------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/indexinfo-0.3.1.txz Installing /packages/All/gettext-runtime-0.21.txz Installing /packages/All/gmake-4.3_2.txz Installing /packages/All/libffi-3.3_1.txz Installing /packages/All/expat-2.2.8.txz Installing /packages/All/ncurses-6.2.20200831.txz Installing /packages/All/readline-8.0.4.txz Installing /packages/All/openssl-1.1.1g,1.txz Installing /packages/All/python37-3.7.9.txz ===== Message from python37-3.7.9: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: py37-gdbm databases/py-gdbm@py37 py37-sqlite3 databases/py-sqlite3@py37 py37-tkinter x11-toolkits/py-tkinter@py37 Installing /packages/All/py37-setuptools-44.0.0.txz Installing /packages/All/py37-sphinxcontrib-applehelp-1.0.2.txz Installing /packages/All/py37-sphinxcontrib-devhelp-1.0.2.txz Installing /packages/All/py37-sphinxcontrib-jsmath-1.0.1.txz Installing /packages/All/py37-sphinxcontrib-htmlhelp-1.0.3.txz Installing /packages/All/py37-sphinxcontrib-serializinghtml-1.1.4.txz Installing /packages/All/py37-sphinxcontrib-qthelp-1.0.3.txz Installing /packages/All/py37-MarkupSafe-1.1.1.txz Installing /packages/All/py37-pytz-2020.1,1.txz Installing /packages/All/py37-Babel-2.8.0.txz Installing /packages/All/py37-Jinja2-2.10.1.txz Installing /packages/All/py37-pygments-2.5.2.txz Installing /packages/All/py37-docutils-0.15.2.txz Installing /packages/All/py37-pystemmer-2.0.0.1.txz Installing /packages/All/py37-snowballstemmer-1.2.1.txz Installing /packages/All/py37-alabaster-0.7.6.txz Installing /packages/All/py37-imagesize-1.1.0.txz Installing /packages/All/py37-certifi-2020.6.20.txz Installing /packages/All/py37-chardet-3.0.4_3.txz Installing /packages/All/py37-idna-2.8.txz Installing /packages/All/py37-pysocks-1.7.1.txz Installing /packages/All/py37-asn1crypto-1.3.0.txz Installing /packages/All/py37-pycparser-2.20.txz Installing /packages/All/py37-cffi-1.14.2.txz Installing /packages/All/py37-six-1.15.0.txz Installing /packages/All/py37-cryptography-2.6.1.txz Installing /packages/All/py37-openssl-19.0.0.txz Installing /packages/All/py37-urllib3-1.25.10,1.txz ===== Message from py37-urllib3-1.25.10,1: -- Since version 1.25 HTTPS connections are now verified by default which is done via "cert_reqs = 'CERT_REQUIRED'". While certificate verification can be disabled via "cert_reqs = 'CERT_NONE'", it's highly recommended to leave it on. Various consumers of net/py-urllib3 already have implemented routines that either explicitly enable or disable HTTPS certificate verification (e.g. via configuration settings, CLI arguments, etc.). Yet it may happen that there are still some consumers which don't explicitly enable/disable certificate verification for HTTPS connections which could then lead to errors (as is often the case with self-signed certificates). In case of an error one should try first to temporarily disable certificate verification of the problematic urllib3 consumer to see if that approach will remedy the issue. Installing /packages/All/py37-requests-2.22.0.txz Installing /packages/All/py37-pyparsing-2.4.7.txz Installing /packages/All/py37-packaging-20.4.txz Installing /packages/All/ca_root_nss-3.56.txz ===== Message from ca_root_nss-3.56: -- FreeBSD does not, and can not warrant that the certification authorities whose certificates are included in this package have in any way been audited for trustworthiness or RFC 3647 compliance. Assessment and verification of trust is the complete responsibility of the system administrator. This package installs symlinks to support root certificates discovery by default for