir/force.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.h: In constructor 'Avogadro::QtPlugins::SymmetryWidget::SymmetryWidget(QWidget*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.h:87:20: warning: 'Avogadro::QtPlugins::SymmetryWidget::m_molecule' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.h:84:23: warning:   'QStandardItemModel* Avogadro::QtPlugins::SymmetryWidget::m_equivalenceTreeModel' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp:65:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp: In member function 'void Avogadro::QtPlugins::SymmetryWidget::moleculeChanged(unsigned int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp:126:51: warning: unused parameter 'changes' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp: In member function 'void Avogadro::QtPlugins::SymmetryWidget::operationsSelectionChanged(const QItemSelection&, const QItemSelection&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp:171:29: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp:134:25: warning: unused parameter 'selected' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp:134:57: warning: unused parameter 'deselected' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp: In member function 'void Avogadro::QtPlugins::SymmetryWidget::subgroupsSelectionChanged(const QItemSelection&, const QItemSelection&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp:207:70: warning: unused parameter 'selected' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp:208:70: warning: unused parameter 'deselected' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp: In member function 'void Avogadro::QtPlugins::SymmetryWidget::equivalenceSelectionChanged(const QItemSelection&, const QItemSelection&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp:251:25: warning: unused parameter 'selected' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/symmetry/symmetrywidget.cpp:251:57: warning: unused parameter 'deselected' [-Wunused-parameter]
[ 64%] Building CXX object avogadro/qtplugins/symmetry/CMakeFiles/Symmetry.dir/symmetryutil.cpp.o
[ 64%] Building CXX object avogadro/qtplugins/symmetry/CMakeFiles/Symmetry.dir/SymmetryPlugin.cpp.o
[ 64%] Building CXX object avogadro/qtplugins/ballandstick/CMakeFiles/BallStick.dir/BallStickPlugin.cpp.o
[ 65%] Building CXX object avogadro/qtplugins/force/CMakeFiles/Force.dir/ForcePlugin.cpp.o
[ 65%] Linking CXX static library ../../../lib/avogadro2/staticplugins/SymmetryScene.a
[ 65%] Built target SymmetryScene
[ 65%] Building CXX object avogadro/qtplugins/closecontacts/CMakeFiles/CloseContacts.dir/closecontacts.cpp.o
[ 65%] Building CXX object avogadro/qtplugins/closecontacts/CMakeFiles/CloseContacts.dir/CloseContactsPlugin.cpp.o
[ 65%] Building CXX object avogadro/qtplugins/licorice/CMakeFiles/Licorice.dir/Licorice_autogen/mocs_compilation.cpp.o
[ 65%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Symmetry.a
[ 65%] Building CXX object avogadro/qtplugins/meshes/CMakeFiles/Meshes.dir/Meshes_autogen/mocs_compilation.cpp.o
[ 65%] Built target Symmetry
[ 65%] Building CXX object avogadro/qtplugins/noncovalent/CMakeFiles/NonCovalent.dir/NonCovalent_autogen/mocs_compilation.cpp.o
[ 65%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Force.a
[ 65%] Building CXX object avogadro/qtplugins/licorice/CMakeFiles/Licorice.dir/licorice.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/plugindownloader/downloaderwidget.cpp: In member function 'void Avogadro::QtPlugins::DownloaderWidget::downloadREADME(int, int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/plugindownloader/downloaderwidget.cpp:182:52: warning: unused parameter 'col' [-Wunused-parameter]
[ 65%] Linking CXX static library ../../../lib/avogadro2/staticplugins/PluginDownloader.a
[ 65%] Built target Force
[ 65%] Building CXX object avogadro/qtplugins/licorice/CMakeFiles/Licorice.dir/LicoricePlugin.cpp.o
[ 65%] Built target PluginDownloader
[ 65%] Building CXX object avogadro/qtplugins/meshes/CMakeFiles/Meshes.dir/meshes.cpp.o
[ 65%] Building CXX object avogadro/qtplugins/meshes/CMakeFiles/Meshes.dir/MeshesPlugin.cpp.o
[ 66%] Linking CXX static library ../../../lib/avogadro2/staticplugins/BallStick.a
[ 66%] Building CXX object avogadro/qtplugins/vanderwaals/CMakeFiles/VanDerWaals.dir/VanDerWaals_autogen/mocs_compilation.cpp.o
[ 66%] Building CXX object avogadro/qtplugins/wireframe/CMakeFiles/Wireframe.dir/Wireframe_autogen/mocs_compilation.cpp.o
[ 66%] Building CXX object avogadro/qtplugins/noncovalent/CMakeFiles/NonCovalent.dir/noncovalent.cpp.o
[ 66%] Built target BallStick
[ 66%] Building CXX object avogadro/qtplugins/wireframe/CMakeFiles/Wireframe.dir/wireframe.cpp.o
[ 67%] Building CXX object avogadro/qtplugins/vanderwaals/CMakeFiles/VanDerWaals.dir/vanderwaals.cpp.o
[ 67%] Building CXX object avogadro/qtplugins/vanderwaals/CMakeFiles/VanDerWaals.dir/VanDerWaalsPlugin.cpp.o
[ 68%] Linking CXX static library ../../../lib/avogadro2/staticplugins/CloseContacts.a
[ 68%] Built target CloseContacts
[ 69%] Building CXX object avogadro/qtplugins/wireframe/CMakeFiles/Wireframe.dir/WireframePlugin.cpp.o
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/meshes/meshes.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/meshes/meshes.cpp:6:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<unsigned char, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = unsigned char; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = Eigen::Matrix<unsigned char, 3, 1>; _Args = {const Eigen::Matrix<unsigned char, 3, 1, 0, 3, 1>&}]' at /usr/include/c++/14.2.1/bits/stl_construct.h:119:7,
    inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<unsigned char, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<unsigned char, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:267:21,
    inlined from 'static _ForwardIterator std::__uninitialized_fill_n<_TrivialValueType>::__uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<unsigned char, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<unsigned char, 3, 1>; bool _TrivialValueType = false]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:284:34,
    inlined from '_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<unsigned char, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<unsigned char, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:327:17,
    inlined from '_ForwardIterator std::__uninitialized_fill_n_a(_ForwardIterator, _Size, const _Tp&, allocator<_Tp2>&) [with _ForwardIterator = Eigen::Matrix<unsigned char, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<unsigned char, 3, 1>; _Tp2 = Eigen::Matrix<unsigned char, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:472:39,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_fill_initialize(size_type, const value_type&) [with _Tp = Eigen::Matrix<unsigned char, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<unsigned char, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1709:33,
    inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = Eigen::Matrix<unsigned char, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<unsigned char, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:572:27,
    inlined from 'Avogadro::Core::internal::ArrayRefContainer<T>::ArrayRefContainer(std::size_t, const ValueType&) [with T = Eigen::Matrix<unsigned char, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:45:17,
    inlined from 'Avogadro::Core::Array<T>::Array(std::size_t, const ValueType&) [with T = Eigen::Matrix<unsigned char, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:117:9,
    inlined from 'virtual void Avogadro::QtPlugins::Meshes::process(const Avogadro::QtGui::Molecule&, Avogadro::Rendering::GroupNode&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/meshes/meshes.cpp:81:53:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<unsigned char, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<unsigned char, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/meshes/meshes.cpp: In member function 'virtual void Avogadro::QtPlugins::Meshes::process(const Avogadro::QtGui::Molecule&, Avogadro::Rendering::GroupNode&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/meshes/meshes.cpp:81:53: note: '<anonymous>' declared here
[ 69%] Building CXX object avogadro/qtplugins/noncovalent/CMakeFiles/NonCovalent.dir/NonCovalentPlugin.cpp.o
[ 69%] Built target OverlayAxes_autogen_timestamp_deps
[ 70%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Licorice.a
[ 70%] Built target AlignTool_autogen_timestamp_deps
[ 70%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Meshes.a
[ 70%] Built target apbs_autogen_timestamp_deps
[ 70%] Built target BondCentric_autogen_timestamp_deps
[ 70%] Built target Cp2kInput_autogen_timestamp_deps
[ 70%] Automatic MOC for target Editor
[ 70%] Built target Meshes
[ 70%] Built target Licorice
[ 70%] Automatic MOC for target Focus
[ 70%] Automatic MOC for target GamessInput
[ 70%] Automatic MOC for target LabelEditor
[ 70%] Built target GamessInput_autogen
[ 70%] Automatic MOC for target Manipulator
[ 70%] Built target Editor_autogen
[ 70%] Automatic MOC for target MeasureTool
[ 70%] Automatic MOC for target Navigator
[ 70%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Wireframe.a
[ 70%] Built target Focus_autogen
[ 70%] Automatic MOC for target PlayerTool
[ 70%] Linking CXX static library ../../../lib/avogadro2/staticplugins/VanDerWaals.a
[ 70%] Linking CXX static library ../../../lib/avogadro2/staticplugins/NonCovalent.a
[ 70%] Built target Wireframe
[ 70%] Automatic MOC for target ResetView
[ 70%] Built target LabelEditor_autogen
[ 71%] Automatic MOC for target Selection
[ 71%] Built target VanDerWaals
[ 71%] Built target NonCovalent
[ 71%] Built target PlayerTool_autogen
[ 71%] Automatic MOC for target Surfaces
[ 71%] Automatic MOC for target Orbitals
[ 71%] Built target Manipulator_autogen
[ 71%] Automatic MOC for target SVG
[ 72%] Automatic MOC for target TemplateTool
[ 72%] Built target Navigator_autogen
[ 72%] Automatic MOC for target ColorOpacityMap
[ 72%] Built target MeasureTool_autogen
[ 72%] Automatic MOC for target Spectra
[ 72%] Built target Surfaces_autogen
[ 72%] Built target Orbitals_autogen
[ 72%] Automatic MOC for target PlotRmsd
[ 72%] Automatic MOC for target PlotPdf
[ 72%] Built target ResetView_autogen
[ 72%] Automatic MOC for target PlotXrd
[ 72%] Built target ColorOpacityMap_autogen
[ 72%] Automatic MOC for target Yaehmop
[ 72%] Built target Selection_autogen
[ 72%] Automatic MOC for target QuantumInput
[ 72%] Built target PlotRmsd_autogen
[ 72%] Built target PlotPdf_autogen
[ 72%] Automatic MOC for target OverlayAxes
[ 72%] Built target TemplateTool_autogen
[ 72%] Built target PlotXrd_autogen
[ 72%] Automatic MOC for target AlignTool
[ 73%] Automatic MOC for target apbs
[ 73%] Automatic MOC for target BondCentric
[ 73%] Built target SVG_autogen
[ 73%] Built target Spectra_autogen
[ 74%] Automatic MOC for target Cp2kInput
[ 75%] Generating ui_editortoolwidget.h
[ 75%] Generating qrc_editor.cpp
[ 75%] Built target QuantumInput_autogen
[ 76%] Building CXX object avogadro/qtplugins/focus/CMakeFiles/Focus.dir/Focus_autogen/mocs_compilation.cpp.o
[ 76%] Building CXX object avogadro/qtplugins/editor/CMakeFiles/Editor.dir/Editor_autogen/mocs_compilation.cpp.o
[ 76%] Built target Cp2kInput_autogen
[ 76%] Generating ui_gamessinputdialog.h
[ 76%] Built target Yaehmop_autogen
[ 76%] Building CXX object avogadro/qtplugins/gamessinput/CMakeFiles/GamessInput.dir/GamessInput_autogen/mocs_compilation.cpp.o
[ 76%] Generating qrc_label.cpp
[ 76%] Building CXX object avogadro/qtplugins/label/CMakeFiles/LabelEditor.dir/LabelEditor_autogen/mocs_compilation.cpp.o
[ 76%] Built target AlignTool_autogen
[ 76%] Building CXX object avogadro/qtplugins/label/CMakeFiles/LabelEditor.dir/labeleditor.cpp.o
[ 76%] Built target OverlayAxes_autogen
[ 77%] Building CXX object avogadro/qtplugins/gamessinput/CMakeFiles/GamessInput.dir/gamessinputdialog.cpp.o
[ 77%] Built target BondCentric_autogen
[ 77%] Building CXX object avogadro/qtplugins/gamessinput/CMakeFiles/GamessInput.dir/gamesshighlighter.cpp.o
[ 77%] Built target apbs_autogen
[ 77%] Building CXX object avogadro/qtplugins/gamessinput/CMakeFiles/GamessInput.dir/gamessinput.cpp.o
[ 77%] Building CXX object avogadro/qtplugins/editor/CMakeFiles/Editor.dir/editor.cpp.o
[ 77%] Building CXX object avogadro/qtplugins/focus/CMakeFiles/Focus.dir/focus.cpp.o
[ 77%] Building CXX object avogadro/qtplugins/focus/CMakeFiles/Focus.dir/FocusPlugin.cpp.o
[ 77%] Building CXX object avogadro/qtplugins/gamessinput/CMakeFiles/GamessInput.dir/GamessInputPlugin.cpp.o
[ 77%] Building CXX object avogadro/qtplugins/editor/CMakeFiles/Editor.dir/editortoolwidget.cpp.o
[ 77%] Building CXX object avogadro/qtplugins/editor/CMakeFiles/Editor.dir/qrc_editor.cpp.o
[ 77%] Building CXX object avogadro/qtplugins/editor/CMakeFiles/Editor.dir/EditorPlugin.cpp.o
