------------------------------------------------------------------------------- -- 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/math/py-hdbscan XDG_CONFIG_HOME=/construction/math/py-hdbscan XDG_CACHE_HOME=/construction/math/py-hdbscan/.cache HOME=/construction/math/py-hdbscan TMPDIR="/tmp" PATH=/construction/math/py-hdbscan/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/math/py-hdbscan/.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/math/py-hdbscan XDG_CONFIG_HOME=/construction/math/py-hdbscan XDG_CACHE_HOME=/construction/math/py-hdbscan/.cache HOME=/construction/math/py-hdbscan TMPDIR="/tmp" PATH=/construction/math/py-hdbscan/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin PKG_CONFIG_LIBDIR=/construction/math/py-hdbscan/.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 LDSHARED="cc -shared" PYTHONDONTWRITEBYTECODE= PYTHONOPTIMIZE= 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/math/py-hdbscan/stage SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: PLIST_SUB ------------------------------------------------------------------------------- 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/py39-hdbscan" EXAMPLESDIR="share/examples/py39-hdbscan" DATADIR="share/py39-hdbscan" WWWDIR="www/py39-hdbscan" ETCDIR="etc/py39-hdbscan" 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/py39-hdbscan DOCSDIR=/usr/local/share/doc/py39-hdbscan EXAMPLESDIR=/usr/local/share/examples/py39-hdbscan WWWDIR=/usr/local/www/py39-hdbscan ETCDIR=/usr/local/etc/py39-hdbscan 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/metis-5.1.0_9.pkg ===== Message from metis-5.1.0_9: -- ===> NOTICE: The metis port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://docs.freebsd.org/en/articles/contributing/#ports-contributing Installing /packages/All/indexinfo-0.3.1.pkg Installing /packages/All/gmp-6.2.1.pkg Installing /packages/All/mpfr-4.2.0,1.pkg Installing /packages/All/mpc-1.2.1.pkg UNFLAVORED devel/binutils -> use devel/binutils@native Installing /packages/All/liblz4-1.9.4,1.pkg Installing /packages/All/zstd-1.5.4.pkg Installing /packages/All/gettext-runtime-0.21.1.pkg Installing /packages/All/binutils-2.40_4,1.pkg Installing /packages/All/gcc12-12.2.0_5.pkg ===== Message from gcc12-12.2.0_5: -- 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/openblas-0.3.20,1.pkg Installing /packages/All/suitesparse-config-7.0.1.pkg Installing /packages/All/suitesparse-amd-3.0.3.pkg Installing /packages/All/suitesparse-camd-3.0.3.pkg Installing /packages/All/suitesparse-colamd-3.0.3.pkg Installing /packages/All/suitesparse-ccolamd-3.0.3.pkg Installing /packages/All/suitesparse-cholmod-4.0.3.pkg Installing /packages/All/suitesparse-umfpack-6.1.0.pkg Installing /packages/All/libffi-3.4.4.pkg Installing /packages/All/expat-2.5.0.pkg Installing /packages/All/mpdecimal-2.5.1.pkg Installing /packages/All/ncurses-6.3.pkg ===== Message from ncurses-6.3: -- To get the terminfo database please install the terminfo-db package: pkg install terminfo-db Installing /packages/All/readline-8.2.1.pkg Installing /packages/All/openssl-1.1.1u,1.pkg Installing /packages/All/python39-3.9.17.pkg ===== 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/py39-setuptools-63.1.0.pkg Installing /packages/All/py39-numpy-1.24.1,1.pkg Installing /packages/All/py39-cython-0.29.33.pkg Installing /packages/All/ccache-3.7.12_4.pkg 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/py39-joblib-1.1.0.pkg Installing /packages/All/blas-3.11.0.pkg Installing /packages/All/py39-scipy-1.10.0.pkg Installing /packages/All/py39-threadpoolctl-3.1.0.pkg Installing /packages/All/py39-scikit-learn-1.2.2.pkg UNFLAVORED devel/binutils -> use devel/binutils@native SUCCEEDED 00:00:42 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> py39-hdbscan-0.8.29 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> py39-hdbscan-0.8.29 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-hdbscan-0.8.29 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> py39-hdbscan-0.8.29 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-hdbscan-0.8.29 for building => SHA256 Checksum OK for hdbscan-0.8.29.