=> Building science/py-phono3py@py36 Started : Friday, 8 MAR 2019 at 07:19:45 UTC Platform: 5.5-DEVELOPMENT DragonFly v5.5.0.192.g15ae7f0-DEVELOPMENT #34: Tue Feb 19 09:07:07 PST 2019 root@pkgbox64.dragonflybsd.org:/usr/obj/usr/src/sys/X86_64_GENERIC x86_64 -------------------------------------------------- -- Environment -------------------------------------------------- UNAME_r=5.5-SYNTH UNAME_m=x86_64 UNAME_p=x86_64 UNAME_v=DragonFly 5.5-SYNTH UNAME_s=DragonFly PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SSL_NO_VERIFY_PEER=1 TERM=dumb PKG_CACHEDIR=/var/cache/pkg8 PKG_DBDIR=/var/db/pkg8 PORTSDIR=/xports LANG=C HOME=/root USER=root -------------------------------------------------- -- Options -------------------------------------------------- -------------------------------------------------- -- CONFIGURE_ENV -------------------------------------------------- PYTHON="/usr/local/bin/python3.6" XDG_DATA_HOME=/construction/science/py-phono3py XDG_CONFIG_HOME=/construction/science/py-phono3py HOME=/construction/science/py-phono3py TMPDIR="/tmp" PATH=/construction/science/py-phono3py/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CCVER=gcc80 CMAKE_PREFIX_PATH="/usr/local" -------------------------------------------------- -- CONFIGURE_ARGS -------------------------------------------------- -------------------------------------------------- -- MAKE_ENV -------------------------------------------------- XDG_DATA_HOME=/construction/science/py-phono3py XDG_CONFIG_HOME=/construction/science/py-phono3py HOME=/construction/science/py-phono3py TMPDIR="/tmp" PATH=/construction/science/py-phono3py/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin NO_PIE=yes 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 -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" " LIBS="-L/usr/local/lib" CXX="c++" CXXFLAGS=" -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include " 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" -------------------------------------------------- -- MAKE_ARGS -------------------------------------------------- DESTDIR=/construction/science/py-phono3py/stage -------------------------------------------------- -- PLIST_SUB -------------------------------------------------- PYTHON_INCLUDEDIR=include/python3.6m PYTHON_LIBDIR=lib/python3.6 PYTHON_PLATFORM=dragonfly5 PYTHON_PYOEXTENSION=opt-1.pyc PYTHON_SITELIBDIR=lib/python3.6/site-packages PYTHON_SUFFIX=36 PYTHON_VER=3.6 PYTHON_VERSION=python3.6 PYTHON2="@comment " PYTHON3="" OSREL=5.5 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib PROFILE="@comment " DOCSDIR="share/doc/phono3py" EXAMPLESDIR="share/examples/phono3py" DATADIR="share/phono3py" WWWDIR="www/phono3py" ETCDIR="etc/phono3py" -------------------------------------------------- -- SUB_LIST -------------------------------------------------- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/phono3py DOCSDIR=/usr/local/share/doc/phono3py EXAMPLESDIR=/usr/local/share/examples/phono3py WWWDIR=/usr/local/www/phono3py ETCDIR=/usr/local/etc/phono3py -------------------------------------------------- -- /etc/make.conf -------------------------------------------------- SYNTHPROFILE=Release-BE USE_PACKAGE_DEPENDS_ONLY=yes PACKAGE_BUILDING=yes BATCH=yes PKG_CREATE_VERBOSE=yes PORTSDIR=/xports DISTDIR=/distfiles WRKDIRPREFIX=/construction PORT_DBDIR=/options PACKAGES=/packages MAKE_JOBS_NUMBER_LIMIT=5 LICENSES_ACCEPTED= NONE HAVE_COMPAT_IA32_KERN= CONFIGURE_MAX_CMD_LEN=262144 _PERL5_FROM_BIN=5.28.1 _ALTCCVERSION_921dbbb2=none _OBJC_ALTCCVERSION_921dbbb2=none _SMP_CPUS=8 UID=0 ARCH=x86_64 OPSYS=DragonFly DFLYVERSION=500500 OSVERSION=9999999 OSREL=5.5 _OSRELEASE=5.5-SYNTH PYTHONBASE=/usr/local _PKG_CHECKED=1 -------------------------------------------------------------------------------- -- Phase: check-sanity -------------------------------------------------------------------------------- ===> License BSD3CLAUSE accepted by the user -------------------------------------------------------------------------------- -- Phase: pkg-depends -------------------------------------------------------------------------------- ===> py36-phono3py-1.13.3.27_1 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.10.5_5.txz Installing pkg-1.10.5_5... Extracting pkg-1.10.5_5: .......... done ===> py36-phono3py-1.13.3.27_1 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of py36-phono3py-1.13.3.27_1 -------------------------------------------------------------------------------- -- Phase: fetch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: fetch -------------------------------------------------------------------------------- ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by py36-phono3py-1.13.3.27_1 for building -------------------------------------------------------------------------------- -- Phase: checksum -------------------------------------------------------------------------------- ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by py36-phono3py-1.13.3.27_1 for building => SHA256 Checksum OK for phono3py-1.13.3.27.tar.gz. -------------------------------------------------------------------------------- -- Phase: extract-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: extract -------------------------------------------------------------------------------- ===> License