[ 77%] Building CXX object avogadro/qtplugins/label/CMakeFiles/LabelEditor.dir/qrc_label.cpp.o
[ 77%] Generating ui_manipulatewidget.h
[ 77%] Generating qrc_manipulator.cpp
[ 77%] Building CXX object avogadro/qtplugins/manipulator/CMakeFiles/Manipulator.dir/Manipulator_autogen/mocs_compilation.cpp.o
[ 78%] Building CXX object avogadro/qtplugins/label/CMakeFiles/LabelEditor.dir/LabelEditorPlugin.cpp.o
[ 78%] Building CXX object avogadro/qtplugins/manipulator/CMakeFiles/Manipulator.dir/manipulator.cpp.o
[ 78%] Linking CXX static library ../../../lib/avogadro2/staticplugins/GamessInput.a
[ 78%] Generating qrc_measuretool.cpp
[ 78%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Focus.a
[ 78%] Building CXX object avogadro/qtplugins/measuretool/CMakeFiles/MeasureTool.dir/MeasureTool_autogen/mocs_compilation.cpp.o
[ 78%] Built target GamessInput
[ 78%] Building CXX object avogadro/qtplugins/measuretool/CMakeFiles/MeasureTool.dir/measuretool.cpp.o
[ 78%] Built target Focus
[ 78%] Building CXX object avogadro/qtplugins/measuretool/CMakeFiles/MeasureTool.dir/qrc_measuretool.cpp.o
[ 78%] Generating qrc_navigator.cpp
[ 78%] Building CXX object avogadro/qtplugins/navigator/CMakeFiles/Navigator.dir/Navigator_autogen/mocs_compilation.cpp.o
[ 78%] Building CXX object avogadro/qtplugins/navigator/CMakeFiles/Navigator.dir/navigator.cpp.o
[ 79%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Editor.a
[ 79%] Built target Editor
[ 79%] Generating qrc_playertool.cpp
[ 80%] Building CXX object avogadro/qtplugins/navigator/CMakeFiles/Navigator.dir/qrc_navigator.cpp.o
[ 80%] Building CXX object avogadro/qtplugins/playertool/CMakeFiles/PlayerTool.dir/PlayerTool_autogen/mocs_compilation.cpp.o
[ 80%] Building CXX object avogadro/qtplugins/resetview/CMakeFiles/ResetView.dir/ResetView_autogen/mocs_compilation.cpp.o
[ 80%] Building CXX object avogadro/qtplugins/resetview/CMakeFiles/ResetView.dir/resetview.cpp.o
[ 80%] Linking CXX static library ../../../lib/avogadro2/staticplugins/LabelEditor.a
[ 80%] Building CXX object avogadro/qtplugins/resetview/CMakeFiles/ResetView.dir/ResetViewPlugin.cpp.o
[ 80%] Built target LabelEditor
[ 80%] Building CXX object avogadro/qtplugins/navigator/CMakeFiles/Navigator.dir/NavigatorPlugin.cpp.o
[ 81%] Building CXX object avogadro/qtplugins/playertool/CMakeFiles/PlayerTool.dir/playertool.cpp.o
[ 81%] Building CXX object avogadro/qtplugins/playertool/CMakeFiles/PlayerTool.dir/qrc_playertool.cpp.o
[ 81%] Generating ui_selectiontoolwidget.h
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/selectiontool/selectiontoolwidget.ui: Warning: The name 'label' (QLabel) is already in use, defaulting to 'label1'.
[ 82%] Generating qrc_selectiontool.cpp
[ 82%] Building CXX object avogadro/qtplugins/selectiontool/CMakeFiles/Selection.dir/Selection_autogen/mocs_compilation.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/measuretool/measuretool.cpp: In member function 'virtual void Avogadro::QtPlugins::MeasureTool::draw(Avogadro::Rendering::GroupNode&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/measuretool/measuretool.cpp:209:15: warning: this statement may fall through [-Wimplicit-fallthrough=]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/measuretool/measuretool.cpp:211:5: note: here
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/measuretool/measuretool.cpp:217:15: warning: this statement may fall through [-Wimplicit-fallthrough=]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/measuretool/measuretool.cpp:220:5: note: here
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/primitive.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/geometrynode.h:11,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/measuretool/measuretool.h:12,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/measuretool/measuretool.cpp:6:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<double, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = double; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'QVector<T>::QVector(int, const T&) [with T = Eigen::Matrix<double, 3, 1>]' at /usr/include/qt/QtCore/qvector.h:528:13,
    inlined from 'virtual void Avogadro::QtPlugins::MeasureTool::draw(Avogadro::Rendering::GroupNode&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/measuretool/measuretool.cpp:162:55:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/measuretool/measuretool.cpp: In member function 'virtual void Avogadro::QtPlugins::MeasureTool::draw(Avogadro::Rendering::GroupNode&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/measuretool/measuretool.cpp:162:54: note: '<anonymous>' declared here
[ 83%] Building CXX object avogadro/qtplugins/measuretool/CMakeFiles/MeasureTool.dir/MeasureToolPlugin.cpp.o
[ 83%] Building CXX object avogadro/qtplugins/selectiontool/CMakeFiles/Selection.dir/selectiontool.cpp.o
[ 83%] Building CXX object avogadro/qtplugins/selectiontool/CMakeFiles/Selection.dir/selectiontoolwidget.cpp.o
[ 83%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Navigator.a
[ 83%] Building CXX object avogadro/qtplugins/manipulator/CMakeFiles/Manipulator.dir/qrc_manipulator.cpp.o
[ 84%] Building CXX object avogadro/qtplugins/manipulator/CMakeFiles/Manipulator.dir/ManipulatorPlugin.cpp.o
[ 84%] Built target Navigator
[ 84%] Generating ui_surfacedialog.h
[ 85%] Building CXX object avogadro/qtplugins/surfaces/CMakeFiles/Surfaces.dir/Surfaces_autogen/mocs_compilation.cpp.o
[ 85%] Building CXX object avogadro/qtplugins/surfaces/CMakeFiles/Surfaces.dir/surfacedialog.cpp.o
[ 85%] Building CXX object avogadro/qtplugins/playertool/CMakeFiles/PlayerTool.dir/PlayerToolPlugin.cpp.o
[ 85%] Building CXX object avogadro/qtplugins/selectiontool/CMakeFiles/Selection.dir/qrc_selectiontool.cpp.o
[ 85%] Building CXX object avogadro/qtplugins/surfaces/CMakeFiles/Surfaces.dir/surfaces.cpp.o
[ 85%] Linking CXX static library ../../../lib/avogadro2/staticplugins/MeasureTool.a
[ 85%] Built target MeasureTool
[ 85%] Generating ui_orbitalwidget.h
[ 85%] Building CXX object avogadro/qtplugins/surfaces/CMakeFiles/Orbitals.dir/Orbitals_autogen/mocs_compilation.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/selectiontool/selectiontoolwidget.cpp: In member function 'void Avogadro::QtPlugins::SelectionToolWidget::setDropDown(size_t, size_t)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/selectiontool/selectiontoolwidget.cpp:36:15: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'int' [-Wsign-compare]
[ 85%] Building CXX object avogadro/qtplugins/surfaces/CMakeFiles/Orbitals.dir/orbitaltablemodel.cpp.o
[ 85%] Linking CXX static library ../../../lib/avogadro2/staticplugins/PlayerTool.a
[ 85%] Built target PlayerTool
[ 85%] Building CXX object avogadro/qtplugins/svg/CMakeFiles/SVG.dir/SVG_autogen/mocs_compilation.cpp.o
[ 85%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Manipulator.a
[ 85%] Built target Manipulator
[ 86%] Building CXX object avogadro/qtplugins/svg/CMakeFiles/SVG.dir/svg.cpp.o
[ 86%] Building CXX object avogadro/qtplugins/svg/CMakeFiles/SVG.dir/SVGPlugin.cpp.o
[ 87%] Building CXX object avogadro/qtplugins/surfaces/CMakeFiles/Orbitals.dir/orbitalwidget.cpp.o
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/primitive.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/rendering/geometrynode.h:11,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/selectiontool/selectiontool.h:13,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/selectiontool/selectiontool.cpp:6:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<float, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = Eigen::Matrix<float, 3, 1>; _Args = {const Eigen::Matrix<float, 3, 1, 0, 3, 1>&}]' at /usr/include/c++/14.2.1/bits/stl_construct.h:119:7,
    inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:267:21,
    inlined from 'static _ForwardIterator std::__uninitialized_fill_n<_TrivialValueType>::__uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; bool _TrivialValueType = false]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:284:34,
    inlined from '_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:327:17,
    inlined from '_ForwardIterator std::__uninitialized_fill_n_a(_ForwardIterator, _Size, const _Tp&, allocator<_Tp2>&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; _Tp2 = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:472:39,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_fill_initialize(size_type, const value_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1709:33,
    inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:572:27,
    inlined from 'Avogadro::Core::internal::ArrayRefContainer<T>::ArrayRefContainer(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:45:17,
    inlined from 'Avogadro::Core::Array<T>::Array(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:117:9,
    inlined from 'virtual void Avogadro::QtPlugins::SelectionTool::draw(Avogadro::Rendering::GroupNode&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/selectiontool/selectiontool.cpp:212:26:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/selectiontool/selectiontool.cpp: In member function 'virtual void Avogadro::QtPlugins::SelectionTool::draw(Avogadro::Rendering::GroupNode&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/selectiontool/selectiontool.cpp:212:26: note: '<anonymous>' declared here
[ 87%] Building CXX object avogadro/qtplugins/selectiontool/CMakeFiles/Selection.dir/SelectionPlugin.cpp.o
[ 87%] Building CXX object avogadro/qtplugins/surfaces/CMakeFiles/Surfaces.dir/SurfacesPlugin.cpp.o
[ 87%] Building CXX object avogadro/qtplugins/surfaces/CMakeFiles/Orbitals.dir/orbitals.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitaltablemodel.cpp: In member function 'bool Avogadro::QtPlugins::OrbitalTableModel::setOrbitals(const Avogadro::Core::BasisSet*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitaltablemodel.cpp:173:26: warning: loop variable 'label' creates a copy from type 'const std::string' {aka 'const std::__cxx11::basic_string<char>'} [-Wrange-loop-construct]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitaltablemodel.cpp:173:26: note: use reference type to prevent copying
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitaltablemodel.cpp:177:21: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitaltablemodel.cpp:179:15: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitaltablemodel.cpp:179:32: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitaltablemodel.cpp:206:15: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitaltablemodel.cpp:208:20: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitaltablemodel.cpp:210:20: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
[ 87%] Building CXX object avogadro/qtplugins/surfaces/CMakeFiles/Orbitals.dir/OrbitalsPlugin.cpp.o
[ 87%] Generating ui_templatetoolwidget.h
[ 88%] Generating qrc_template.cpp
[ 88%] Building CXX object avogadro/qtplugins/templatetool/CMakeFiles/TemplateTool.dir/TemplateTool_autogen/mocs_compilation.cpp.o
[ 88%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Selection.a
[ 88%] Generating ui_comdialog.h
[ 88%] Building CXX object avogadro/qtplugins/coloropacitymap/CMakeFiles/ColorOpacityMap.dir/ColorOpacityMap_autogen/mocs_compilation.cpp.o
[ 88%] Built target Selection
[ 88%] Building CXX object avogadro/qtplugins/templatetool/CMakeFiles/TemplateTool.dir/templatetool.cpp.o
[ 88%] Generating ui_spectradialog.h
[ 89%] Building CXX object avogadro/qtplugins/spectra/CMakeFiles/Spectra.dir/Spectra_autogen/mocs_compilation.cpp.o
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Geometry:11,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/svg/svg.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/svg/svg.cpp:6:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<float, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'Avogadro::QtPlugins::SVG::SVGAtom::SVGAtom(const Avogadro::QtPlugins::SVG::SVGAtom&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/svg/svg.h:47:10,
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::QtPlugins::SVG::SVGAtom; _Args = {const Avogadro::QtPlugins::SVG::SVGAtom&}; _Tp = Avogadro::QtPlugins::SVG::SVGAtom]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::QtPlugins::SVG::SVGAtom; _Args = {const Avogadro::QtPlugins::SVG::SVGAtom&}; _Tp = Avogadro::QtPlugins::SVG::SVGAtom]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::QtPlugins::SVG::SVGAtom; _Alloc = std::allocator<Avogadro::QtPlugins::SVG::SVGAtom>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1288:30,
    inlined from 'void Avogadro::QtPlugins::SVG::getPositions()' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/svg/svg.cpp:154:22:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: 'atom.Avogadro::QtPlugins::SVG::SVGAtom::pos_image.Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/svg/svg.cpp: In member function 'void Avogadro::QtPlugins::SVG::getPositions()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/svg/svg.cpp:152:13: note: 'atom' declared here