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> py39-hdbscan-0.8.29 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py39-hdbscan-0.8.29 for building ===> Extracting for py39-hdbscan-0.8.29 => SHA256 Checksum OK for hdbscan-0.8.29.tar.gz. Extracted Memory Use: 7.55M SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for py39-hdbscan-0.8.29 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> py39-hdbscan-0.8.29 depends on package: py39-numpy>=1.16,1 - found ===> py39-hdbscan-0.8.29 depends on executable: cython-3.9 - found ===> py39-hdbscan-0.8.29 depends on package: py39-setuptools>=63.1.0 - found ===> py39-hdbscan-0.8.29 depends on file: /usr/local/bin/python3.9 - found ===> py39-hdbscan-0.8.29 depends on file: /usr/local/bin/ccache - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> py39-hdbscan-0.8.29 depends on package: py39-numpy>=1.16,1 - found ===> py39-hdbscan-0.8.29 depends on executable: cython-3.9 - found ===> py39-hdbscan-0.8.29 depends on package: py39-setuptools>=63.1.0 - found ===> py39-hdbscan-0.8.29 depends on file: /usr/local/bin/python3.9 - found ===> py39-hdbscan-0.8.29 depends on file: /usr/local/bin/ccache - found ===> Configuring for py39-hdbscan-0.8.29 running config SUCCEEDED 00:00:03 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for py39-hdbscan-0.8.29 running build running build_py creating build creating build/lib.dragonfly-6.5-x86_64-cpython-39 creating build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan copying hdbscan/__init__.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan copying hdbscan/flat.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan copying hdbscan/hdbscan_.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan copying hdbscan/plots.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan copying hdbscan/prediction.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan copying hdbscan/robust_single_linkage_.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan copying hdbscan/validity.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan creating build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/tests copying hdbscan/tests/__init__.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/tests copying hdbscan/tests/test_flat.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/tests copying hdbscan/tests/test_hdbscan.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/tests copying hdbscan/tests/test_prediction_utils.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/tests copying hdbscan/tests/test_rsl.py -> build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/tests running build_ext cythoning hdbscan/_hdbscan_tree.pyx to hdbscan/_hdbscan_tree.c /usr/local/lib/python3.9/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /construction/math/py-hdbscan/hdbscan-0.8.29/hdbscan/_hdbscan_tree.pyx tree = Parsing.p_module(s, pxd, full_module_name) cythoning hdbscan/_hdbscan_linkage.pyx to hdbscan/_hdbscan_linkage.c /usr/local/lib/python3.9/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /construction/math/py-hdbscan/hdbscan-0.8.29/hdbscan/_hdbscan_linkage.pyx tree = Parsing.p_module(s, pxd, full_module_name) cythoning hdbscan/_hdbscan_boruvka.pyx to hdbscan/_hdbscan_boruvka.c /usr/local/lib/python3.9/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /construction/math/py-hdbscan/hdbscan-0.8.29/hdbscan/_hdbscan_boruvka.pyx tree = Parsing.p_module(s, pxd, full_module_name) cythoning hdbscan/_hdbscan_reachability.pyx to hdbscan/_hdbscan_reachability.c /usr/local/lib/python3.9/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /construction/math/py-hdbscan/hdbscan-0.8.29/hdbscan/_hdbscan_reachability.pyx tree = Parsing.p_module(s, pxd, full_module_name) cythoning hdbscan/_prediction_utils.pyx to hdbscan/_prediction_utils.c /usr/local/lib/python3.9/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /construction/math/py-hdbscan/hdbscan-0.8.29/hdbscan/_prediction_utils.pyx tree = Parsing.p_module(s, pxd, full_module_name) cythoning hdbscan/dist_metrics.pyx to hdbscan/dist_metrics.c /usr/local/lib/python3.9/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /construction/math/py-hdbscan/hdbscan-0.8.29/hdbscan/dist_metrics.pxd tree = Parsing.p_module(s, pxd, full_module_name) building 'hdbscan._hdbscan_tree' extension creating build/temp.dragonfly-6.5-x86_64-cpython-39 creating build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan cc -Wno-unused-result -Wsign-compare -DNDEBUG -pipe -I/usr/local/include -I/usr/local/include/ncurses -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -fPIC -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -c hdbscan/_hdbscan_tree.c -o build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_tree.o In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1940, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, from hdbscan/_hdbscan_tree.c:746: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ cc -shared -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_tree.o -L/usr/local/lib -o build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_tree.cpython-39.so building 'hdbscan._hdbscan_linkage' extension cc -Wno-unused-result -Wsign-compare -DNDEBUG -pipe -I/usr/local/include -I/usr/local/include/ncurses -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -fPIC -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -c hdbscan/_hdbscan_linkage.c -o build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_linkage.o In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1940, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, from hdbscan/_hdbscan_linkage.c:746: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ cc -shared -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_linkage.o -L/usr/local/lib -o build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_linkage.cpython-39.so building 'hdbscan._hdbscan_boruvka' extension cc -Wno-unused-result -Wsign-compare -DNDEBUG -pipe -I/usr/local/include -I/usr/local/include/ncurses -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -fPIC -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -c hdbscan/_hdbscan_boruvka.c -o build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_boruvka.o In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1940, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, from hdbscan/_hdbscan_boruvka.c:746: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ cc -shared -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_boruvka.o -L/usr/local/lib -o build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_boruvka.cpython-39.so building 'hdbscan._hdbscan_reachability' extension cc -Wno-unused-result -Wsign-compare -DNDEBUG -pipe -I/usr/local/include -I/usr/local/include/ncurses -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -fPIC -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -c hdbscan/_hdbscan_reachability.c -o build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_reachability.o In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1940, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, from hdbscan/_hdbscan_reachability.c:746: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ cc -shared -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_reachability.o -L/usr/local/lib -o build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_reachability.cpython-39.so building 'hdbscan._prediction_utils' extension cc -Wno-unused-result -Wsign-compare -DNDEBUG -pipe -I/usr/local/include -I/usr/local/include/ncurses -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -fPIC -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -c hdbscan/_prediction_utils.c -o build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/_prediction_utils.o In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1940, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, from hdbscan/_prediction_utils.c:746: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ cc -shared -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/_prediction_utils.o -L/usr/local/lib -o build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/_prediction_utils.cpython-39.so