BSD3CLAUSE accepted by the user ===> Fetching all distfiles required by py36-phono3py-1.13.3.27_1 for building ===> Extracting for py36-phono3py-1.13.3.27_1 => SHA256 Checksum OK for phono3py-1.13.3.27.tar.gz. -------------------------------------------------------------------------------- -- Phase: patch-depends -------------------------------------------------------------------------------- -------------------------------------------------------------------------------- -- Phase: patch -------------------------------------------------------------------------------- ===> Patching for py36-phono3py-1.13.3.27_1 -------------------------------------------------------------------------------- -- Phase: build-depends -------------------------------------------------------------------------------- ===> py36-phono3py-1.13.3.27_1 depends on package: py36-numpy>0 - not found ===> Installing existing package /packages/All/py36-numpy-1.16.1,1.txz Installing py36-numpy-1.16.1,1... `-- Installing gcc5-5.5.0_6... | `-- Installing binutils-2.32,1... | | `-- Installing gettext-runtime-0.19.8.1_2... | | `-- Installing indexinfo-0.3.1... | | `-- Extracting indexinfo-0.3.1: .... done | | `-- Extracting gettext-runtime-0.19.8.1_2: .......... done | `-- Extracting binutils-2.32,1: .......... done | `-- Installing gmp-6.1.2_1... | `-- Extracting gmp-6.1.2_1: .......... done | `-- Installing mpc-1.1.0_2... | | `-- Installing mpfr-4.0.2... | | `-- Extracting mpfr-4.0.2: .......... done | `-- Extracting mpc-1.1.0_2: ......... done `-- Extracting gcc5-5.5.0_6: .......... done `-- Installing openblas-0.2.20_7,1... `-- Extracting openblas-0.2.20_7,1: ......... done `-- Installing py36-setuptools-40.8.0... | `-- Installing python36-3.6.8... | | `-- Installing expat-2.2.6_1... | | `-- Extracting expat-2.2.6_1: .......... done | | `-- Installing libffi-3.2.1_3... | | `-- Extracting libffi-3.2.1_3: .......... done | | `-- Installing libressl-2.8.3... | | `-- Extracting libressl-2.8.3: .......... done | | `-- Installing ncurses-6.1.20190112... | | `-- Extracting ncurses-6.1.20190112: .......... done | | `-- Installing readline-7.0.5... | | `-- Extracting readline-7.0.5: .......... done | `-- Extracting python36-3.6.8: .......... done `-- Extracting py36-setuptools-40.8.0: .......... done `-- Installing suitesparse-5.2.0_2... | `-- Installing lapack-3.5.0_6... | | `-- Installing blas-3.5.0_5... | | `-- Extracting blas-3.5.0_5: ....... done | `-- Extracting lapack-3.5.0_6: .......... done | `-- Installing metis-5.1.0_7... | `-- Extracting metis-5.1.0_7: .......... done `-- Extracting suitesparse-5.2.0_2: .......... done Extracting py36-numpy-1.16.1,1: .......... done Message from gcc5-5.5.0_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/gcc5 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. ===> NOTICE: This port is deprecated; you may wish to reconsider installing it: Unsupported by upstream. Use GCC 7 or newer instead.. Message from python36-3.6.8: =========================================================================== Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py36-gdbm databases/py-gdbm@py36 py36-sqlite3 databases/py-sqlite3@py36 py36-tkinter x11-toolkits/py-tkinter@py36 =========================================================================== Message from py36-setuptools-40.8.0: ******************************************************************* Only /usr/local/bin/easy_install-3.6 script has been installed since Python 3.6 is not the default Python version. ******************************************************************* Message from metis-5.1.0_7: ===> 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://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port ===> py36-phono3py-1.13.3.27_1 depends on package: py36-numpy>0 - found ===> Returning to build of py36-phono3py-1.13.3.27_1 ===> py36-phono3py-1.13.3.27_1 depends on package: py36-h5py>0 - not found ===> Installing existing package /packages/All/py36-h5py-2.9.0_1.txz Installing py36-h5py-2.9.0_1... `-- Installing hdf5-1.10.1_2... | `-- Installing hdf-szip-2.1.1... | `-- Extracting hdf-szip-2.1.1: .......... done `-- Extracting hdf5-1.10.1_2: .......... done `-- Installing py36-six-1.12.0... `-- Extracting py36-six-1.12.0: .......... done Extracting py36-h5py-2.9.0_1: .......... done ===> py36-phono3py-1.13.3.27_1 depends on package: py36-h5py>0 - found ===> Returning to build of py36-phono3py-1.13.3.27_1 ===> py36-phono3py-1.13.3.27_1 depends on package: py36-matplotlib>0 - not found ===> Installing existing package /packages/All/py36-matplotlib-2.1.2_5.txz Installing py36-matplotlib-2.1.2_5... `-- Installing fontconfig-2.12.6,1... | `-- Installing freetype2-2.9.1... | `-- Extracting freetype2-2.9.1: .......... done `-- Extracting fontconfig-2.12.6,1: .......... done Running fc-cache to build fontconfig cache... /usr/local/share/fonts: skipping, no such directory /usr/local/lib/X11/fonts: skipping, no such directory /var/db/fontconfig: cleaning cache directory fc-cache: succeeded `-- Installing png-1.6.36... `-- Extracting png-1.6.36: .......... done `-- Installing py36-cycler-0.10.0... `-- Extracting py36-cycler-0.10.0: .......... done `-- Installing py36-dateutil-2.7.3... `-- Extracting py36-dateutil-2.7.3: .......... done `-- Installing py36-pyparsing-2.3.1... `-- Extracting py36-pyparsing-2.3.1: .......... done `-- Installing py36-pytz-2018.9,1... `-- Extracting py36-pytz-2018.9,1: .......... done `-- Installing py36-tkinter-3.6.8_6... | `-- Installing tcl86-8.6.9_1... | `-- Extracting tcl86-8.6.9_1: .......... done | `-- Installing tk86-8.6.9_1... | | `-- Installing libX11-1.6.7,1... | | `-- Installing libXau-1.0.8_5... | | `-- Extracting libXau-1.0.8_5: .......... done | | `-- Installing libXdmcp-1.1.2_2... | | | `-- Installing xorgproto-2018.4... | | | `-- Extracting xorgproto-2018.4: .......... done | | `-- Extracting libXdmcp-1.1.2_2: ......... done | | `-- Installing libxcb-1.13.1... | | | `-- Installing libpthread-stubs-0.4... | | | `-- Extracting libpthread-stubs-0.4: .... done | | | `-- Installing libxml2-2.9.8... | | | `-- Extracting libxml2-2.9.8: .......... done | | `-- Extracting libxcb-1.13.1: .......... done | | `-- Extracting libX11-1.6.7,1: .......... done | | `-- Installing libXScrnSaver-1.2.3_2... | | `-- Installing libXext-1.3.3_3,1... | | `-- Extracting libXext-1.3.3_3,1: .......... done | | `-- Extracting libXScrnSaver-1.2.3_2: .......... done | | `-- Installing libXft-2.3.2_3... | | `-- Installing libXrender-0.9.10_2... | | `-- Extracting libXrender-0.9.10_2: .......... done | | `-- Extracting libXft-2.3.2_3: .......... done | `-- Extracting tk86-8.6.9_1: .......... done `-- Extracting py36-tkinter-3.6.8_6: ........ done `-- Installing py36-tornado-5.1.1... `-- Extracting py36-tornado-5.1.1: .......... done Extracting py36-matplotlib-2.1.2_5: .......... done Message from freetype2-2.9.1: 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. The controllable properties are listed in the section "Controlling FreeType Modules" in the reference's table of contents (/usr/local/share/doc/freetype2/reference/ft2-toc.html, if documentation was installed). ===> py36-phono3py-1.13.3.27_1 depends on package: py36-matplotlib>0 - found ===> Returning to build of py36-phono3py-1.13.3.27_1 ===> py36-phono3py-1.13.3.27_1 depends on package: py36-phonopy>=1.13.2 - not found ===> Installing existing package /packages/All/py36-phonopy-1.13.2.107_1.txz Installing py36-phonopy-1.13.2.107_1... `-- Installing py36-yaml-3.13... `-- Extracting py36-yaml-3.13: .......... done Extracting py36-phonopy-1.13.2.107_1: .......... done ===> py36-phono3py-1.13.3.27_1 depends on package: py36-phonopy>=1.13.2 - found ===> Returning to build of py36-phono3py-1.13.3.27_1 ===> py36-phono3py-1.13.3.27_1 depends on package: py36-yaml>0 - found ===> py36-phono3py-1.13.3.27_1 depends on file: /usr/local/include/lapacke.h - not found ===> Installing existing package /packages/All/lapacke-3.5.0_6.txz Installing lapacke-3.5.0_6... Extracting lapacke-3.5.0_6: .......... done ===> py36-phono3py-1.13.3.27_1 depends on file: /usr/local/include/lapacke.h - found ===> Returning to build of py36-phono3py-1.13.3.27_1 ===> py36-phono3py-1.13.3.27_1 depends on executable: cython-3.6 - not found ===> Installing existing package /packages/All/py36-cython-0.29.txz Installing py36-cython-0.29... Extracting py36-cython-0.29: .......... done ===> py36-phono3py-1.13.3.27_1 depends on executable: cython-3.6 - found ===> Returning to build of py36-phono3py-1.13.3.27_1 ===> py36-phono3py-1.13.3.27_1 depends on package: py36-setuptools>0 - found ===> py36-phono3py-1.13.3.27_1 depends on file: /usr/local/bin/python3.6 - found -------------------------------------------------------------------------------- -- Phase: lib-depends -------------------------------------------------------------------------------- ===> py36-phono3py-1.13.3.27_1 depends on shared library: libomp.so - not found ===> Installing existing package /packages/All/openmp-7.0.1.txz Installing openmp-7.0.1... Extracting openmp-7.0.1: .......... done ===> py36-phono3py-1.13.3.27_1 depends on shared library: libomp.so - found (/usr/local/lib/libomp.so) ===> Returning to build of py36-phono3py-1.13.3.27_1 ===> py36-phono3py-1.13.3.27_1 depends on shared library: libopenblas.so - found (/usr/local/lib/libopenblas.so) -------------------------------------------------------------------------------- -- Phase: configure -------------------------------------------------------------------------------- ===> Configuring for py36-phono3py-1.13.3.27_1 setuptools is used. running config -------------------------------------------------------------------------------- -- Phase: build -------------------------------------------------------------------------------- ===> Building for py36-phono3py-1.13.3.27_1 setuptools is used. running build running build_py creating build creating build/lib.dragonfly-5.5-SYNTH-x86_64-3.6 creating build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py copying phono3py/file_IO.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py copying phono3py/__init__.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py copying phono3py/version.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py creating build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui copying phono3py/cui/phono3py_yaml.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui copying phono3py/cui/settings.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui copying phono3py/cui/create_supercells.