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<float, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'Avogadro::QtPlugins::SVG::SVGAtom::SVGAtom(const Avogadro::QtPlugins::SVG::SVGAtom&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/svg/svg.h:47:10,
    inlined from 'void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = Avogadro::QtPlugins::SVG::SVGAtom; _Args = {const Avogadro::QtPlugins::SVG::SVGAtom&}; _Tp = Avogadro::QtPlugins::SVG::SVGAtom]' at /usr/include/c++/14.2.1/bits/new_allocator.h:191:4,
    inlined from 'static void std::allocator_traits<std::allocator<_CharT> >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = Avogadro::QtPlugins::SVG::SVGAtom; _Args = {const Avogadro::QtPlugins::SVG::SVGAtom&}; _Tp = Avogadro::QtPlugins::SVG::SVGAtom]' at /usr/include/c++/14.2.1/bits/alloc_traits.h:575:17,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_realloc_append(_Args&& ...) [with _Args = {const Avogadro::QtPlugins::SVG::SVGAtom&}; _Tp = Avogadro::QtPlugins::SVG::SVGAtom; _Alloc = std::allocator<Avogadro::QtPlugins::SVG::SVGAtom>]' at /usr/include/c++/14.2.1/bits/vector.tcc:634:26,
    inlined from 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = Avogadro::QtPlugins::SVG::SVGAtom; _Alloc = std::allocator<Avogadro::QtPlugins::SVG::SVGAtom>]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1294:21,
    inlined from 'void Avogadro::QtPlugins::SVG::getPositions()' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/svg/svg.cpp:154:22:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: 'atom.Avogadro::QtPlugins::SVG::SVGAtom::pos_image.Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/svg/svg.cpp: In member function 'void Avogadro::QtPlugins::SVG::getPositions()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/svg/svg.cpp:152:13: note: 'atom' declared here
[ 89%] Linking CXX static library ../../../lib/avogadro2/staticplugins/SVG.a
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp: In member function 'virtual bool Avogadro::QtPlugins::Surfaces::handleCommand(const QString&, const QVariantMap&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp:178:14: warning: declaration of 'ok' shadows a previous local [-Wshadow]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp:157:10: note: shadowed declaration is here
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp:184:14: warning: declaration of 'ok' shadows a previous local [-Wshadow]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp:157:10: note: shadowed declaration is here
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp: In lambda function:
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp:387:28: warning: this statement may fall through [-Wimplicit-fallthrough=]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp:388:7: note: here
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/matrix.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/calc/chargemanager.h:12,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp:16:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<double, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = double; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = Eigen::Matrix<double, 3, 1>; _Args = {const Eigen::Matrix<double, 3, 1, 0, 3, 1>&}]' at /usr/include/c++/14.2.1/bits/stl_construct.h:119:7,
    inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:267:21,
    inlined from 'static _ForwardIterator std::__uninitialized_fill_n<_TrivialValueType>::__uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>; bool _TrivialValueType = false]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:284:34,
    inlined from '_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:327:17,
    inlined from '_ForwardIterator std::__uninitialized_fill_n_a(_ForwardIterator, _Size, const _Tp&, allocator<_Tp2>&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>; _Tp2 = Eigen::Matrix<double, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:472:39,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_fill_initialize(size_type, const value_type&) [with _Tp = Eigen::Matrix<double, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<double, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1709:33,
    inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = Eigen::Matrix<double, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<double, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:572:27,
    inlined from 'Avogadro::Core::internal::ArrayRefContainer<T>::ArrayRefContainer(std::size_t, const ValueType&) [with T = Eigen::Matrix<double, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:45:17,
    inlined from 'Avogadro::Core::Array<T>::Array(std::size_t, const ValueType&) [with T = Eigen::Matrix<double, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:117:9,
    inlined from 'void Avogadro::QtPlugins::Surfaces::colorMeshByPotential()' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp:803:51:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp: In member function 'void Avogadro::QtPlugins::Surfaces::colorMeshByPotential()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/surfaces.cpp:803:51: note: '<anonymous>' declared here
[ 89%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Surfaces.a
[ 89%] Building CXX object avogadro/qtplugins/coloropacitymap/CMakeFiles/ColorOpacityMap.dir/coloropacitymap.cpp.o
[ 89%] Built target SVG
[ 89%] Generating ui_pdfoptionsdialog.h
[ 89%] Building CXX object avogadro/qtplugins/plotpdf/CMakeFiles/PlotPdf.dir/PlotPdf_autogen/mocs_compilation.cpp.o
[ 89%] Built target Surfaces
[ 89%] Building CXX object avogadro/qtplugins/plotrmsd/CMakeFiles/PlotRmsd.dir/PlotRmsd_autogen/mocs_compilation.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitals.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitals.h: In constructor 'Avogadro::QtPlugins::Orbitals::Orbitals(QObject*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitals.h:166:18: warning: 'Avogadro::QtPlugins::Orbitals::m_dialog' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitals.h:144:12: warning:   'QAction* Avogadro::QtPlugins::Orbitals::m_action' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitals.cpp:30:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitals.cpp: In member function 'void Avogadro::QtPlugins::Orbitals::moleculeChanged(unsigned int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitals.cpp:137:45: warning: unused parameter 'changes' [-Wunused-parameter]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitals.cpp: In member function 'void Avogadro::QtPlugins::Orbitals::precalculateOrbitals()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitals.cpp:224:16: warning: comparison of integer expressions of different signedness: 'int' and 'unsigned int' [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/surfaces/orbitals.cpp:228:39: warning: comparison of integer expressions of different signedness: 'unsigned int' and 'int' [-Wsign-compare]
[ 89%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Orbitals.a
[ 89%] Building CXX object avogadro/qtplugins/plotrmsd/CMakeFiles/PlotRmsd.dir/plotrmsd.cpp.o
[ 90%] Building CXX object avogadro/qtplugins/plotpdf/CMakeFiles/PlotPdf.dir/plotpdf.cpp.o
[ 90%] Building CXX object avogadro/qtplugins/plotpdf/CMakeFiles/PlotPdf.dir/pdfoptionsdialog.cpp.o
[ 90%] Built target Orbitals
[ 90%] Building CXX object avogadro/qtplugins/plotpdf/CMakeFiles/PlotPdf.dir/PlotPdfPlugin.cpp.o
[ 90%] Building CXX object avogadro/qtplugins/spectra/CMakeFiles/Spectra.dir/spectradialog.cpp.o
[ 90%] Building CXX object avogadro/qtplugins/spectra/CMakeFiles/Spectra.dir/spectra.cpp.o
[ 90%] Building CXX object avogadro/qtplugins/spectra/CMakeFiles/Spectra.dir/SpectraPlugin.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/resetview/resetview.cpp: In member function 'virtual bool Avogadro::QtPlugins::ResetView::handleCommand(const QString&, const QVariantMap&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/resetview/resetview.cpp:56:50: warning: unused parameter 'options' [-Wunused-parameter]
[ 90%] Linking CXX static library ../../../lib/avogadro2/staticplugins/ResetView.a
[ 90%] Built target ResetView
[ 91%] Building CXX object avogadro/qtplugins/plotrmsd/CMakeFiles/PlotRmsd.dir/PlotRmsdPlugin.cpp.o
[ 91%] Generating ui_xrdoptionsdialog.h
[ 91%] Building CXX object avogadro/qtplugins/plotxrd/CMakeFiles/PlotXrd.dir/PlotXrd_autogen/mocs_compilation.cpp.o
In file included from /usr/include/c++/14.2.1/utility:69,
                 from /usr/include/qt/QtCore/qglobal.h:47,
                 from /usr/include/qt/QtCore/qnamespace.h:43,
                 from /usr/include/qt/QtCore/qobjectdefs.h:48,
                 from /usr/include/qt/QtCore/qobject.h:46,
                 from /usr/include/qt/QtCore/QObject:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/pluginfactory.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtgui/extensionplugin.h:11,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/plotrmsd/plotrmsd.h:9,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/plotrmsd/plotrmsd.cpp:6:
/usr/include/c++/14.2.1/bits/stl_pair.h: In instantiation of 'constexpr std::pair<typename std::__strip_reference_wrapper<typename std::decay<_Tp>::type>::__type, typename std::__strip_reference_wrapper<typename std::decay<_Tp2>::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double&; typename __strip_reference_wrapper<typename decay<_Tp>::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper<typename decay<_Tp2>::type>::__type = double; typename decay<_Tp2>::type = double]':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/plotrmsd/plotrmsd.cpp:144:37:   required from here
/usr/include/c++/14.2.1/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair<double, double>' when C++17 is enabled changed to match C++14 in GCC 10.1
[ 91%] Building CXX object avogadro/qtplugins/plotxrd/CMakeFiles/PlotXrd.dir/plotxrd.cpp.o
[ 91%] Linking CXX static library ../../../lib/avogadro2/staticplugins/PlotRmsd.a
[ 91%] Building CXX object avogadro/qtplugins/coloropacitymap/CMakeFiles/ColorOpacityMap.dir/histogramwidget.cpp.o
[ 91%] Built target PlotRmsd
[ 91%] Building CXX object avogadro/qtplugins/plotxrd/CMakeFiles/PlotXrd.dir/xrdoptionsdialog.cpp.o
[ 92%] Building CXX object avogadro/qtplugins/plotxrd/CMakeFiles/PlotXrd.dir/PlotXrdPlugin.cpp.o
In file included from /usr/include/c++/14.2.1/utility:69,
                 from /usr/include/qt/QtCore/qglobal.h:47,
                 from /usr/include/qt/QtGui/qtguiglobal.h:43,
                 from /usr/include/qt/QtWidgets/qtwidgetsglobal.h:43,
                 from /usr/include/qt/QtWidgets/qaction.h:43,
                 from /usr/include/qt/QtWidgets/QAction:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/plotpdf/plotpdf.cpp:6:
/usr/include/c++/14.2.1/bits/stl_pair.h: In instantiation of 'constexpr std::pair<typename std::__strip_reference_wrapper<typename std::decay<_Tp>::type>::__type, typename std::__strip_reference_wrapper<typename std::decay<_Tp2>::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper<typename decay<_Tp>::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper<typename decay<_Tp2>::type>::__type = double; typename decay<_Tp2>::type = double]':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/plotpdf/plotpdf.cpp:195:39:   required from here
/usr/include/c++/14.2.1/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair<double, double>' when C++17 is enabled changed to match C++14 in GCC 10.1
[ 92%] Linking CXX static library ../../../lib/avogadro2/staticplugins/PlotPdf.a
[ 92%] Built target PlotPdf
[ 92%] Generating ui_banddialog.h
[ 92%] Building CXX object avogadro/qtplugins/yaehmop/CMakeFiles/Yaehmop.dir/Yaehmop_autogen/mocs_compilation.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spectra/spectra.cpp: In member function 'void Avogadro::QtPlugins::Spectra::moleculeChanged(unsigned int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spectra/spectra.cpp:78:44: warning: unused parameter 'changes' [-Wunused-parameter]
[ 92%] Building CXX object avogadro/qtplugins/yaehmop/CMakeFiles/Yaehmop.dir/banddialog.cpp.o
[ 92%] Building CXX object avogadro/qtplugins/templatetool/CMakeFiles/TemplateTool.dir/templatetoolwidget.cpp.o
