------------------------------------------------------------------------------- -- Phase: Environment ------------------------------------------------------------------------------- NO_DEPENDS=1 FLAVOR=py39 UNAME_r=6.5 UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=unknown UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 LANG=C HOME=/root USER=root TERM=dumb SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: showconfig ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ENV ------------------------------------------------------------------------------- PYTHON="/usr/local/bin/python3.9" XDG_DATA_HOME=/construction/science/py-avogadrolibs XDG_CONFIG_HOME=/construction/science/py-avogadrolibs XDG_CACHE_HOME=/construction/science/py-avogadrolibs/.cache HOME=/construction/science/py-avogadrolibs TMPDIR="/tmp" PATH=/construction/science/py-avogadrolibs/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/science/py-avogadrolibs/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: CONFIGURE_ARGS ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: MAKE_ENV ------------------------------------------------------------------------------- XDG_DATA_HOME=/construction/science/py-avogadrolibs XDG_CONFIG_HOME=/construction/science/py-avogadrolibs XDG_CACHE_HOME=/construction/science/py-avogadrolibs/.cache HOME=/construction/science/py-avogadrolibs TMPDIR="/tmp" PATH=/construction/science/py-avogadrolibs/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/science/py-avogadrolibs/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES CCVER=gcc80 PREFIX=/usr/local LOCALBASE=/usr/local NOPROFILE=1 CC="cc" CFLAGS="-pipe -O2 -fno-strict-aliasing " CPP="cpp" CPPFLAGS="" LDFLAGS=" " LIBS="" CXX="c++" CXXFLAGS=" -pipe -O2 -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: MAKE_ARGS ------------------------------------------------------------------------------- DESTDIR=/construction/science/py-avogadrolibs/stage SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: PLIST_SUB ------------------------------------------------------------------------------- CMAKE_BUILD_TYPE="release" PYTHON_INCLUDEDIR=include/python3.9 PYTHON_LIBDIR=lib/python3.9 PYTHON_PLATFORM=dragonfly6 PYTHON_SITELIBDIR=lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" OSREL=6.5 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/avogadrolibs" EXAMPLESDIR="share/examples/avogadrolibs" DATADIR="share/avogadrolibs" WWWDIR="www/avogadrolibs" ETCDIR="etc/avogadrolibs" SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: SUB_LIST ------------------------------------------------------------------------------- PYTHON_INCLUDEDIR=/usr/local/include/python3.9 PYTHON_LIBDIR=/usr/local/lib/python3.9 PYTHON_PLATFORM=dragonfly6 PYTHON_SITELIBDIR=/usr/local/lib/python3.9/site-packages PYTHON_SUFFIX=39 PYTHON_EXT_SUFFIX=.cpython-39 PYTHON_VER=3.9 PYTHON_VERSION=python3.9 PYTHON2="@comment " PYTHON3="" PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/avogadrolibs DOCSDIR=/usr/local/share/doc/avogadrolibs EXAMPLESDIR=/usr/local/share/examples/avogadrolibs WWWDIR=/usr/local/www/avogadrolibs ETCDIR=/usr/local/etc/avogadrolibs SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: /etc/make.conf ------------------------------------------------------------------------------- DPORTS_BUILDER=yes DISABLE_LICENSES=yes DEFAULT_VERSIONS=ssl=openssl FORCE_PACKAGE=yes DEVELOPER=yes DFLY_STING_XFAIL=yes USE_PACKAGE_DEPENDS_ONLY=yes PORTSDIR=/xports PORT_DBDIR=/options PKG_DBDIR=/var/db/pkg PKG_CACHEDIR=/var/cache/pkg PKG_COMPRESSION_FORMAT=.tgz DEVELOPER=1 WITH_CCACHE_BUILD=yes CCACHE_DIR=/ccache UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=600503 OSVERSION=9999999 OSREL=6.5 _OSRELEASE=6.5-SYNTH DISTDIR=/distfiles WRKDIRPREFIX=/construction BATCH=yes PACKAGE_BUILDING=yes PKG_CREATE_VERBOSE=yes MAKE_JOBS_NUMBER=13 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/pybind11-2.10.4.pkg Installing /packages/All/expat-2.5.0.pkg Installing /packages/All/libuv-1.46.0.pkg Installing /packages/All/indexinfo-0.3.1.pkg Installing /packages/All/gettext-runtime-0.21.1.pkg Installing /packages/All/openssl-1.1.1u,1.pkg Installing /packages/All/rhash-1.4.3.pkg Installing /packages/All/pkg-1.19.2.pkg Installing /packages/All/liblz4-1.9.4,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/zstd-1.5.5.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libarchive-3.6.2,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/ncurses-6.4.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required ===== Message from ncurses-6.4: -- To get the terminfo database please install the terminfo-db package: pkg install terminfo-db Installing /packages/All/cmake-core-3.26.1_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/gmp-6.2.