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui copying phono3py/cui/translate_settings.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui copying phono3py/cui/show_log.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui copying phono3py/cui/phono3py_argparse.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui copying phono3py/cui/create_force_constants.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui copying phono3py/cui/__init__.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui copying phono3py/cui/triplets_info.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui creating build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/other copying phono3py/other/alm_wrapper.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/other copying phono3py/other/isotope.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/other copying phono3py/other/__init__.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/other creating build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon copying phono3py/phonon/solver.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon copying phono3py/phonon/__init__.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon creating build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/imag_self_energy.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/displacement_fc3.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/interaction.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/frequency_shift.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/triplets.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/collision_matrix.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/gruneisen.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/conductivity.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/reciprocal_to_normal.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/__init__.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/conductivity_LBTE.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/fc3.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/conductivity_RTA.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/joint_dos.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 copying phono3py/phonon3/real_to_reciprocal.py -> build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3 running build_ext building 'phono3py._lapackepy' extension creating build/temp.dragonfly-5.5-SYNTH-x86_64-3.6 creating build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c creating build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/_lapackepy.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/_lapackepy.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/_lapackepy.c:38: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/harmonic/dynmat.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/dynmat.o -fopenmp -DMULTITHREADED_BLAS cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/harmonic/phonon.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonon.o -fopenmp -DMULTITHREADED_BLAS cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/harmonic/phonoc_array.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonoc_array.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic/phonoc_array.c:36: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/harmonic/phonoc_utils.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonoc_utils.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic_h/phonoc_array.h:39, from c/harmonic/phonoc_utils.c:37: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/harmonic/lapack_wrapper.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/lapack_wrapper.o -fopenmp -DMULTITHREADED_BLAS cc -shared -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/_lapackepy.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/dynmat.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonon.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonoc_array.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonoc_utils.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/lapack_wrapper.o -L/usr/local/lib -lpython3.6m -o build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/_lapackepy.so -lgomp -lopenblas building 'phono3py._phono3py' extension creating build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic creating build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3 creating build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/other creating build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/triplet creating build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/spglib creating build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/kspclib cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/_phono3py.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/_phono3py.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/_phono3py.c:39: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/harmonic/dynmat.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/dynmat.o -fopenmp -DMULTITHREADED_BLAS cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/harmonic/phonon.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonon.o -fopenmp -DMULTITHREADED_BLAS cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/harmonic/lapack_wrapper.