[ 92%] Building CXX object avogadro/qtplugins/coloropacitymap/CMakeFiles/ColorOpacityMap.dir/vtkChartHistogram.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spectra/spectradialog.cpp: In member function 'void Avogadro::QtPlugins::SpectraDialog::changeSpectra()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spectra/spectradialog.cpp:383:23: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<unsigned char, std::allocator<unsigned char> >::size_type' {aka 'long unsigned int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spectra/spectradialog.cpp:397:22: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long unsigned int'} [-Wsign-compare]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spectra/spectradialog.cpp: In member function 'void Avogadro::QtPlugins::SpectraDialog::setSpectra(const std::map<std::__cxx11::basic_string<char>, Eigen::Matrix<double, -1, -1> >&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spectra/spectradialog.cpp:432:14: warning: declaration of 'auto& spectra' shadows a parameter [-Wshadow]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spectra/spectradialog.cpp:423:70: note: shadowed declaration is here
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spectra/spectradialog.cpp: In member function 'void Avogadro::QtPlugins::SpectraDialog::updatePlot()':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/spectra/spectradialog.cpp:711:32: warning: comparison of integer expressions of different signedness: 'int' and 'std::vector<double>::size_type' {aka 'long unsigned int'} [-Wsign-compare]
[ 92%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Spectra.a
[ 92%] Built target Spectra
[ 93%] Building CXX object avogadro/qtplugins/coloropacitymap/CMakeFiles/ColorOpacityMap.dir/vtkChartHistogramColorOpacityEditor.cpp.o
[ 93%] Building CXX object avogadro/qtplugins/coloropacitymap/CMakeFiles/ColorOpacityMap.dir/vtkCustomPiecewiseControlPointsItem.cpp.o
[ 93%] Building CXX object avogadro/qtplugins/yaehmop/CMakeFiles/Yaehmop.dir/specialkpoints.cpp.o
[ 94%] Building CXX object avogadro/qtplugins/yaehmop/CMakeFiles/Yaehmop.dir/yaehmop.cpp.o
In file included from /usr/include/c++/14.2.1/utility:69,
                 from /usr/include/qt/QtCore/qglobal.h:47,
                 from /usr/include/qt/QtGui/qtguiglobal.h:43,
                 from /usr/include/qt/QtWidgets/qtwidgetsglobal.h:43,
                 from /usr/include/qt/QtWidgets/qaction.h:43,
                 from /usr/include/qt/QtWidgets/QAction:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/plotxrd/plotxrd.cpp:6:
/usr/include/c++/14.2.1/bits/stl_pair.h: In instantiation of 'constexpr std::pair<typename std::__strip_reference_wrapper<typename std::decay<_Tp>::type>::__type, typename std::__strip_reference_wrapper<typename std::decay<_Tp2>::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double; _T2 = double; typename __strip_reference_wrapper<typename decay<_Tp>::type>::__type = double; typename decay<_Tp>::type = double; typename __strip_reference_wrapper<typename decay<_Tp2>::type>::__type = double; typename decay<_Tp2>::type = double]':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/plotxrd/plotxrd.cpp:200:23:   required from here
/usr/include/c++/14.2.1/bits/stl_pair.h:1132:5: note: parameter passing for argument of type 'std::pair<double, double>' when C++17 is enabled changed to match C++14 in GCC 10.1
[ 94%] Linking CXX static library ../../../lib/avogadro2/staticplugins/PlotXrd.a
[ 94%] Building CXX object avogadro/qtplugins/coloropacitymap/CMakeFiles/ColorOpacityMap.dir/comdialog.cpp.o
[ 94%] Building CXX object avogadro/qtplugins/coloropacitymap/CMakeFiles/ColorOpacityMap.dir/ColorOpacityMapPlugin.cpp.o
[ 94%] Built target PlotXrd
[ 94%] Building CXX object avogadro/qtplugins/yaehmop/CMakeFiles/Yaehmop.dir/yaehmopout.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/templatetool/templatetoolwidget.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/templatetool/templatetoolwidget.h: In constructor 'Avogadro::QtPlugins::TemplateToolWidget::TemplateToolWidget(QWidget*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/templatetool/templatetoolwidget.h:70:29: warning: 'Avogadro::QtPlugins::TemplateToolWidget::m_elementSelector' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/templatetool/templatetoolwidget.h:69:32: warning:   'Avogadro::QtGui::InsertFragmentDialog* Avogadro::QtPlugins::TemplateToolWidget::m_fragmentDialog' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/templatetool/templatetoolwidget.cpp:48:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/templatetool/templatetoolwidget.cpp: In member function 'void Avogadro::QtPlugins::TemplateToolWidget::otherLigandInsert(const QString&, bool)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/templatetool/templatetoolwidget.cpp:281:49: warning: unused parameter 'crystal' [-Wunused-parameter]
[ 94%] Building CXX object avogadro/qtplugins/templatetool/CMakeFiles/TemplateTool.dir/qrc_template.cpp.o
[ 94%] Building CXX object avogadro/qtplugins/yaehmop/CMakeFiles/Yaehmop.dir/YaehmopPlugin.cpp.o
[ 94%] Building CXX object avogadro/qtplugins/quantuminput/CMakeFiles/QuantumInput.dir/QuantumInput_autogen/mocs_compilation.cpp.o
[ 94%] Building CXX object avogadro/qtplugins/quantuminput/CMakeFiles/QuantumInput.dir/quantuminput.cpp.o
[ 94%] Building CXX object avogadro/qtplugins/overlayaxes/CMakeFiles/OverlayAxes.dir/OverlayAxes_autogen/mocs_compilation.cpp.o
[ 94%] Building CXX object avogadro/qtplugins/overlayaxes/CMakeFiles/OverlayAxes.dir/overlayaxes.cpp.o
[ 94%] Building CXX object avogadro/qtplugins/overlayaxes/CMakeFiles/OverlayAxes.dir/OverlayAxesPlugin.cpp.o
[ 94%] Generating qrc_aligntool.cpp
[ 94%] Building CXX object avogadro/qtplugins/aligntool/CMakeFiles/AlignTool.dir/AlignTool_autogen/mocs_compilation.cpp.o
[ 94%] Linking CXX static library ../../../lib/avogadro2/staticplugins/ColorOpacityMap.a
[ 94%] Built target ColorOpacityMap
[ 95%] Building CXX object avogadro/qtplugins/aligntool/CMakeFiles/AlignTool.dir/aligntool.cpp.o
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/templatetool/templatetool.cpp: In member function 'void Avogadro::QtPlugins::TemplateTool::emptyLeftClick(QMouseEvent*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/templatetool/templatetool.cpp:302:12: warning: variable 'centerIndex' set but not used [-Wunused-but-set-variable]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/templatetool/templatetool.cpp: In member function 'void Avogadro::QtPlugins::TemplateTool::atomLeftClick(QMouseEvent*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/templatetool/templatetool.cpp:586:13: warning: variable 'centerPosition' set but not used [-Wunused-but-set-variable]
[ 95%] Building CXX object avogadro/qtplugins/templatetool/CMakeFiles/TemplateTool.dir/TemplateToolPlugin.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/quantuminput/quantuminput.cpp:11:
/build/avogadrolibs/src/build/avogadro/qtgui/avogadropython.h:2:20: warning: 'Avogadro::pythonInterpreterPath' defined but not used [-Wunused-variable]
[ 95%] Building CXX object avogadro/qtplugins/quantuminput/CMakeFiles/QuantumInput.dir/QuantumInputPlugin.cpp.o
[ 95%] Building CXX object avogadro/qtplugins/aligntool/CMakeFiles/AlignTool.dir/qrc_aligntool.cpp.o
[ 95%] Building CXX object avogadro/qtplugins/aligntool/CMakeFiles/AlignTool.dir/AlignToolPlugin.cpp.o
[ 95%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Yaehmop.a
[ 95%] Built target Yaehmop
[ 95%] Generating ui_apbsoutputdialog.h
[ 95%] Generating ui_apbsdialog.h
[ 96%] Building CXX object avogadro/qtplugins/apbs/CMakeFiles/apbs.dir/apbs_autogen/mocs_compilation.cpp.o
[ 96%] Generating qrc_bondcentrictool.cpp
[ 96%] Building CXX object avogadro/qtplugins/bondcentrictool/CMakeFiles/BondCentric.dir/BondCentric_autogen/mocs_compilation.cpp.o
[ 97%] Linking CXX static library ../../../lib/avogadro2/staticplugins/QuantumInput.a
[ 97%] Built target QuantumInput
[ 97%] Building CXX object avogadro/qtplugins/bondcentrictool/CMakeFiles/BondCentric.dir/bondcentrictool.cpp.o
[ 97%] Building CXX object avogadro/qtplugins/bondcentrictool/CMakeFiles/BondCentric.dir/qrc_bondcentrictool.cpp.o
[ 97%] Building CXX object avogadro/qtplugins/bondcentrictool/CMakeFiles/BondCentric.dir/BondCentricPlugin.cpp.o
[ 97%] Linking CXX static library ../../../lib/avogadro2/staticplugins/TemplateTool.a
[ 97%] Built target TemplateTool
[ 97%] Generating ui_cp2kinputdialog.h
[ 97%] Building CXX object avogadro/qtplugins/cp2kinput/CMakeFiles/Cp2kInput.dir/Cp2kInput_autogen/mocs_compilation.cpp.o
[ 97%] Building CXX object avogadro/qtplugins/cp2kinput/CMakeFiles/Cp2kInput.dir/cp2kinputdialog.cpp.o
[ 97%] Building CXX object avogadro/qtplugins/apbs/CMakeFiles/apbs.dir/apbs.cpp.o
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/atom.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/bond.h:11,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.h:14,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtgui/molecule.h:15,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/overlayaxes/overlayaxes.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/overlayaxes/overlayaxes.cpp:6:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<float, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = Eigen::Matrix<float, 3, 1>; _Args = {const Eigen::Matrix<float, 3, 1, 0, 3, 1>&}]' at /usr/include/c++/14.2.1/bits/stl_construct.h:119:7,
    inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:267:21,
    inlined from 'static _ForwardIterator std::__uninitialized_fill_n<_TrivialValueType>::__uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; bool _TrivialValueType = false]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:284:34,
    inlined from '_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:327:17,
    inlined from '_ForwardIterator std::__uninitialized_fill_n_a(_ForwardIterator, _Size, const _Tp&, allocator<_Tp2>&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; _Tp2 = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:472:39,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_fill_initialize(size_type, const value_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1709:33,
    inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:572:27,
    inlined from 'Avogadro::Core::internal::ArrayRefContainer<T>::ArrayRefContainer(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:45:17,
    inlined from 'Avogadro::Core::Array<T>::Array(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:117:9,
    inlined from 'void Avogadro::QtPlugins::OverlayAxes::RenderImpl::addAxis(const Avogadro::Vector3f&, const Avogadro::Vector3ub&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/overlayaxes/overlayaxes.cpp:145:39:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1> >::m_storage' is used uninitialized [-Wuninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/overlayaxes/overlayaxes.cpp: In member function 'void Avogadro::QtPlugins::OverlayAxes::RenderImpl::addAxis(const Avogadro::Vector3f&, const Avogadro::Vector3ub&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/overlayaxes/overlayaxes.cpp:145:39: note: '<anonymous>' declared here
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<float, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = float; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = Eigen::Matrix<float, 3, 1>; _Args = {const Eigen::Matrix<float, 3, 1, 0, 3, 1>&}]' at /usr/include/c++/14.2.1/bits/stl_construct.h:119:7,
    inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:267:21,
    inlined from 'static _ForwardIterator std::__uninitialized_fill_n<_TrivialValueType>::__uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; bool _TrivialValueType = false]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:284:34,
    inlined from '_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:327:17,
    inlined from '_ForwardIterator std::__uninitialized_fill_n_a(_ForwardIterator, _Size, const _Tp&, allocator<_Tp2>&) [with _ForwardIterator = Eigen::Matrix<float, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<float, 3, 1>; _Tp2 = Eigen::Matrix<float, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:472:39,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_fill_initialize(size_type, const value_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1709:33,
    inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = Eigen::Matrix<float, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<float, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:572:27,
    inlined from 'Avogadro::Core::internal::ArrayRefContainer<T>::ArrayRefContainer(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:45:17,
    inlined from 'Avogadro::Core::Array<T>::Array(std::size_t, const ValueType&) [with T = Eigen::Matrix<float, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:117:9,
    inlined from 'void Avogadro::QtPlugins::OverlayAxes::RenderImpl::addAxis(const Avogadro::Vector3f&, const Avogadro::Vector3ub&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/overlayaxes/overlayaxes.cpp:146:38:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<float, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<float, 3, 1> >::m_storage' is used uninitialized [-Wuninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/overlayaxes/overlayaxes.cpp: In member function 'void Avogadro::QtPlugins::OverlayAxes::RenderImpl::addAxis(const Avogadro::Vector3f&, const Avogadro::Vector3ub&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/overlayaxes/overlayaxes.cpp:146:38: note: '<anonymous>' declared here