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/mpfr-4.2.0_1,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/mpc-1.3.1_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required UNFLAVORED devel/binutils -> use devel/binutils@native Installing /packages/All/binutils-2.40_4,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/gcc12-12.2.0_6.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required ===== Message from gcc12-12.2.0_6: -- To ensure binaries built with this toolchain find appropriate versions of the necessary run-time libraries, you may want to link using -Wl,-rpath=/usr/local/lib/gcc12 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. Installing /packages/All/blas-3.11.0_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/lapack-3.11.0_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/eigen-3.4.0_2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libffi-3.4.4.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/mpdecimal-2.5.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/readline-8.2.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/python39-3.9.17.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required ===== Message from python39-3.9.17: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py39-gdbm databases/py-gdbm@py39 py39-sqlite3 databases/py-sqlite3@py39 py39-tkinter x11-toolkits/py-tkinter@py39 Installing /packages/All/ccache-3.7.12_4.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Create compiler links... create symlink for cc create symlink for cc (world) create symlink for c++ create symlink for c++ (world) create symlink for CC create symlink for CC (world) create symlink for gcc create symlink for gcc (world) create symlink for g++ create symlink for g++ (world) create symlink for gcc12 create symlink for gcc12 (world) create symlink for g++12 create symlink for g++12 (world) create symlink for cpp12 create symlink for cpp12 (world) ===== Message from ccache-3.7.12_4: -- NOTE: Please read /usr/local/share/doc/ccache/ccache-howto-freebsd.txt for information on using ccache with FreeBSD ports and src. Installing /packages/All/libmsym-0.2.3.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/spglib-2.0.2_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXau-1.0.9.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/xorgproto-2022.1_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXdmcp-1.1.3.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libxcb-1.15_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libX11-1.8.6,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXext-1.3.4,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libglvnd-1.6.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libGLU-9.0.2_2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libICE-1.1.0_1,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libSM-1.2.3,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXt-1.2.1,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/glew-2.2.0_3.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/double-conversion-3.3.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/icu-73.2,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/pcre2-10.42.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libxml2-2.10.4.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libiconv-1.17.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/glib-2.76.4,2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Generating GIO modules cache Compiling glib schemas No schema files found: doing nothing. Installing /packages/All/qt5-core-5.15.8p157_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/qt5-concurrent-5.15.8p157.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/dbus-1.14.6,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required ===> Creating groups. Creating group 'messagebus' with gid '556'. ===> Creating users Creating user 'messagebus' with uid '556'. Installing /packages/All/libevdev-1.5.9.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/brotli-1.0.9,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/png-1.6.39.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/freetype2-2.12.1_2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required ===== Message from freetype2-2.12.1_2: -- The 2.7.x series now uses the new subpixel hinting mode (V40 port's option) as the default, emulating a modern version of ClearType. This change inevitably leads to different rendering results, and you might change port's options to adapt it to your taste (or use the new "FREETYPE_PROPERTIES" environment variable). The environment variable "FREETYPE_PROPERTIES" can be used to control the driver properties. Example: FREETYPE_PROPERTIES=truetype:interpreter-version=35 \ cff:no-stem-darkening=1 \ autofitter:warping=1 This allows to select, say, the subpixel hinting mode at runtime for a given application. If LONG_PCF_NAMES port's option was enabled, the PCF family names may include the foundry and information whether they contain wide characters. For example, "Sony Fixed" or "Misc Fixed Wide", instead of "Fixed". This can be disabled at run time with using pcf:no-long-family-names property, if needed. Example: FREETYPE_PROPERTIES=pcf:no-long-family-names=1 How to recreate fontconfig cache with using such environment variable, if needed: # env FREETYPE_PROPERTIES=pcf:no-long-family-names=1 fc-cache -fsv The controllable properties are listed in the section "Controlling FreeType Modules" in the reference's table of contents (/usr/local/share/doc/freetype2/reference/index.html, if documentation was installed). Installing /packages/All/fontconfig-2.14.2,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Running fc-cache to build fontconfig cache... Installing /packages/All/graphite2-1.3.14.