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/lapack_wrapper.o -fopenmp -DMULTITHREADED_BLAS cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/harmonic/phonoc_array.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonoc_array.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic/phonoc_array.c:36: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/harmonic/phonoc_utils.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonoc_utils.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic_h/phonoc_array.h:39, from c/harmonic/phonoc_utils.c:37: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/phonon3/fc3.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/fc3.o -fopenmp -DMULTITHREADED_BLAS cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/phonon3/frequency_shift.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/frequency_shift.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic_h/phonoc_array.h:39, from c/anharmonic/phonon3/frequency_shift.c:37: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/phonon3/interaction.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/interaction.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic_h/phonoc_array.h:39, from c/anharmonic/phonon3/interaction.c:37: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/phonon3/real_to_reciprocal.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/real_to_reciprocal.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic_h/phonoc_array.h:39, from c/anharmonic/phonon3/real_to_reciprocal.c:39: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/phonon3/reciprocal_to_normal.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/reciprocal_to_normal.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic_h/phonoc_array.h:39, from c/harmonic_h/phonoc_utils.h:38, from c/anharmonic/phonon3/reciprocal_to_normal.c:37: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/phonon3/imag_self_energy_with_g.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/imag_self_energy_with_g.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic_h/phonoc_array.h:39, from c/anharmonic/phonon3/imag_self_energy_with_g.c:37: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/phonon3/pp_collision.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/pp_collision.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic_h/phonoc_array.h:39, from c/anharmonic/phonon3/pp_collision.c:37: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/phonon3/collision_matrix.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/collision_matrix.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic_h/phonoc_array.h:39, from c/anharmonic/phonon3/collision_matrix.c:38: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/other/isotope.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/other/isotope.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic_h/phonoc_array.h:39, from c/harmonic_h/phonoc_utils.h:38, from c/anharmonic/other/isotope.c:37: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/triplet/triplet.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/triplet/triplet.o -fopenmp -DMULTITHREADED_BLAS cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/triplet/triplet_kpoint.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/triplet/triplet_kpoint.o -fopenmp -DMULTITHREADED_BLAS cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/anharmonic/triplet/triplet_iw.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/triplet/triplet_iw.o -fopenmp -DMULTITHREADED_BLAS In file included from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python3.6/site-packages/numpy/core/include/numpy/arrayobject.h:4, from c/harmonic_h/phonoc_array.h:39, from c/harmonic_h/phonoc_utils.h:38, from c/anharmonic/triplet/triplet_iw.c:36: /usr/local/lib/python3.6/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 -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/spglib/mathfunc.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/spglib/mathfunc.o -fopenmp -DMULTITHREADED_BLAS cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/spglib/kpoint.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/spglib/kpoint.o -fopenmp -DMULTITHREADED_BLAS cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/kspclib/kgrid.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/kspclib/kgrid.o -fopenmp -DMULTITHREADED_BLAS cc -DNDEBUG -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include -fPIC -Ic/harmonic_h -Ic/anharmonic_h -Ic/spglib_h -Ic/kspclib_h -I/usr/local/lib/python3.6/site-packages/numpy/core/include -I/usr/local/include/python3.6m -c c/kspclib/tetrahedron_method.c -o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/kspclib/tetrahedron_method.o -fopenmp -DMULTITHREADED_BLAS cc -shared -pipe -O2 -isystem /usr/local/include -fno-strict-aliasing -isystem /usr/local/include build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/_phono3py.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/dynmat.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonon.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/lapack_wrapper.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonoc_array.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/harmonic/phonoc_utils.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/fc3.