building 'hdbscan.dist_metrics' extension cc -Wno-unused-result -Wsign-compare -DNDEBUG -pipe -I/usr/local/include -I/usr/local/include/ncurses -O2 -fno-strict-aliasing -pipe -O2 -fno-strict-aliasing -fPIC -I/usr/local/include/python3.9 -I/usr/local/lib/python3.9/site-packages/numpy/core/include -c hdbscan/dist_metrics.c -o build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/dist_metrics.o In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1940, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, from hdbscan/dist_metrics.c:746: /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ hdbscan/dist_metrics.c: In function '__pyx_f_7hdbscan_12dist_metrics_18SEuclideanDistance_dist': hdbscan/dist_metrics.c:7320:75: warning: passing argument 1 of '__pyx_f_7hdbscan_12dist_metrics_18SEuclideanDistance_rdist' from incompatible pointer type [-Wincompatible-pointer-types] __pyx_t_1 = __pyx_f_7hdbscan_12dist_metrics_18SEuclideanDistance_rdist(((struct __pyx_obj_7hdbscan_12dist_metrics_DistanceMetric *)__pyx_v_self), __pyx_v_x1, __pyx_v_x2, __pyx_v_size); if (unlikely(__pyx_t_1 == ((__pyx_t_7hdbscan_12dist_metrics_DTYPE_t)-1.0))) __PYX_ERR(1, 474, __pyx_L1_error) ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ hdbscan/dist_metrics.c:7117:168: note: expected 'struct __pyx_obj_7hdbscan_12dist_metrics_SEuclideanDistance *' but argument is of type 'struct __pyx_obj_7hdbscan_12dist_metrics_DistanceMetric *' static __pyx_t_7hdbscan_12dist_metrics_DTYPE_t __pyx_f_7hdbscan_12dist_metrics_18SEuclideanDistance_rdist(struct __pyx_obj_7hdbscan_12dist_metrics_SEuclideanDistance *__pyx_v_self, __pyx_t_7hdbscan_12dist_metrics_DTYPE_t *__pyx_v_x1, __pyx_t_7hdbscan_12dist_metrics_DTYPE_t *__pyx_v_x2, __pyx_t_7hdbscan_12dist_metrics_ITYPE_t __pyx_v_size) { ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ hdbscan/dist_metrics.c: In function '__pyx_f_7hdbscan_12dist_metrics_17MinkowskiDistance_dist': hdbscan/dist_metrics.c:8096:74: warning: passing argument 1 of '__pyx_f_7hdbscan_12dist_metrics_17MinkowskiDistance_rdist' from incompatible pointer type [-Wincompatible-pointer-types] __pyx_t_1 = __pyx_f_7hdbscan_12dist_metrics_17MinkowskiDistance_rdist(((struct __pyx_obj_7hdbscan_12dist_metrics_DistanceMetric *)__pyx_v_self), __pyx_v_x1, __pyx_v_x2, __pyx_v_size); if (unlikely(__pyx_t_1 == ((__pyx_t_7hdbscan_12dist_metrics_DTYPE_t)-1.0))) __PYX_ERR(1, 563, __pyx_L1_error) ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ hdbscan/dist_metrics.c:8012:166: note: expected 'struct __pyx_obj_7hdbscan_12dist_metrics_MinkowskiDistance *' but argument is of type 'struct __pyx_obj_7hdbscan_12dist_metrics_DistanceMetric *' static __pyx_t_7hdbscan_12dist_metrics_DTYPE_t __pyx_f_7hdbscan_12dist_metrics_17MinkowskiDistance_rdist(struct __pyx_obj_7hdbscan_12dist_metrics_MinkowskiDistance *__pyx_v_self, __pyx_t_7hdbscan_12dist_metrics_DTYPE_t *__pyx_v_x1, __pyx_t_7hdbscan_12dist_metrics_DTYPE_t *__pyx_v_x2, __pyx_t_7hdbscan_12dist_metrics_ITYPE_t __pyx_v_size) { ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ hdbscan/dist_metrics.c: In function '__pyx_f_7hdbscan_12dist_metrics_18WMinkowskiDistance_dist': hdbscan/dist_metrics.c:8794:75: warning: passing argument 1 of '__pyx_f_7hdbscan_12dist_metrics_18WMinkowskiDistance_rdist' from incompatible pointer type [-Wincompatible-pointer-types] __pyx_t_1 = __pyx_f_7hdbscan_12dist_metrics_18WMinkowskiDistance_rdist(((struct __pyx_obj_7hdbscan_12dist_metrics_DistanceMetric *)__pyx_v_self), __pyx_v_x1, __pyx_v_x2, __pyx_v_size); if (unlikely(__pyx_t_1 == ((__pyx_t_7hdbscan_12dist_metrics_DTYPE_t)-1.0))) __PYX_ERR(1, 622, __pyx_L1_error) ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ hdbscan/dist_metrics.c:8601:168: note: expected 'struct __pyx_obj_7hdbscan_12dist_metrics_WMinkowskiDistance *' but argument is of type 'struct __pyx_obj_7hdbscan_12dist_metrics_DistanceMetric *' static __pyx_t_7hdbscan_12dist_metrics_DTYPE_t __pyx_f_7hdbscan_12dist_metrics_18WMinkowskiDistance_rdist(struct __pyx_obj_7hdbscan_12dist_metrics_WMinkowskiDistance *__pyx_v_self, __pyx_t_7hdbscan_12dist_metrics_DTYPE_t *__pyx_v_x1, __pyx_t_7hdbscan_12dist_metrics_DTYPE_t *__pyx_v_x2, __pyx_t_7hdbscan_12dist_metrics_ITYPE_t __pyx_v_size) { ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ hdbscan/dist_metrics.c: In function '__pyx_f_7hdbscan_12dist_metrics_19MahalanobisDistance_dist': hdbscan/dist_metrics.c:9623:76: warning: passing argument 1 of '__pyx_f_7hdbscan_12dist_metrics_19MahalanobisDistance_rdist' from incompatible pointer type [-Wincompatible-pointer-types] __pyx_t_1 = __pyx_f_7hdbscan_12dist_metrics_19MahalanobisDistance_rdist(((struct __pyx_obj_7hdbscan_12dist_metrics_DistanceMetric *)__pyx_v_self), __pyx_v_x1, __pyx_v_x2, __pyx_v_size); if (unlikely(__pyx_t_1 == ((__pyx_t_7hdbscan_12dist_metrics_DTYPE_t)-1.0))) __PYX_ERR(1, 692, __pyx_L1_error) ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ hdbscan/dist_metrics.c:9372:170: note: expected 'struct __pyx_obj_7hdbscan_12dist_metrics_MahalanobisDistance *' but argument is of type 'struct __pyx_obj_7hdbscan_12dist_metrics_DistanceMetric *' static __pyx_t_7hdbscan_12dist_metrics_DTYPE_t __pyx_f_7hdbscan_12dist_metrics_19MahalanobisDistance_rdist(struct __pyx_obj_7hdbscan_12dist_metrics_MahalanobisDistance *__pyx_v_self, __pyx_t_7hdbscan_12dist_metrics_DTYPE_t *__pyx_v_x1, __pyx_t_7hdbscan_12dist_metrics_DTYPE_t *__pyx_v_x2, __pyx_t_7hdbscan_12dist_metrics_ITYPE_t __pyx_v_size) { ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ cc -shared -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-6.5-x86_64-cpython-39/hdbscan/dist_metrics.o -L/usr/local/lib -o build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/dist_metrics.cpython-39.so SUCCEEDED 00:03:36 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- ===> py39-hdbscan-0.8.29 depends on package: py39-joblib>=1.0 - found ===> py39-hdbscan-0.8.29 depends on package: py39-numpy>=1.20,1 - found ===> py39-hdbscan-0.8.29 depends on package: py39-scikit-learn>=0.20 - found ===> py39-hdbscan-0.8.29 depends on package: py39-scipy>=1.0 - found ===> py39-hdbscan-0.8.29 depends on package: py39-setuptools>=63.1.0 - found ===> py39-hdbscan-0.8.29 depends on file: /usr/local/bin/python3.9 - found SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for py39-hdbscan-0.8.29 ===> py39-hdbscan-0.8.29 depends on package: py39-joblib>=1.0 - found ===> py39-hdbscan-0.8.29 depends on package: py39-numpy>=1.20,1 - found ===> py39-hdbscan-0.8.29 depends on package: py39-scikit-learn>=0.20 - found ===> py39-hdbscan-0.8.29 depends on package: py39-scipy>=1.0 - found ===> py39-hdbscan-0.8.29 depends on package: py39-setuptools>=63.1.0 - found ===> py39-hdbscan-0.8.29 depends on file: /usr/local/bin/python3.9 - found ===> Generating temporary packing list running install /usr/local/lib/python3.9/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py running build_ext skipping 'hdbscan/_hdbscan_tree.c' Cython extension (up-to-date) skipping 'hdbscan/_hdbscan_linkage.c' Cython extension (up-to-date) skipping 'hdbscan/_hdbscan_boruvka.c' Cython extension (up-to-date) skipping 'hdbscan/_hdbscan_reachability.c' Cython extension (up-to-date) skipping 'hdbscan/_prediction_utils.c' Cython extension (up-to-date) skipping 'hdbscan/dist_metrics.c' Cython extension (up-to-date) running install_lib creating /construction/math/py-hdbscan/stage/usr/local/lib/python3.9 creating /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages creating /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/_prediction_utils.cpython-39.so -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_reachability.cpython-39.so -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/__init__.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/flat.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/hdbscan_.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/plots.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/prediction.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/robust_single_linkage_.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/validity.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan creating /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/tests copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/tests/__init__.