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/harfbuzz-7.3.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libepoll-shim-0.0.20230411.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libudev-devd-0.5.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libmtdev-1.1.6_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libgudev-234.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libwacom-1.5.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/py39-setuptools-63.1.0_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/py39-evdev-1.6.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/py39-six-1.16.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/py39-pyudev-0.22.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libinput-1.23.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/xcb-util-0.4.1,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/xcb-util-wm-0.4.2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/xcb-util-image-0.4.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/xcb-util-keysyms-0.4.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/xcb-util-renderutil-0.3.10.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/wayland-1.22.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required ===== Message from wayland-1.22.0: -- Wayland requires XDG_RUNTIME_DIR to be defined to a path that will contain "wayland-%d" unix(4) sockets. This is usually handled by consolekit2 (via ck-launch-session) or pam_xdg (via login). Installing /packages/All/xkeyboard-config-2.34_2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libxkbcommon-1.5.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required ===== Message from libxkbcommon-1.5.0: -- If arrow keys don't work under X11 switch to legacy rules e.g., For sh/bash/ksh/zsh run and (optionally) add into ~/.profile: export XKB_DEFAULT_RULES=xorg For csh/tcsh run and (optionally) add into ~/.login: setenv XKB_DEFAULT_RULES xorg Installing /packages/All/jpeg-turbo-2.1.5.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/qt5-dbus-5.15.8p157.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/ca_root_nss-3.89.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required ===== Message from ca_root_nss-3.89.1: -- FreeBSD does not, and can not warrant that the certification authorities whose certificates are included in this package have in any way been audited for trustworthiness or RFC 3647 compliance. Assessment and verification of trust is the complete responsibility of the system administrator. This package installs symlinks to support root certificates discovery by default for software that uses OpenSSL. This enables SSL Certificate Verification by client software without manual intervention. If you prefer to do this manually, replace the following symlinks with either an empty file or your site-local certificate bundle. * /etc/ssl/cert.pem * /usr/local/etc/ssl/cert.pem * /usr/local/openssl/cert.pem Installing /packages/All/qt5-network-5.15.8p157.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/vulkan-headers-1.3.257.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/hicolor-icon-theme-0.17.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/xprop-1.2.6.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXmu-1.1.3,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/xset-1.2.5.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/xdg-utils-1.1.3_2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/encodings-1.0.5,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libfontenc-1.1.4.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/mkfontscale-1.2.1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/font-bh-ttf-1.0.3_4.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Running fc-cache to build fontconfig cache... Installing /packages/All/font-misc-meltho-1.0.3_4.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/font-misc-ethiopic-1.0.4.