[ 98%] Linking CXX static library ../../../lib/avogadro2/staticplugins/OverlayAxes.a
[ 98%] Built target OverlayAxes
[ 98%] Building CXX object avogadro/qtplugins/apbs/CMakeFiles/apbs.dir/apbsdialog.cpp.o
[ 98%] Building CXX object avogadro/qtplugins/apbs/CMakeFiles/apbs.dir/apbsoutputdialog.cpp.o
In file included from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:6:
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.h: In constructor 'Avogadro::QtPlugins::AlignTool::AlignTool(QObject*)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.h:88:20: warning: 'Avogadro::QtPlugins::AlignTool::m_toolWidget' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.h:82:26: warning:   'Avogadro::Rendering::GLRenderer* Avogadro::QtPlugins::AlignTool::m_renderer' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:44:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.h:86:7: warning: 'Avogadro::QtPlugins::AlignTool::m_alignType' will be initialized after [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.h:85:7: warning:   'int Avogadro::QtPlugins::AlignTool::m_axis' [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:44:1: warning:   when initialized here [-Wreorder]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp: In member function 'void Avogadro::QtPlugins::AlignTool::alignAtomToAxis(Avogadro::Index, int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:161:11: warning: variable 'align' set but not used [-Wunused-but-set-variable]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:165:10: warning: variable 'alpha' set but not used [-Wunused-but-set-variable]
In file included from /usr/include/eigen3/Eigen/Core:294,
                 from /usr/include/eigen3/Eigen/Dense:1,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/vector.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/atom.h:10,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/bond.h:11,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/core/molecule.h:14,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtgui/molecule.h:15,
                 from /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.h:11:
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<double, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = double; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = Eigen::Matrix<double, 3, 1>; _Args = {const Eigen::Matrix<double, 3, 1, 0, 3, 1>&}]' at /usr/include/c++/14.2.1/bits/stl_construct.h:119:7,
    inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:267:21,
    inlined from 'static _ForwardIterator std::__uninitialized_fill_n<_TrivialValueType>::__uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>; bool _TrivialValueType = false]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:284:34,
    inlined from '_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:327:17,
    inlined from '_ForwardIterator std::__uninitialized_fill_n_a(_ForwardIterator, _Size, const _Tp&, allocator<_Tp2>&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>; _Tp2 = Eigen::Matrix<double, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:472:39,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_fill_initialize(size_type, const value_type&) [with _Tp = Eigen::Matrix<double, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<double, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1709:33,
    inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = Eigen::Matrix<double, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<double, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:572:27,
    inlined from 'Avogadro::Core::internal::ArrayRefContainer<T>::ArrayRefContainer(std::size_t, const ValueType&) [with T = Eigen::Matrix<double, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:45:17,
    inlined from 'Avogadro::Core::Array<T>::Array(std::size_t, const ValueType&) [with T = Eigen::Matrix<double, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:117:9,
    inlined from 'void Avogadro::QtPlugins::AlignTool::shiftAtomToOrigin(Avogadro::Index)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:150:47:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp: In member function 'void Avogadro::QtPlugins::AlignTool::shiftAtomToOrigin(Avogadro::Index)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:150:47: note: '<anonymous>' declared here
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<double, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = double; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'QVector<T>::QVector(int, const T&) [with T = Eigen::Matrix<double, 3, 1>]' at /usr/include/qt/QtCore/qvector.h:528:13,
    inlined from 'virtual void Avogadro::QtPlugins::AlignTool::draw(Avogadro::Rendering::GroupNode&)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:274:55:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp: In member function 'virtual void Avogadro::QtPlugins::AlignTool::draw(Avogadro::Rendering::GroupNode&)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:274:54: note: '<anonymous>' declared here
In copy constructor 'Eigen::PlainObjectBase<Derived>::PlainObjectBase(const Eigen::PlainObjectBase<Derived>&) [with Derived = Eigen::Matrix<double, 3, 1>]',
    inlined from 'Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>::Matrix(const Eigen::Matrix<_Scalar, _Rows, _Cols, _Options, _MaxRows, _MaxCols>&) [with _Scalar = double; int _Rows = 3; int _Cols = 1; int _Options = 0; int _MaxRows = 3; int _MaxCols = 1]' at /usr/include/eigen3/Eigen/src/Core/Matrix.h:414:52,
    inlined from 'void std::_Construct(_Tp*, _Args&& ...) [with _Tp = Eigen::Matrix<double, 3, 1>; _Args = {const Eigen::Matrix<double, 3, 1, 0, 3, 1>&}]' at /usr/include/c++/14.2.1/bits/stl_construct.h:119:7,
    inlined from '_ForwardIterator std::__do_uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:267:21,
    inlined from 'static _ForwardIterator std::__uninitialized_fill_n<_TrivialValueType>::__uninit_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>; bool _TrivialValueType = false]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:284:34,
    inlined from '_ForwardIterator std::uninitialized_fill_n(_ForwardIterator, _Size, const _Tp&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:327:17,
    inlined from '_ForwardIterator std::__uninitialized_fill_n_a(_ForwardIterator, _Size, const _Tp&, allocator<_Tp2>&) [with _ForwardIterator = Eigen::Matrix<double, 3, 1>*; _Size = long unsigned int; _Tp = Eigen::Matrix<double, 3, 1>; _Tp2 = Eigen::Matrix<double, 3, 1>]' at /usr/include/c++/14.2.1/bits/stl_uninitialized.h:472:39,
    inlined from 'void std::vector<_Tp, _Alloc>::_M_fill_initialize(size_type, const value_type&) [with _Tp = Eigen::Matrix<double, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<double, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:1709:33,
    inlined from 'std::vector<_Tp, _Alloc>::vector(size_type, const value_type&, const allocator_type&) [with _Tp = Eigen::Matrix<double, 3, 1>; _Alloc = std::allocator<Eigen::Matrix<double, 3, 1> >]' at /usr/include/c++/14.2.1/bits/stl_vector.h:572:27,
    inlined from 'Avogadro::Core::internal::ArrayRefContainer<T>::ArrayRefContainer(std::size_t, const ValueType&) [with T = Eigen::Matrix<double, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:45:17,
    inlined from 'Avogadro::Core::Array<T>::Array(std::size_t, const ValueType&) [with T = Eigen::Matrix<double, 3, 1>]' at /build/avogadrolibs/src/avogadrolibs/avogadro/core/array.h:117:9,
    inlined from 'void Avogadro::QtPlugins::AlignTool::alignAtomToAxis(Avogadro::Index, int)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:163:47:
/usr/include/eigen3/Eigen/src/Core/PlainObjectBase.h:512:17: warning: '<unnamed>.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1> >::m_storage' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp: In member function 'void Avogadro::QtPlugins::AlignTool::alignAtomToAxis(Avogadro::Index, int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:163:47: note: '<anonymous>' declared here
In file included from /usr/include/eigen3/Eigen/Geometry:36,
                 from /usr/include/eigen3/Eigen/Dense:6:
In member function 'typename Eigen::MatrixBase<Derived>::cross_product_return_type<OtherDerived>::type Eigen::MatrixBase<Derived>::cross(const Eigen::MatrixBase<OtherDerived>&) const [with OtherDerived = Eigen::Matrix<double, 3, 1>; Derived = Eigen::Matrix<double, 3, 1>]',
    inlined from 'void Avogadro::QtPlugins::AlignTool::alignAtomToAxis(Avogadro::Index, int)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:183:32:
/usr/include/eigen3/Eigen/src/Geometry/OrthoMethods.h:45:31: warning: 'axisVector.Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[1]' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp: In member function 'void Avogadro::QtPlugins::AlignTool::alignAtomToAxis(Avogadro::Index, int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:170:11: note: 'axisVector' declared here
In member function 'typename Eigen::MatrixBase<Derived>::cross_product_return_type<OtherDerived>::type Eigen::MatrixBase<Derived>::cross(const Eigen::MatrixBase<OtherDerived>&) const [with OtherDerived = Eigen::Matrix<double, 3, 1>; Derived = Eigen::Matrix<double, 3, 1>]',
    inlined from 'void Avogadro::QtPlugins::AlignTool::alignAtomToAxis(Avogadro::Index, int)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:183:32:
/usr/include/eigen3/Eigen/src/Geometry/OrthoMethods.h:46:61: warning: '*(const Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::Scalar*)((char*)&axisVector + offsetof(Eigen::Vector3, Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::MatrixBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 3>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 1>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 0>::<unnamed>))' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp: In member function 'void Avogadro::QtPlugins::AlignTool::alignAtomToAxis(Avogadro::Index, int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:170:11: note: 'axisVector' declared here
In file included from /usr/include/eigen3/Eigen/src/Core/util/ConfigureVectorization.h:392,
                 from /usr/include/eigen3/Eigen/Core:22:
In function 'float64x2_t vld1q_f64(const float64_t*)',
    inlined from 'Packet Eigen::internal::ploadu(const typename unpacket_traits<T>::type*) [with Packet = __Float64x2_t]' at /usr/include/eigen3/Eigen/src/Core/arch/NEON/PacketMath.h:3816:19,
    inlined from 'Packet Eigen::internal::ploadt(const typename unpacket_traits<T>::type*) [with Packet = __Float64x2_t; int Alignment = 0]' at /usr/include/eigen3/Eigen/src/Core/GenericPacketMath.h:969:26,
    inlined from 'PacketType Eigen::internal::evaluator<Eigen::PlainObjectBase<Derived> >::packet(Eigen::Index, Eigen::Index) const [with int LoadMode = 0; PacketType = __Float64x2_t; Derived = Eigen::Matrix<double, 3, 1>]' at /usr/include/eigen3/Eigen/src/Core/CoreEvaluators.h:238:42,
    inlined from 'PacketType Eigen::internal::binary_evaluator<Eigen::CwiseBinaryOp<BinaryOp, Lhs, Rhs>, Eigen::internal::IndexBased, Eigen::internal::IndexBased>::packet(Eigen::Index, Eigen::Index) const [with int LoadMode = 0; PacketType = __Float64x2_t; BinaryOp = Eigen::internal::scalar_conj_product_op<double, double>; Lhs = const Eigen::Matrix<double, 3, 1>; Rhs = const Eigen::Matrix<double, 3, 1>]' at /usr/include/eigen3/Eigen/src/Core/CoreEvaluators.h:782:80,
    inlined from 'PacketType Eigen::internal::redux_evaluator<_XprType>::packetByOuterInner(Eigen::Index, Eigen::Index) const [with int LoadMode = 0; PacketType = __Float64x2_t; _XprType = Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:386:54,
    inlined from 'static PacketType Eigen::internal::redux_vec_unroller<Func, Evaluator, Start, 1>::run(const Evaluator&, const Func&) [with PacketType = __Float64x2_t; Func = Eigen::internal::scalar_sum_op<double, double>; Evaluator = Eigen::internal::redux_evaluator<Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> > >; int Start = 0]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:177:66,
    inlined from 'static Eigen::internal::redux_impl<Func, Evaluator, 3, 2>::Scalar Eigen::internal::redux_impl<Func, Evaluator, 3, 2>::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> >; Func = Eigen::internal::scalar_sum_op<double, double>; Evaluator = Eigen::internal::redux_evaluator<Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> > >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:344:115,
    inlined from 'typename Eigen::internal::traits<T>::Scalar Eigen::DenseBase<Derived>::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op<double, double>; Derived = Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:418:56,