software that uses OpenSSL. This enables SSL Certificate Verification by client software without manual intervention. If you prefer to do this manually, replace the following symlinks with either an empty file or your site-local certificate bundle. * /etc/ssl/cert.pem * /usr/local/etc/ssl/cert.pem * /usr/local/openssl/cert.pem Installing /packages/All/py37-sphinx-3.2.1,1.txz Installing /packages/All/gmp-6.2.0.txz Installing /packages/All/mpfr-4.1.0.txz Installing /packages/All/metis-5.1.0_8.txz ===== Message from metis-5.1.0_8: -- ===> 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 Installing /packages/All/tbb-2020.3.txz Installing /packages/All/mpc-1.1.0_2.txz UNFLAVORED devel/binutils -> use devel/binutils@native Installing /packages/All/binutils-2.33.1_3,1.txz Installing /packages/All/gcc8-8.4.0.txz ===== Message from gcc8-8.4.0: -- 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/gcc8 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. Installing /packages/All/openblas-0.3.10,1.txz Installing /packages/All/suitesparse-5.8.1.txz Installing /packages/All/py37-numpy-1.16.6,1.txz Installing /packages/All/py37-AnyQt-0.0.10.txz Installing /packages/All/py37-bottleneck-1.3.2.txz Installing /packages/All/fftw3-3.3.8_6.txz Installing /packages/All/libedit-3.1.20191231,1.txz Installing /packages/All/libxml2-2.9.10.txz Installing /packages/All/perl5-5.32.0.txz Installing /packages/All/llvm80-8.0.1_4.txz Installing /packages/All/py37-llvmlite-0.31.0.txz Installing /packages/All/py37-numba-0.47.0_3.txz Installing /packages/All/py37-scipy-1.2.2_1.txz Installing /packages/All/py37-joblib-0.13.0.txz Installing /packages/All/py37-scikit-learn-0.22_1.txz Installing /packages/All/py37-fastTSNE-0.2.13_4.txz Installing /packages/All/py37-entrypoints-0.3.txz Installing /packages/All/py37-keyrings.alt-3.1.1.txz Installing /packages/All/libICE-1.0.10,1.txz Installing /packages/All/libSM-1.2.3,1.txz Installing /packages/All/libpthread-stubs-0.4.txz Installing /packages/All/libXau-1.0.9.txz Installing /packages/All/xorgproto-2020.1.txz Installing /packages/All/libXdmcp-1.1.3.txz Installing /packages/All/libxcb-1.13.1.txz Installing /packages/All/libX11-1.6.12,1.txz Installing /packages/All/dbus-1.12.20.txz ===> Creating groups. Creating group 'messagebus' with gid '556'. ===> Creating users Creating user 'messagebus' with uid '556'. Installing /packages/All/pcre-8.44.txz Installing /packages/All/libiconv-1.16.txz Installing /packages/All/glib-2.56.3_9,1.txz No schema files found: doing nothing. Installing /packages/All/dbus-glib-0.110.txz Installing /packages/All/pydbus-common-1.2.16.txz Installing /packages/All/py37-dbus-1.2.16.txz Installing /packages/All/py37-SecretStorage-2.3.1.txz Installing /packages/All/py37-keyring-18.0.1.txz Installing /packages/All/py37-decorator-4.4.2.txz Installing /packages/All/libltdl-2.4.6.txz Installing /packages/All/png-1.6.37.txz Installing /packages/All/giflib-5.2.1.txz Installing /packages/All/jbigkit-2.1_1.txz Installing /packages/All/jpeg-turbo-2.0.4.txz Installing /packages/All/tiff-4.1.0.txz Installing /packages/All/webp-1.1.0.txz Installing /packages/All/freetype2-2.10.2.txz ===== Message from freetype2-2.10.2: -- The 2.7.x series now uses the new subpixel hinting mode (V40 port's option) as the default, emulating a modern version of ClearType. This change inevitably leads to different rendering results, and you might change port's options to adapt it to your taste (or use the new "FREETYPE_PROPERTIES" environment variable). The environment variable "FREETYPE_PROPERTIES" can be used to control the