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/dejavu-2.37_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Running fc-cache to build fontconfig cache... ===== Message from dejavu-2.37_1: -- Make sure that the freetype module is loaded. If it is not, add the following line to the "Modules" section of your X Windows configuration file: Load "freetype" Add the following line to the "Files" section of X Windows configuration file: FontPath "/usr/local/share/fonts/dejavu/" Note: your X Windows configuration file is typically /etc/X11/XF86Config if you are using XFree86, and /etc/X11/xorg.conf if you are using X.Org. Installing /packages/All/xorg-fonts-truetype-7.7_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXfixes-6.0.0.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXi-1.8,1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/libXrender-0.9.10_2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/qt5-gui-5.15.8p157_1.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/qt5-widgets-5.15.8p157.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/qt5-svg-5.15.8p8.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required Installing /packages/All/avogadrolibs-1.97.0_2.pkg pkg: Repository Avalon cannot be opened. 'pkg update' required UNFLAVORED devel/binutils -> use devel/binutils@native SUCCEEDED 00:00:27 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-avogadrolibs-1.97.0_1 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-avogadrolibs-1.97.0_1 for building => SHA256 Checksum OK for OpenChemistry-avogadrolibs-1.97.0_GH0.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-avogadrolibs-1.97.0_1 for building ===> Extracting for py39-avogadrolibs-1.97.0_1 => SHA256 Checksum OK for OpenChemistry-avogadrolibs-1.97.0_GH0.tar.gz. Extracted Memory Use: 30.19M SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for py39-avogadrolibs-1.97.0_1 ===> Applying ports patches for py39-avogadrolibs-1.97.0_1 from /xports/science/py-avogadrolibs/files SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/include/pybind11/pybind11.h - found ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/bin/cmake - found ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/libdata/pkgconfig/eigen3.pc - found ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/bin/python3.9 - found ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/bin/ccache - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- ===> py39-avogadrolibs-1.97.0_1 depends on shared library: libAvogadroCore.so - found (/usr/local/lib/libAvogadroCore.so) SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/include/pybind11/pybind11.h - found ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/bin/cmake - found ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/libdata/pkgconfig/eigen3.pc - found ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/bin/python3.9 - found ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/bin/ccache - found ===> py39-avogadrolibs-1.97.0_1 depends on shared library: libAvogadroCore.so - found (/usr/local/lib/libAvogadroCore.so) ===> Configuring for py39-avogadrolibs-1.97.0_1 ===> Performing out-of-source build /bin/mkdir -p /construction/science/py-avogadrolibs/.build CMake Warning (dev) in CMakeLists.txt: No project() command is present. The top-level CMakeLists.txt file must contain a literal, direct call to the project() command. Add a line of code such as project(ProjectName) near the top of the file, but after cmake_minimum_required(). CMake is pretending there is a "project(Project)" command on the first line. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) in CMakeLists.txt: cmake_minimum_required() should be called prior to this top-level project() call. Please see the cmake-commands(7) manual for usage documentation of both commands. This warning is for project developers. Use -Wno-dev to suppress it. -- The C compiler identification is GNU 8.3.0 -- The CXX compiler identification is GNU 8.3.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/local/libexec/ccache/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/local/libexec/ccache/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found PythonInterp: /usr/local/bin/python3.9 (found suitable version "3.9.17", minimum required is "3") -- Found PythonLibs: /usr/local/lib/libpython3.9.so (found suitable version "3.9.17", minimum required is "3") CMake Warning at /usr/local/share/cmake/pybind11/pybind11Common.cmake:153 (message): USE -DCMAKE_CXX_STANDARD=11 instead of PYBIND11_CPP_STANDARD Call Stack (most recent call first): /usr/local/share/cmake/pybind11/pybind11Config.cmake:248 (include) CMakeLists.txt:8 (find_package) -- Found PythonLibs: /usr/local/lib/libpython3.9.so -- Performing Test HAS_FLTO -- Performing Test HAS_FLTO - Success -- Found pybind11: /usr/local/include (found version "2.10.4") -- Configuring done (2.8s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: BOOST_PYTHON_SUFFIX CMAKE_CXX_FLAGS_DEBUG CMAKE_C_FLAGS_DEBUG CMAKE_C_FLAGS_RELEASE CMAKE_SHARED_LINKER_FLAGS FETCHCONTENT_FULLY_DISCONNECTED THREADS_HAVE_PTHREAD_ARG -- Build files have been written to: /construction/science/py-avogadrolibs/.build SUCCEEDED 00:00:03 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for py39-avogadrolibs-1.97.0_1 /usr/local/bin/cmake -S/construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python -B/construction/science/py-avogadrolibs/.build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/local/bin/cmake -E cmake_progress_start /construction/science/py-avogadrolibs/.build/CMakeFiles /construction/science/py-avogadrolibs/.build//CMakeFiles/progress.marks /usr/bin/make -f CMakeFiles/Makefile2 all --- CMakeFiles/avogadrocorepython.dir/all --- --- CMakeFiles/avogadroiopython.dir/all --- --- CMakeFiles/avogadrocorepython.dir/all --- /usr/bin/make -f CMakeFiles/avogadrocorepython.dir/build.make CMakeFiles/avogadrocorepython.dir/depend --- CMakeFiles/avogadroiopython.dir/all --- /usr/bin/make -f CMakeFiles/avogadroiopython.dir/build.make CMakeFiles/avogadroiopython.dir/depend --- CMakeFiles/avogadrocorepython.dir/all --- --- CMakeFiles/avogadrocorepython.dir/depend --- cd /construction/science/py-avogadrolibs/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python /construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python /construction/science/py-avogadrolibs/.build /construction/science/py-avogadrolibs/.build /construction/science/py-avogadrolibs/.build/CMakeFiles/avogadrocorepython.dir/DependInfo.cmake --- CMakeFiles/avogadroiopython.dir/all --- --- CMakeFiles/avogadroiopython.dir/depend --- cd /construction/science/py-avogadrolibs/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python /construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python /construction/science/py-avogadrolibs/.build /construction/science/py-avogadrolibs/.build /construction/science/py-avogadrolibs/.build/CMakeFiles/avogadroiopython.dir/DependInfo.cmake /usr/bin/make -f CMakeFiles/avogadroiopython.dir/build.make CMakeFiles/avogadroiopython.dir/build --- CMakeFiles/avogadroiopython.dir/io.cpp.o --- [ 16%] Building CXX object CMakeFiles/avogadroiopython.dir/io.cpp.o /usr/local/libexec/ccache/c++ -Davogadroiopython_EXPORTS -isystem /avogadro/core -isystem /avogadro/io -isystem /avogadro/quantumio -isystem /usr/local/include/python3.9 -isystem /usr/local/include/eigen3 -isystem /usr/local/include -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DNDEBUG -std=gnu++11 -fPIC -fvisibility=hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/avogadroiopython.dir/io.cpp.o -MF CMakeFiles/avogadroiopython.dir/io.cpp.o.d -o CMakeFiles/avogadroiopython.dir/io.cpp.o -c /construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python/io.cpp --- CMakeFiles/avogadrocorepython.dir/all --- /usr/bin/make -f CMakeFiles/avogadrocorepython.dir/build.make CMakeFiles/avogadrocorepython.dir/build --- CMakeFiles/avogadrocorepython.dir/core.cpp.o --- [ 33%] Building CXX object CMakeFiles/avogadrocorepython.dir/core.cpp.o /usr/local/libexec/ccache/c++ -Davogadrocorepython_EXPORTS -isystem /avogadro/core -isystem /avogadro/io -isystem /avogadro/quantumio -isystem /usr/local/include/python3.9 -isystem /usr/local/include/eigen3 -isystem /usr/local/include -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DNDEBUG -std=gnu++11 -fPIC -fvisibility=hidden -flto -fno-fat-lto-objects -MD -MT CMakeFiles/avogadrocorepython.dir/core.cpp.o -MF CMakeFiles/avogadrocorepython.dir/core.cpp.o.d -o CMakeFiles/avogadrocorepython.dir/core.cpp.o -c /construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python/core.cpp --- CMakeFiles/avogadroiopython.dir/all --- --- lib/avogadro/io.cpython-39.so --- [ 50%] Linking CXX shared module lib/avogadro/io.cpython-39.so /usr/local/bin/cmake -E cmake_link_script CMakeFiles/avogadroiopython.dir/link.txt --verbose=1 /usr/local/libexec/ccache/c++ -fPIC -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DNDEBUG -flto -shared -o lib/avogadro/io.cpython-39.so CMakeFiles/avogadroiopython.dir/io.cpp.o -Wl,-z,origin,-rpath,/usr/local/lib /usr/local/lib/libAvogadroQuantumIO.so.1.97.0 /usr/local/lib/libAvogadroIO.so.1.97.0 /usr/local/lib/libAvogadroCore.so.1.97.0 --- CMakeFiles/avogadrocorepython.dir/all --- --- lib/avogadro/core.cpython-39.so --- [ 66%] Linking CXX shared module lib/avogadro/core.cpython-39.so /usr/local/bin/cmake -E cmake_link_script CMakeFiles/avogadrocorepython.dir/link.txt --verbose=1 /usr/local/libexec/ccache/c++ -fPIC -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DNDEBUG -flto -shared -o lib/avogadro/core.cpython-39.so CMakeFiles/avogadrocorepython.dir/core.cpp.o -Wl,-z,origin,-rpath,/usr/local/lib /usr/local/lib/libAvogadroCore.so.1.97.0 --- CMakeFiles/avogadroiopython.dir/all --- /usr/bin/strip /construction/science/py-avogadrolibs/.build/lib/avogadro/io.cpython-39.so [ 83%] Built target avogadroiopython --- CMakeFiles/avogadrocorepython.dir/all --- /usr/bin/strip /construction/science/py-avogadrolibs/.build/lib/avogadro/core.cpython-39.so [100%] Built target avogadrocorepython /usr/local/bin/cmake -E cmake_progress_start /construction/science/py-avogadrolibs/.build/CMakeFiles 0 SUCCEEDED 00:00:26 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/bin/python3.9 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for py39-avogadrolibs-1.97.0_1 ===> py39-avogadrolibs-1.97.0_1 depends on file: /usr/local/bin/python3.9 - found ===> Generating temporary packing list /usr/local/bin/cmake -S/construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python -B/construction/science/py-avogadrolibs/.build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/local/bin/cmake -E cmake_progress_start /construction/science/py-avogadrolibs/.build/CMakeFiles /construction/science/py-avogadrolibs/.build//CMakeFiles/progress.marks /usr/bin/make -f CMakeFiles/Makefile2 all /usr/bin/make -f CMakeFiles/avogadrocorepython.dir/build.make CMakeFiles/avogadrocorepython.dir/depend cd /construction/science/py-avogadrolibs/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python /construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python /construction/science/py-avogadrolibs/.build /construction/science/py-avogadrolibs/.build /construction/science/py-avogadrolibs/.build/CMakeFiles/avogadrocorepython.dir/DependInfo.cmake /usr/bin/make -f CMakeFiles/avogadrocorepython.dir/build.make CMakeFiles/avogadrocorepython.dir/build [ 50%] Built target avogadrocorepython /usr/bin/make -f CMakeFiles/avogadroiopython.dir/build.make CMakeFiles/avogadroiopython.dir/depend cd /construction/science/py-avogadrolibs/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python /construction/science/py-avogadrolibs/avogadrolibs-1.97.0/python /construction/science/py-avogadrolibs/.build /construction/science/py-avogadrolibs/.build /construction/science/py-avogadrolibs/.build/CMakeFiles/avogadroiopython.dir/DependInfo.cmake /usr/bin/make -f CMakeFiles/avogadroiopython.dir/build.make CMakeFiles/avogadroiopython.dir/build [100%] Built target avogadroiopython /usr/local/bin/cmake -E cmake_progress_start /construction/science/py-avogadrolibs/.build/CMakeFiles 0 /usr/bin/make -f CMakeFiles/Makefile2 preinstall /usr/bin/make -f CMakeFiles/avogadrocorepython.dir/build.make CMakeFiles/avogadrocorepython.dir/preinstall Linking CXX shared module CMakeFiles/CMakeRelink.dir/core.cpython-39.so /usr/local/bin/cmake -E cmake_link_script CMakeFiles/avogadrocorepython.dir/relink.txt --verbose=1 /usr/local/libexec/ccache/c++ -fPIC -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DNDEBUG -flto -shared -o CMakeFiles/CMakeRelink.dir/core.cpython-39.so CMakeFiles/avogadrocorepython.dir/core.cpp.o -Wl,-z,origin,-rpath,"\$ORIGIN:/usr/local/lib" /usr/local/lib/libAvogadroCore.so.1.97.0 /usr/bin/make -f CMakeFiles/avogadroiopython.dir/build.make CMakeFiles/avogadroiopython.dir/preinstall Linking CXX shared module CMakeFiles/CMakeRelink.dir/io.cpython-39.so /usr/local/bin/cmake -E cmake_link_script CMakeFiles/avogadroiopython.dir/relink.txt --verbose=1 /usr/local/libexec/ccache/c++ -fPIC -pipe -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -DNDEBUG -flto -shared -o CMakeFiles/CMakeRelink.dir/io.cpython-39.so CMakeFiles/avogadroiopython.dir/io.cpp.o -Wl,-z,origin,-rpath,"\$ORIGIN:/usr/local/lib" /usr/local/lib/libAvogadroQuantumIO.so.1.97.0 /usr/local/lib/libAvogadroIO.so.1.97.0 /usr/local/lib/libAvogadroCore.so.1.97.0 Installing the project stripped... /usr/local/bin/cmake -DCMAKE_INSTALL_DO_STRIP=1 -P cmake_install.cmake -- Install configuration: "Release" -- Installing: /construction/science/py-avogadrolibs/stage/usr/local/lib/python3.9/site-packages/avogadro/core.cpython-39.so -- Installing: /construction/science/py-avogadrolibs/stage/usr/local/lib/python3.9/site-packages/avogadro/io.cpython-39.so -- Installing: /construction/science/py-avogadrolibs/stage/usr/local/lib/python3.9/site-packages/avogadro/__init__.py ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Error: /usr/local/lib/python3.9/site-packages/avogadro/core.cpython-39.so is linked to /usr/local/lib/libsymspg.so.1 from science/spglib but it is not declared as a dependency Warning: you need LIB_DEPENDS+=libsymspg.so:science/spglib Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks SUCCEEDED 00:00:27 ------------------------------------------------------------------------------- -- Phase: check-plist ------------------------------------------------------------------------------- ====> Checking for pkg-plist issues (check-plist) ===> Parsing plist ===> Checking for items in STAGEDIR missing from pkg-plist ===> Checking for items in pkg-plist which are not in STAGEDIR ===> No pkg-plist issues found (check-plist) SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for py39-avogadrolibs-1.97.0_1 file sizes/checksums [3]: 0% file sizes/checksums [3]: 100% Service unavailablepacking files [3]: 0% packing files [3]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:01 TOTAL TIME 00:01:26