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/tests copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/tests/test_flat.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/tests copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/tests/test_hdbscan.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/tests copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/tests/test_prediction_utils.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/tests copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/tests/test_rsl.py -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/tests copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/dist_metrics.cpython-39.so -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_linkage.cpython-39.so -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_boruvka.cpython-39.so -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan copying build/lib.dragonfly-6.5-x86_64-cpython-39/hdbscan/_hdbscan_tree.cpython-39.so -> /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/__init__.py to __init__.cpython-39.pyc byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/flat.py to flat.cpython-39.pyc byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/hdbscan_.py to hdbscan_.cpython-39.pyc byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/plots.py to plots.cpython-39.pyc byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/prediction.py to prediction.cpython-39.pyc byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/robust_single_linkage_.py to robust_single_linkage_.cpython-39.pyc byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/validity.py to validity.cpython-39.pyc byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/tests/__init__.py to __init__.cpython-39.pyc byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/tests/test_flat.py to test_flat.cpython-39.pyc byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/tests/test_hdbscan.py to test_hdbscan.cpython-39.pyc byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/tests/test_prediction_utils.py to test_prediction_utils.cpython-39.pyc byte-compiling /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan/tests/test_rsl.py to test_rsl.cpython-39.pyc writing byte-compilation script '/tmp/tmpcc4ufhx6.py' /usr/local/bin/python3.9 /tmp/tmpcc4ufhx6.py removing /tmp/tmpcc4ufhx6.py running install_data warning: install_data: setup script did not provide a directory for 'hdbscan/dist_metrics.pxd' -- installing right in '/construction/math/py-hdbscan/stage/usr/local' copying hdbscan/dist_metrics.pxd -> /construction/math/py-hdbscan/stage/usr/local running install_egg_info running egg_info writing hdbscan.egg-info/PKG-INFO writing dependency_links to hdbscan.egg-info/dependency_links.txt writing requirements to hdbscan.egg-info/requires.txt writing top-level names to hdbscan.egg-info/top_level.txt reading manifest file 'hdbscan.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' adding license file 'LICENSE' writing manifest file 'hdbscan.egg-info/SOURCES.txt' Copying hdbscan.egg-info to /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages/hdbscan-0.8.29-py3.9.egg-info running install_scripts writing list of installed files to '/construction/math/py-hdbscan/.PLIST.pymodtmp' /usr/bin/find /construction/math/py-hdbscan/stage/usr/local/lib/python3.9/site-packages -name '*.so' -exec /usr/bin/strip {} + ===> Creating unique files: Move MAN files needing SUFFIX ===> Creating unique files: Move files needing SUFFIX ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks SUCCEEDED 00:00:03 ------------------------------------------------------------------------------- -- 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 00:00:01 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for py39-hdbscan-0.8.29 file sizes/checksums [48]: 0% file sizes/checksums [48]: 100% Service unavailablepacking files [48]: 0% packing files [48]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:00 TOTAL TIME 00:04:29