driver properties. Example: FREETYPE_PROPERTIES=truetype:interpreter-version=35 \ cff:no-stem-darkening=1 \ autofitter:warping=1 This allows to select, say, the subpixel hinting mode at runtime for a given application. If LONG_PCF_NAMES port's option was enabled, the PCF family names may include the foundry and information whether they contain wide characters. For example, "Sony Fixed" or "Misc Fixed Wide", instead of "Fixed". This can be disabled at run time with using pcf:no-long-family-names property, if needed. Example: FREETYPE_PROPERTIES=pcf:no-long-family-names=1 How to recreate fontconfig cache with using such environment variable, if needed: # env FREETYPE_PROPERTIES=pcf:no-long-family-names=1 fc-cache -fsv The controllable properties are listed in the section "Controlling FreeType Modules" in the reference's table of contents (/usr/local/share/doc/freetype2/reference/site/index.html, if documentation was installed). Installing /packages/All/fontconfig-2.13.92_2,1.txz Running fc-cache to build fontconfig cache... Font directories: /usr/local/share/fonts /usr/local/lib/X11/fonts /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 /packages/All/libgd-2.3.0,1.txz Installing /packages/All/pixman-0.40.0_1.txz Installing /packages/All/libXext-1.3.4,1.txz Installing /packages/All/libXrender-0.9.10_2.txz Installing /packages/All/cairo-1.16.0,2.txz Installing /packages/All/graphite2-1.3.14.txz Installing /packages/All/harfbuzz-2.7.2.txz Installing /packages/All/fribidi-0.19.7.txz Installing /packages/All/libfontenc-1.1.4.txz Installing /packages/All/mkfontscale-1.2.1.txz Installing /packages/All/font-bh-ttf-1.0.3_4.txz Installing /packages/All/font-misc-meltho-1.0.3_4.txz Installing /packages/All/font-misc-ethiopic-1.0.4.txz Installing /packages/All/encodings-1.0.5,1.txz Installing /packages/All/dejavu-2.37_1.txz ===== Message from dejavu-2.37_1: -- Make sure that the freetype module is loaded. If it is not, add the following line to the "Modules" section of your X Windows configuration file: Load "freetype" Add the following line to the "Files" section of X Windows configuration file: FontPath "/usr/local/share/fonts/dejavu/" Note: your X Windows configuration file is typically /etc/X11/XF86Config if you are using XFree86, and /etc/X11/xorg.conf if you are using X.Org. Installing /packages/All/xorg-fonts-truetype-7.7_1.txz Installing /packages/All/libXft-2.3.3.txz Installing /packages/All/pango-1.42.4_4.txz Installing /packages/All/libXt-1.2.0,1.txz Installing /packages/All/libXmu-1.1.3,1.txz Installing /packages/All/libXpm-3.5.13.txz Installing /packages/All/libXaw-1.0.13_3,2.txz Installing /packages/All/graphviz-2.44.1_1.txz Installing /packages/All/py37-pygraphviz-1.5.txz Installing /packages/All/tcl86-8.6.10.txz Installing /packages/All/py37-cycler-0.10.0.txz Installing /packages/All/py37-dateutil-2.8.1.txz Installing /packages/All/py37-tornado-5.1.1.txz Installing /packages/All/py37-kiwisolver-1.1.0,1.txz Installing /packages/All/libXScrnSaver-1.2.3_2.txz Installing /packages/All/tk86-8.6.10_1.txz Installing /packages/All/py37-tkinter-3.7.9_6.txz Installing /packages/All/py37-matplotlib-2.2.4_2.txz Installing /packages/All/py37-scikit-sparse-0.4.4_3.txz Installing /packages/All/py37-yaml-5.3.1.txz Installing /packages/All/py37-networkx-2.1,1.txz Installing /packages/All/wayland-1.18.0.txz Installing /packages/All/pciids-20200819.txz Installing /packages/All/libpciaccess-0.16.txz Installing /packages/All/libdrm-2.4.101.txz Installing /packages/All/libXfixes-5.0.3_2.txz Installing /packages/All/libXdamage-1.1.5.txz Installing /packages/All/libxshmfence-1.3.txz Installing /packages/All/libXxf86vm-1.1.4_3.txz Installing /packages/All/libXrandr-1.5.2.txz Installing /packages/All/mesa-libs-19.0.8_2.txz Installing /packages/All/libGLU-9.0.1.txz Installing /packages/All/libXi-1.7.10,1.txz Installing /packages/All/freeglut-3.0.0_2.txz ===== Message from freeglut-3.0.0_2: -- Joystick support is untested and it is unknown if it works. Do not hesitate to contact x11@FreeBSD.org if this causes issues. Installing /packages/All/lcms2-2.11_1.txz Installing /packages/All/openjpeg-2.3.1.txz Installing /packages/All/py37-olefile-0.46.txz Installing /packages/All/py37-pillow-7.0.0.txz Installing /packages/All/py37-PyOpenGL-3.1.5.txz Installing /packages/All/py37-python-louvain-0.14.txz Installing /packages/All/py37-pyqtgraph-0.11.0.txz Installing /packages/All/py37-serverfiles-0.3.0.txz Installing /packages/All/py37-xlrd-1.2.0_1.txz Installing /packages/All/double-conversion-3.1.5.19.txz Installing /packages/All/icu-67.1,1.txz Installing /packages/All/pcre2-10.35.txz Installing /packages/All/liblz4-1.9.2_1,1.txz Installing /packages/All/zstd-1.4.5_1.txz Installing /packages/All/qtchooser-66_3.txz ===== Message from qtchooser-66_3: -- qtchooser is a wrapper that allows selecting whether Qt4 or Qt5 binaries for qmake, moc and other tools will be run when invoking the binaries in $PATH. By default, the Qt5 versions are run. It is possible to change the behavior by setting the QT_SELECT environment variable to "qt4". See qtchooser(1) for more information. Installing /packages/All/qt5-core-5.15.0_2.txz Installing /packages/All/libevdev-1.5.9.txz Installing /packages/All/libudev-devd-0.4.2.txz Installing /packages/All/libmtdev-1.1.5_2.txz Installing /packages/All/py37-evdev-0.8.1_1.txz Installing /packages/All/py37-pyudev-0.22.0.txz Installing /packages/All/libinput-1.12.6_1.txz Installing /packages/All/xcb-util-0.4.0_2,1.txz Installing /packages/All/xcb-util-image-0.4.0_1.txz Installing /packages/All/xcb-util-keysyms-0.4.0_1.txz Installing /packages/All/xcb-util-renderutil-0.3.9_1.txz Installing /packages/All/xcb-util-wm-0.4.1_3.txz Installing /packages/All/xkeyboard-config-2.30.txz Installing /packages/All/libxkbcommon-0.10.0_2.txz ===== Message from libxkbcommon-0.10.0_2: -- If arrow keys don't work under X11 switch to legacy rules e.g., For sh/bash/ksh/zsh run and (optionally) add into ~/.profile: export XKB_DEFAULT_RULES=xorg For csh/tcsh run and (optionally) add into ~/.login: setenv XKB_DEFAULT_RULES xorg Installing /packages/All/qt5-dbus-5.15.0.txz Installing /packages/All/qt5-network-5.15.0.txz Installing /packages/All/hicolor-icon-theme-0.17.txz Installing /packages/All/xprop-1.2.4.txz Installing /packages/All/xset-1.2.4_3.txz Installing /packages/All/xdg-utils-1.1.3_1.txz Installing /packages/All/vulkan-headers-1.2.135.0.txz Installing /packages/All/qt5-gui-5.15.0.txz Installing /packages/All/libdaemon-0.14_1.txz Installing /packages/All/gdbm-1.18.1_1.txz Installing /packages/All/gobject-introspection-1.56.1_1,1.txz Installing /packages/All/gnome_subr-1.0.txz Installing /packages/All/avahi-app-0.7_3.txz ===> Creating groups. Creating group 'avahi' with gid '558'. ===> Creating users Creating user 'avahi' with uid '558'. Installing /packages/All/nettle-3.6.txz Installing /packages/All/libtasn1-4.16.0.txz Installing /packages/All/libunistring-0.9.10_1.txz Installing /packages/All/libidn2-2.3.0_1.txz Installing /packages/All/bash-5.0.18_3.txz Installing /packages/All/bash-completion-2.11,2.txz ===== Message from bash-completion-2.11,2: -- To enable the bash completion