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/frequency_shift.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/interaction.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/real_to_reciprocal.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/reciprocal_to_normal.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/imag_self_energy_with_g.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/pp_collision.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/phonon3/collision_matrix.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/other/isotope.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/triplet/triplet.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/triplet/triplet_kpoint.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/anharmonic/triplet/triplet_iw.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/spglib/mathfunc.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/spglib/kpoint.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/kspclib/kgrid.o build/temp.dragonfly-5.5-SYNTH-x86_64-3.6/c/kspclib/tetrahedron_method.o -L/usr/local/lib -lpython3.6m -o build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/_phono3py.so -lgomp -lopenblas running build_scripts creating build/scripts-3.6 copying and adjusting scripts/phono3py -> build/scripts-3.6 copying and adjusting scripts/phono3py-kaccum -> build/scripts-3.6 copying and adjusting scripts/phono3py-kdeplot -> build/scripts-3.6 copying and adjusting scripts/phono3py-coleigplot -> build/scripts-3.6 changing mode of build/scripts-3.6/phono3py from 644 to 755 changing mode of build/scripts-3.6/phono3py-kaccum from 644 to 755 changing mode of build/scripts-3.6/phono3py-kdeplot from 644 to 755 changing mode of build/scripts-3.6/phono3py-coleigplot from 644 to 755 -------------------------------------------------------------------------------- -- Phase: run-depends -------------------------------------------------------------------------------- ===> py36-phono3py-1.13.3.27_1 depends on package: py36-numpy>0 - found ===> py36-phono3py-1.13.3.27_1 depends on package: py36-h5py>0 - found ===> py36-phono3py-1.13.3.27_1 depends on package: py36-matplotlib>0 - found ===> py36-phono3py-1.13.3.27_1 depends on package: py36-phonopy>=1.13.2 - found ===> py36-phono3py-1.13.3.27_1 depends on package: py36-yaml>0 - found ===> py36-phono3py-1.13.3.27_1 depends on package: py36-setuptools>0 - found ===> py36-phono3py-1.13.3.27_1 depends on file: /usr/local/bin/python3.6 - found -------------------------------------------------------------------------------- -- Phase: stage -------------------------------------------------------------------------------- ===> Staging for py36-phono3py-1.13.3.27_1 ===> Generating temporary packing list setuptools is used. running install running build running build_py running build_ext running build_scripts running install_lib creating /construction/science/py-phono3py/stage/usr/local/lib/python3.6 creating /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages creating /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/_phono3py.so -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/_lapackepy.so -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py creating /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/other copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/other/__init__.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/other copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/other/alm_wrapper.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/other copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/other/isotope.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/other creating /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/fc3.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/conductivity_LBTE.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/conductivity.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/interaction.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/real_to_reciprocal.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/gruneisen.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/displacement_fc3.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/collision_matrix.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/joint_dos.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/__init__.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/conductivity_RTA.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/triplets.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/frequency_shift.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/reciprocal_to_normal.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon3/imag_self_energy.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3 creating /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon/__init__.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/phonon/solver.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/version.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/__init__.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py creating /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui/show_log.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui/translate_settings.