    inlined from 'typename Eigen::internal::traits<T>::Scalar Eigen::DenseBase<Derived>::sum() const [with Derived = Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:463:25,
    inlined from 'static Eigen::internal::dot_nocheck<T, U, NeedToTranspose>::ResScalar Eigen::internal::dot_nocheck<T, U, NeedToTranspose>::run(const Eigen::MatrixBase<Derived>&, const Eigen::MatrixBase<U>&) [with T = Eigen::Matrix<double, 3, 1>; U = Eigen::Matrix<double, 3, 1>; bool NeedToTranspose = false]' at /usr/include/eigen3/Eigen/src/Core/Dot.h:37:51,
    inlined from 'typename Eigen::ScalarBinaryOpTraits<typename Eigen::internal::traits<T>::Scalar, typename Eigen::internal::traits<OtherDerived>::Scalar>::ReturnType Eigen::MatrixBase<Derived>::dot(const Eigen::MatrixBase<OtherDerived>&) const [with OtherDerived = Eigen::Matrix<double, 3, 1>; Derived = Eigen::Matrix<double, 3, 1>]' at /usr/include/eigen3/Eigen/src/Core/Dot.h:84:58,
    inlined from 'void Avogadro::QtPlugins::AlignTool::alignAtomToAxis(Avogadro::Index, int)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:180:22:
/usr/lib/gcc/aarch64-unknown-linux-gnu/14.2.1/include/arm_neon.h:12538:36: warning: '*(__Float64x2_t*)((char*)&axisVector + offsetof(Eigen::Vector3, Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::MatrixBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 3>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 1>::<unnamed>.Eigen::DenseCoeffsBase<Eigen::Matrix<double, 3, 1, 0, 3, 1>, 0>::<unnamed>))' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp: In member function 'void Avogadro::QtPlugins::AlignTool::alignAtomToAxis(Avogadro::Index, int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:170:11: note: 'axisVector' declared here
In file included from /usr/include/eigen3/Eigen/Core:172:
In function 'Packet Eigen::internal::pmul(const Packet&, const Packet&) [with Packet = double]',
    inlined from 'Packet Eigen::internal::conj_helper<Packet, Packet, ConjLhs, ConjRhs>::pmul(const Packet&, const Packet&) const [with Packet = double; bool ConjLhs = false; bool ConjRhs = false]' at /usr/include/eigen3/Eigen/src/Core/arch/Default/ConjHelper.h:99:33,
    inlined from 'Eigen::internal::scalar_conj_product_op<LhsScalar, RhsScalar>::result_type Eigen::internal::scalar_conj_product_op<LhsScalar, RhsScalar>::operator()(const LhsScalar&, const RhsScalar&) const [with LhsScalar = double; RhsScalar = double]' at /usr/include/eigen3/Eigen/src/Core/functors/BinaryFunctors.h:118:62,
    inlined from 'Eigen::internal::binary_evaluator<Eigen::CwiseBinaryOp<BinaryOp, Lhs, Rhs>, Eigen::internal::IndexBased, Eigen::internal::IndexBased>::CoeffReturnType Eigen::internal::binary_evaluator<Eigen::CwiseBinaryOp<BinaryOp, Lhs, Rhs>, Eigen::internal::IndexBased, Eigen::internal::IndexBased>::coeff(Eigen::Index, Eigen::Index) const [with BinaryOp = Eigen::internal::scalar_conj_product_op<double, double>; Lhs = const Eigen::Matrix<double, 3, 1>; Rhs = const Eigen::Matrix<double, 3, 1>]' at /usr/include/eigen3/Eigen/src/Core/CoreEvaluators.h:769:22,
    inlined from 'Eigen::internal::redux_evaluator<_XprType>::CoeffReturnType Eigen::internal::redux_evaluator<_XprType>::coeffByOuterInner(Eigen::Index, Eigen::Index) const [with _XprType = Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:381:23,
    inlined from 'static Eigen::internal::redux_novec_unroller<Func, Evaluator, Start, 1>::Scalar Eigen::internal::redux_novec_unroller<Func, Evaluator, Start, 1>::run(const Evaluator&, const Func&) [with Func = Eigen::internal::scalar_sum_op<double, double>; Evaluator = Eigen::internal::redux_evaluator<Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> > >; int Start = 2]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:128:34,
    inlined from 'static Eigen::internal::redux_impl<Func, Evaluator, 3, 2>::Scalar Eigen::internal::redux_impl<Func, Evaluator, 3, 2>::run(const Evaluator&, const Func&, const XprType&) [with XprType = Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> >; Func = Eigen::internal::scalar_sum_op<double, double>; Evaluator = Eigen::internal::redux_evaluator<Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> > >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:346:103,
    inlined from 'typename Eigen::internal::traits<T>::Scalar Eigen::DenseBase<Derived>::redux(const Func&) const [with BinaryOp = Eigen::internal::scalar_sum_op<double, double>; Derived = Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:418:56,
    inlined from 'typename Eigen::internal::traits<T>::Scalar Eigen::DenseBase<Derived>::sum() const [with Derived = Eigen::CwiseBinaryOp<Eigen::internal::scalar_conj_product_op<double, double>, const Eigen::Matrix<double, 3, 1>, const Eigen::Matrix<double, 3, 1> >]' at /usr/include/eigen3/Eigen/src/Core/Redux.h:463:25,
    inlined from 'static Eigen::internal::dot_nocheck<T, U, NeedToTranspose>::ResScalar Eigen::internal::dot_nocheck<T, U, NeedToTranspose>::run(const Eigen::MatrixBase<Derived>&, const Eigen::MatrixBase<U>&) [with T = Eigen::Matrix<double, 3, 1>; U = Eigen::Matrix<double, 3, 1>; bool NeedToTranspose = false]' at /usr/include/eigen3/Eigen/src/Core/Dot.h:37:51,
    inlined from 'typename Eigen::ScalarBinaryOpTraits<typename Eigen::internal::traits<T>::Scalar, typename Eigen::internal::traits<OtherDerived>::Scalar>::ReturnType Eigen::MatrixBase<Derived>::dot(const Eigen::MatrixBase<OtherDerived>&) const [with OtherDerived = Eigen::Matrix<double, 3, 1>; Derived = Eigen::Matrix<double, 3, 1>]' at /usr/include/eigen3/Eigen/src/Core/Dot.h:84:58,
    inlined from 'void Avogadro::QtPlugins::AlignTool::alignAtomToAxis(Avogadro::Index, int)' at /build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:180:22:
/usr/include/eigen3/Eigen/src/Core/GenericPacketMath.h:237:51: warning: '*(double*)((char*)&axisVector + offsetof(Eigen::Vector3, Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[2]))' may be used uninitialized [-Wmaybe-uninitialized]
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp: In member function 'void Avogadro::QtPlugins::AlignTool::alignAtomToAxis(Avogadro::Index, int)':
/build/avogadrolibs/src/avogadrolibs/avogadro/qtplugins/aligntool/aligntool.cpp:170:11: note: '*(double*)((char*)&axisVector + offsetof(Eigen::Vector3, Eigen::Matrix<double, 3, 1, 0, 3, 1>::<unnamed>.Eigen::PlainObjectBase<Eigen::Matrix<double, 3, 1, 0, 3, 1> >::m_storage.Eigen::DenseStorage<double, 3, 3, 1, 0>::m_data.Eigen::internal::plain_array<double, 3, 0, 0>::array[2]))' was declared here
[ 98%] Building CXX object avogadro/qtplugins/cp2kinput/CMakeFiles/Cp2kInput.dir/cp2kinput.cpp.o
[ 98%] Linking CXX static library ../../../lib/avogadro2/staticplugins/AlignTool.a
[ 98%] Built target AlignTool
[ 98%] Building CXX object avogadro/qtplugins/cp2kinput/CMakeFiles/Cp2kInput.dir/Cp2kInputPlugin.cpp.o
[ 98%] Building CXX object avogadro/qtplugins/apbs/CMakeFiles/apbs.dir/opendxreader.cpp.o
[ 98%] Building CXX object avogadro/qtplugins/apbs/CMakeFiles/apbs.dir/apbsPlugin.cpp.o
[ 98%] Linking CXX static library ../../../lib/avogadro2/staticplugins/apbs.a
[ 98%] Built target apbs
[ 99%] Linking CXX static library ../../../lib/avogadro2/staticplugins/BondCentric.a
[ 99%] Built target BondCentric
[ 99%] Linking CXX static library ../../../lib/avogadro2/staticplugins/Cp2kInput.a
[ 99%] Built target Cp2kInput
[ 99%] Built target QtPlugins_autogen_timestamp_deps
[100%] Automatic MOC for target QtPlugins
[100%] Built target QtPlugins_autogen
[100%] Building CXX object avogadro/qtplugins/CMakeFiles/QtPlugins.dir/QtPlugins_autogen/mocs_compilation.cpp.o
[100%] Building CXX object avogadro/qtplugins/CMakeFiles/QtPlugins.dir/pluginmanager.cpp.o
[100%] Linking CXX shared library ../../lib/libAvogadroQtPlugins.so
[100%] Built target QtPlugins
==> Entering fakeroot environment...
==> Starting package_avogadrolibs()...
-- Install configuration: "Debug"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/libgwavi.a
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-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroCalc.so.1.100.0" to "/usr/lib"
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-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroIO.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroIO.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroIO.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/cjsonformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/cmlformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/cmsgpackformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/dcdformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/fileformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/fileformatmanager.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/gromacsformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/mdlformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/lammpsformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/pdbformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/sdfformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/trrformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/turbomoleformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/vaspformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/xyzformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/hdf5dataformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/mmtfformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/io/avogadroioexport.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQuantumIO.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQuantumIO.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQuantumIO.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQuantumIO.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/quantumio/gamessus.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/quantumio/gaussianfchk.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/quantumio/gaussiancube.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/quantumio/genericoutput.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/quantumio/molden.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/quantumio/mopacaux.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/quantumio/nwchemjson.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/quantumio/nwchemlog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/quantumio/orca.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/quantumio/avogadroquantumioexport.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroRendering.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroRendering.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroRendering.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroRendering.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/arcsector.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/arcstrip.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/arrowgeometry.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/avogadrogl.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/avogadrorendering.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/beziergeometry.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/bsplinegeometry.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/bufferobject.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/camera.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/cartoongeometry.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/curvegeometry.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/cylindergeometry.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/dashedlinegeometry.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/drawable.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/geometrynode.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/geometryvisitor.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/groupnode.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/glrenderer.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/glrendervisitor.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/linestripgeometry.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/meshgeometry.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/node.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/plyvisitor.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/povrayvisitor.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/primitive.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/quad.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/quadoutline.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/scene.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/shader.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/shaderprogram.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/solidpipeline.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/spheregeometry.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/textlabel2d.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/textlabel3d.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/textlabelbase.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/textproperties.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/textrenderstrategy.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/texture2d.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/transformnode.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/visitor.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/volumegeometry.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/vrmlvisitor.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/rendering/avogadrorenderingexport.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtGui.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtGui.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtGui.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtGui.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/backgroundfileformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/colorbutton.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/containerwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/customelementdialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/elementtranslator.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/extensionplugin.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/filebrowsewidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/fileformatdialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/gaussiansetconcurrent.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/generichighlighter.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/hydrogentools.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/insertfragmentdialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/interfacescript.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/interfacewidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/jsonwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/layermodel.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/rwlayermanager.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/meshgenerator.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/molecule.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/moleculemodel.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/multiviewwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/periodictableview.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/persistentatom.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/persistentbond.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/pluginlayermanager.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/pythonscript.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/richtextdelegate.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/rwmolecule.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/sceneplugin.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/scenepluginmodel.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/scriptloader.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/slatersetconcurrent.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/sortfiltertreeproxymodel.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/toolplugin.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/utilities.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/viewfactory.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtgui/avogadroqtguiexport.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtOpenGL.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtOpenGL.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtOpenGL.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtOpenGL.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtopengl/activeobjects.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtopengl/glwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtopengl/qttextrenderstrategy.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtopengl/avogadroqtopenglexport.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroMoleQueue.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroMoleQueue.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroMoleQueue.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroMoleQueue.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/molequeue/batchjob.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/molequeue/inputgenerator.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/molequeue/inputgeneratordialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/molequeue/inputgeneratorwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/molequeue/molequeuedialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/molequeue/molequeuemanager.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/molequeue/molequeuequeuelistmodel.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/molequeue/molequeuewidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/molequeue/avogadromolequeueexport.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroVtk.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroVtk.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroVtk.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroVtk.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/vtk/chartdialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/vtk/chartwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/vtk/qvtkwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/vtk/vtkAvogadroActor.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/vtk/vtkglwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/vtk/avogadrovtkexport.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/ThreeDMol.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Alchemy.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/AlignTool.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/apbs.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/ApplyColors.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/BondCentric.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Bonding.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Cartoons.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Centroid.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/ConfigurePython.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/CoordinateEditor.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/CopyPaste.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Cp2kInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Crystal.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/CrystalScene.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/CustomElements.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Dipole.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Editor.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/FetchPDB.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Focus.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Forcefield.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/GamessInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Hydrogens.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/ImportPQR.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/NucleicInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/InsertFragment.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/share/avogadro2/molecules
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/share/avogadro2/crystals
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Label.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/LabelEditor.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/LammpsInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/LineFormatInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Manipulator.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/MeasureTool.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/MolecularProperties.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Navigator.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/NetworkDatabases.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/OpenBabel.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/OpenMMInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/PlayerTool.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/PLY.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/POVRay.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/PropertyTables.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/ResetView.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Select.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Selection.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/SpaceGroup.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Surfaces.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Orbitals.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/SVG.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/TemplateTool.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/share/avogadro2/fragments
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Vibrations.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/VRML.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/ColorOpacityMap.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Spectra.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/PlotPdf.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/PlotRmsd.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/PlotXrd.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Yaehmop.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/commands.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/QuantumInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/ScriptCharges.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/ScriptFileFormats.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/scripts/formatScripts/zyx.py
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/PluginDownloader.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Symmetry.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/SymmetryScene.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/BallStick.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/CloseContacts.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Force.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Licorice.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Meshes.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/NonCovalent.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/VanDerWaals.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/Wireframe.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/avogadro2/staticplugins/OverlayAxes.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtPlugins.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtPlugins.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtPlugins.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/libAvogadroQtPlugins.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtplugins/pluginmanager.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtplugins/pluginfactory.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtplugins/avogadrostaticqtplugins.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/include/avogadro/qtplugins/avogadroqtpluginsexport.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/python3.13/site-packages/avogadro/core.cpython-313-aarch64-linux-gnu.so
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs/usr/lib/python3.13/site-packages/avogadro/core.cpython-313-aarch64-linux-gnu.so" to "$ORIGIN"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/python3.13/site-packages/avogadro/io.cpython-313-aarch64-linux-gnu.so
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs/usr/lib/python3.13/site-packages/avogadro/io.cpython-313-aarch64-linux-gnu.so" to "$ORIGIN"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/python3.13/site-packages/avogadro/__init__.py
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/python3.13/site-packages/avogadro/cjson.py
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/python3.13/site-packages/avogadro/connect.py
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/share/doc/AvogadroLibs/avogadrolibs/README.md
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/share/doc/AvogadroLibs/avogadrolibs/CONTRIBUTING.md
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/share/doc/AvogadroLibs/avogadrolibs/LICENSE
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/cmake/avogadrolibs/AvogadroLibsConfig.cmake
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/cmake/avogadrolibs/AvogadroLibsConfigVersion.cmake
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/cmake/avogadrolibs/Findlibmsym.cmake
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/cmake/avogadrolibs/AvogadroLibsTargets.cmake
-- Installing: /build/avogadrolibs/pkg/avogadrolibs/usr/lib/cmake/avogadrolibs/AvogadroLibsTargets-debug.cmake
==> Tidying install...