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui/phono3py_argparse.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui/create_supercells.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui/settings.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui/triplets_info.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui/__init__.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui/phono3py_yaml.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/cui/create_force_constants.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui copying build/lib.dragonfly-5.5-SYNTH-x86_64-3.6/phono3py/file_IO.py -> /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/other/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/other/alm_wrapper.py to alm_wrapper.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/other/isotope.py to isotope.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/fc3.py to fc3.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/conductivity_LBTE.py to conductivity_LBTE.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/conductivity.py to conductivity.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/interaction.py to interaction.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/real_to_reciprocal.py to real_to_reciprocal.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/gruneisen.py to gruneisen.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/displacement_fc3.py to displacement_fc3.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/collision_matrix.py to collision_matrix.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/joint_dos.py to joint_dos.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/conductivity_RTA.py to conductivity_RTA.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/triplets.py to triplets.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/frequency_shift.py to frequency_shift.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/reciprocal_to_normal.py to reciprocal_to_normal.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon3/imag_self_energy.py to imag_self_energy.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/phonon/solver.py to solver.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/version.py to version.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui/show_log.py to show_log.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui/translate_settings.py to translate_settings.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui/phono3py_argparse.py to phono3py_argparse.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui/create_supercells.py to create_supercells.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui/settings.py to settings.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui/triplets_info.py to triplets_info.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui/__init__.py to __init__.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui/phono3py_yaml.py to phono3py_yaml.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/cui/create_force_constants.py to create_force_constants.cpython-36.pyc byte-compiling /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py/file_IO.py to file_IO.cpython-36.pyc writing byte-compilation script '/tmp/tmp8qa6n1k6.py' /usr/local/bin/python3.6 /tmp/tmp8qa6n1k6.py removing /tmp/tmp8qa6n1k6.py running install_egg_info running egg_info writing phono3py.egg-info/PKG-INFO writing dependency_links to phono3py.egg-info/dependency_links.txt writing requirements to phono3py.egg-info/requires.txt writing top-level names to phono3py.egg-info/top_level.txt reading manifest file 'phono3py.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' writing manifest file 'phono3py.egg-info/SOURCES.txt' Copying phono3py.egg-info to /construction/science/py-phono3py/stage/usr/local/lib/python3.6/site-packages/phono3py-1.13.3.27-py3.6.egg-info running install_scripts copying build/scripts-3.6/phono3py-kaccum -> /construction/science/py-phono3py/stage/usr/local/bin copying build/scripts-3.6/phono3py-kdeplot -> /construction/science/py-phono3py/stage/usr/local/bin copying build/scripts-3.6/phono3py-coleigplot -> /construction/science/py-phono3py/stage/usr/local/bin copying build/scripts-3.6/phono3py -> /construction/science/py-phono3py/stage/usr/local/bin changing mode of /construction/science/py-phono3py/stage/usr/local/bin/phono3py-kaccum to 755 changing mode of /construction/science/py-phono3py/stage/usr/local/bin/phono3py-kdeplot to 755 changing mode of /construction/science/py-phono3py/stage/usr/local/bin/phono3py-coleigplot to 755 changing mode of /construction/science/py-phono3py/stage/usr/local/bin/phono3py to 755 writing list of installed files to '/construction/science/py-phono3py/.PLIST.pymodtmp' ====> Compressing man pages (compress-man) -------------------------------------------------------------------------------- -- Phase: package -------------------------------------------------------------------------------- ===> Building package for py36-phono3py-1.13.3.27_1 file sizes/checksums [110]: .. done packing files [110]: .. done packing directories [0]: . done -------------------------------------------------- -- Termination -------------------------------------------------- Finished: Friday, 8 MAR 2019 at 07:20:56 UTC Duration: 00:01:11