  -> Removing libtool files...
  -> Purging unwanted files...
  -> Removing static library files...
  -> Stripping unneeded symbols from binaries and libraries...
  -> Compressing man and info pages...
==> Checking for packaging issues...
==> WARNING: Package contains reference to $srcdir
usr/lib/libAvogadroIO.so.1.100.0
usr/lib/libAvogadroQuantumIO.so.1.100.0
usr/lib/libAvogadroCore.so.1.100.0
usr/lib/python3.13/site-packages/avogadro/core.cpython-313-aarch64-linux-gnu.so
==> Creating package "avogadrolibs"...
  -> Generating .PKGINFO file...
  -> Generating .BUILDINFO file...
  -> Generating .MTREE file...
  -> Compressing package...
==> Starting package_avogadrolibs-qt5()...
-- Install configuration: "Debug"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroMoleQueue.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroMoleQueue.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroMoleQueue.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroMoleQueue.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/molequeue/batchjob.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/molequeue/inputgenerator.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/molequeue/inputgeneratordialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/molequeue/inputgeneratorwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/molequeue/molequeuedialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/molequeue/molequeuemanager.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/molequeue/molequeuequeuelistmodel.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/molequeue/molequeuewidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/molequeue/avogadromolequeueexport.h
-- Install configuration: "Debug"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtGui.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtGui.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtGui.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtGui.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/backgroundfileformat.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/colorbutton.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/containerwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/customelementdialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/elementtranslator.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/extensionplugin.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/filebrowsewidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/fileformatdialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/gaussiansetconcurrent.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/generichighlighter.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/hydrogentools.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/insertfragmentdialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/interfacescript.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/interfacewidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/jsonwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/layermodel.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/rwlayermanager.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/meshgenerator.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/molecule.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/moleculemodel.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/multiviewwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/periodictableview.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/persistentatom.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/persistentbond.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/pluginlayermanager.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/pythonscript.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/richtextdelegate.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/rwmolecule.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/sceneplugin.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/scenepluginmodel.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/scriptloader.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/slatersetconcurrent.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/sortfiltertreeproxymodel.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/toolplugin.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/utilities.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/viewfactory.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtgui/avogadroqtguiexport.h
-- Install configuration: "Debug"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtOpenGL.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtOpenGL.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtOpenGL.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtOpenGL.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtopengl/activeobjects.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtopengl/glwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtopengl/qttextrenderstrategy.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtopengl/avogadroqtopenglexport.h
-- Install configuration: "Debug"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/ThreeDMol.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Alchemy.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/AlignTool.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/apbs.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/ApplyColors.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/BondCentric.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Bonding.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Cartoons.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Centroid.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/ConfigurePython.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/CoordinateEditor.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/CopyPaste.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Cp2kInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Crystal.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/CrystalScene.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/CustomElements.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Dipole.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Editor.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/FetchPDB.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Focus.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Forcefield.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/GamessInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Hydrogens.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/ImportPQR.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/NucleicInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/InsertFragment.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/share/avogadro2/molecules
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/share/avogadro2/crystals
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Label.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/LabelEditor.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/LammpsInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/LineFormatInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Manipulator.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/MeasureTool.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/MolecularProperties.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Navigator.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/NetworkDatabases.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/OpenBabel.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/OpenMMInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/PlayerTool.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/PLY.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/POVRay.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/PropertyTables.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/ResetView.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Select.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Selection.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/SpaceGroup.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Surfaces.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Orbitals.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/SVG.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/TemplateTool.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/share/avogadro2/fragments
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Vibrations.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/VRML.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/ColorOpacityMap.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Spectra.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/PlotPdf.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/PlotRmsd.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/PlotXrd.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Yaehmop.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/commands.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/QuantumInput.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/ScriptCharges.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/ScriptFileFormats.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/scripts/formatScripts/zyx.py
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/PluginDownloader.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Symmetry.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/SymmetryScene.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/BallStick.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/CloseContacts.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Force.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Licorice.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Meshes.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/NonCovalent.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/VanDerWaals.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/Wireframe.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/avogadro2/staticplugins/OverlayAxes.a
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtPlugins.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtPlugins.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtPlugins.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroQtPlugins.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtplugins/pluginmanager.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtplugins/pluginfactory.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtplugins/avogadrostaticqtplugins.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/qtplugins/avogadroqtpluginsexport.h
-- Install configuration: "Debug"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroVtk.so.1.100.0
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroVtk.so.1
-- Set non-toolchain portion of runtime path of "/build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroVtk.so.1.100.0" to "/usr/lib"
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/lib/libAvogadroVtk.so
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/vtk/chartdialog.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/vtk/chartwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/vtk/qvtkwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/vtk/vtkAvogadroActor.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/vtk/vtkglwidget.h
-- Installing: /build/avogadrolibs/pkg/avogadrolibs-qt5/usr/include/avogadro/vtk/avogadrovtkexport.h
==> Tidying install...
  -> Removing libtool files...
  -> Purging unwanted files...
  -> Removing static library files...
  -> Stripping unneeded symbols from binaries and libraries...
  -> Compressing man and info pages...
==> Checking for packaging issues...
==> WARNING: Package contains reference to $srcdir
usr/lib/libAvogadroQtGui.so.1.100.0
usr/lib/libAvogadroMoleQueue.so.1.100.0
usr/lib/libAvogadroVtk.so.1.100.0
usr/lib/avogadro2/staticplugins/ApplyColors.a
usr/lib/avogadro2/staticplugins/Wireframe.a
usr/lib/avogadro2/staticplugins/Orbitals.a
usr/lib/avogadro2/staticplugins/Forcefield.a
usr/lib/avogadro2/staticplugins/Yaehmop.a
usr/lib/avogadro2/staticplugins/LineFormatInput.a
usr/lib/avogadro2/staticplugins/Label.a
usr/lib/avogadro2/staticplugins/FetchPDB.a
usr/lib/avogadro2/staticplugins/ImportPQR.a
usr/lib/avogadro2/staticplugins/AlignTool.a
usr/lib/avogadro2/staticplugins/CopyPaste.a
usr/lib/avogadro2/staticplugins/PlotRmsd.a
usr/lib/avogadro2/staticplugins/Surfaces.a
usr/lib/avogadro2/staticplugins/ConfigurePython.a
usr/lib/avogadro2/staticplugins/CrystalScene.a
usr/lib/avogadro2/staticplugins/Dipole.a
usr/lib/avogadro2/staticplugins/SpaceGroup.a
usr/lib/avogadro2/staticplugins/OpenMMInput.a
usr/lib/avogadro2/staticplugins/ScriptCharges.a
usr/lib/avogadro2/staticplugins/SVG.a
usr/lib/avogadro2/staticplugins/Spectra.a
usr/lib/avogadro2/staticplugins/ColorOpacityMap.a
usr/lib/avogadro2/staticplugins/QuantumInput.a
usr/lib/avogadro2/staticplugins/Centroid.a
usr/lib/avogadro2/staticplugins/BallStick.a
usr/lib/avogadro2/staticplugins/Select.a
usr/lib/avogadro2/staticplugins/Bonding.a
usr/lib/avogadro2/staticplugins/PLY.a
usr/lib/avogadro2/staticplugins/NetworkDatabases.a
usr/lib/avogadro2/staticplugins/CustomElements.a
usr/lib/avogadro2/staticplugins/ResetView.a
usr/lib/avogadro2/staticplugins/Hydrogens.a
usr/lib/avogadro2/staticplugins/OverlayAxes.a
usr/lib/avogadro2/staticplugins/VanDerWaals.a
usr/lib/avogadro2/staticplugins/Focus.a
usr/lib/avogadro2/staticplugins/NucleicInput.a
usr/lib/avogadro2/staticplugins/Cartoons.a
usr/lib/avogadro2/staticplugins/Selection.a
usr/lib/avogadro2/staticplugins/LammpsInput.a
usr/lib/avogadro2/staticplugins/InsertFragment.a
usr/lib/avogadro2/staticplugins/apbs.a
usr/lib/avogadro2/staticplugins/CoordinateEditor.a
usr/lib/avogadro2/staticplugins/ThreeDMol.a
usr/lib/avogadro2/staticplugins/Symmetry.a
usr/lib/avogadro2/staticplugins/PlotPdf.a
usr/lib/avogadro2/staticplugins/PropertyTables.a
usr/lib/avogadro2/staticplugins/Vibrations.a
usr/lib/avogadro2/staticplugins/ScriptFileFormats.a
usr/lib/avogadro2/staticplugins/Navigator.a
usr/lib/avogadro2/staticplugins/commands.a
usr/lib/avogadro2/staticplugins/MolecularProperties.a
usr/lib/avogadro2/staticplugins/Licorice.a
usr/lib/avogadro2/staticplugins/GamessInput.a
usr/lib/avogadro2/staticplugins/TemplateTool.a
usr/lib/avogadro2/staticplugins/OpenBabel.a
usr/lib/avogadro2/staticplugins/PluginDownloader.a
usr/lib/avogadro2/staticplugins/Meshes.a
usr/lib/avogadro2/staticplugins/PlayerTool.a
usr/lib/avogadro2/staticplugins/PlotXrd.a
usr/lib/avogadro2/staticplugins/Manipulator.a
usr/lib/avogadro2/staticplugins/Crystal.a
usr/lib/avogadro2/staticplugins/VRML.a
usr/lib/avogadro2/staticplugins/POVRay.a
usr/lib/avogadro2/staticplugins/Cp2kInput.a
usr/lib/avogadro2/staticplugins/BondCentric.a
usr/lib/avogadro2/staticplugins/Editor.a
usr/lib/avogadro2/staticplugins/MeasureTool.a
usr/lib/libAvogadroQtPlugins.so.1.100.0
usr/lib/libAvogadroQtOpenGL.so.1.100.0
==> Creating package "avogadrolibs-qt5"...
  -> Generating .PKGINFO file...
  -> Generating .BUILDINFO file...
  -> Generating .MTREE file...
  -> Compressing package...
==> Leaving fakeroot environment.
==> Finished making: avogadrolibs 1.100.0-3 (Wed Jul  2 22:43:06 2025)
==> Cleaning up...