library, add the following to your .bashrc file: [[ $PS1 && -f /usr/local/share/bash-completion/bash_completion.sh ]] && \ source /usr/local/share/bash-completion/bash_completion.sh See /usr/local/share/doc/bash-completion/README.md for more information. Installing /packages/All/p11-kit-0.23.21.txz Installing /packages/All/tpm-emulator-0.7.4_2.txz ===> Creating groups. Creating group '_tss' with gid '601'. ===> Creating users Creating user '_tss' with uid '601'. Installing /packages/All/trousers-0.3.14_3.txz ===> Creating groups. Using existing group '_tss'. ===> Creating users Using existing user '_tss'. ===== Message from trousers-0.3.14_3: -- To run tcsd automatically, add the following line to /etc/rc.conf: tcsd_enable="YES" You might want to edit /usr/local/etc/tcsd.conf to reflect your setup. If you want to use tcsd with software TPM emulator, use the following configuration in /etc/rc.conf: tcsd_enable="YES" tcsd_mode="emulator" tpmd_enable="YES" To use TPM, add your_account to '_tss' group like following: # pw groupmod _tss -m your_account Installing /packages/All/gnutls-3.6.15.txz Installing /packages/All/libpaper-1.1.24.4.txz Installing /packages/All/cups-2.3.3_1.txz ===> Creating groups. Creating group 'cups' with gid '193'. ===> Creating users Creating user 'cups' with uid '193'. Installing /packages/All/qt5-widgets-5.15.0.txz Installing /packages/All/qt5-printsupport-5.15.0.txz Installing /packages/All/qscintilla2-qt5-2.11.4.txz Installing /packages/All/py37-sip-4.19.21,1.txz Installing /packages/All/py37-qt5-core-5.13.1_1.txz Installing /packages/All/jasper-2.0.16_1.txz Installing /packages/All/lcms-1.19_6,1.txz Installing /packages/All/libmng-1.0.10_3.txz Installing /packages/All/qt5-imageformats-5.15.0.txz Installing /packages/All/py37-qt5-gui-5.13.1_1.txz Installing /packages/All/py37-qt5-widgets-5.13.1_1.txz Installing /packages/All/py37-qt5-printsupport-5.13.1_1.txz Installing /packages/All/qt5-sql-5.15.0.txz ===== Message from qt5-sql-5.15.0: -- To enable Qt database support, install the database plugin ports. The following plugin ports are available: - databases/qt5-sqldrivers-ibase InterBase/Firebird - databases/qt5-sqldrivers-mysql MySQL - databases/qt5-sqldrivers-odbc Open Database Connectivity - databases/qt5-sqldrivers-pgsql PostgreSQL - databases/qt5-sqldrivers-sqlite2 SQLite 2 - databases/qt5-sqldrivers-sqlite3 SQLite 3 - databases/qt5-sqldrivers-tds FreeTDS Installing /packages/All/qt5-testlib-5.15.0.txz Installing /packages/All/qt5-declarative-5.15.0_1.txz Installing /packages/All/qt5-concurrent-5.15.0.txz Installing /packages/All/qt5-serialport-5.15.0.txz Installing /packages/All/qt5-location-5.15.0.txz Installing /packages/All/qt5-webchannel-5.15.0.txz Installing /packages/All/aom-2.0.0_1.txz Installing /packages/All/libass-0.14.0.txz Installing /packages/All/dav1d-0.7.1.txz Installing /packages/All/opencv-core-3.4.1_36.txz ===== Message from opencv-core-3.4.1_36: -- ===> NOTICE: The opencv-core 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 Installing /packages/All/opus-1.3.1.txz Installing /packages/All/libogg-1.3.4,4.txz Installing /packages/All/libvorbis-1.3.7_2,3.txz Installing /packages/All/libtheora-1.1.1_7.txz Installing /packages/All/argp-standalone-1.3_4.txz ===== Message from argp-standalone-1.3_4: -- ===> NOTICE: The argp-standalone 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 Installing /packages/All/libv4l-1.18.0.txz Installing /packages/All/libva-2.8.0.txz Installing /packages/All/libvdpau-1.4.txz Installing /packages/All/libvpx-1.9.0.txz Installing /packages/All/libx264-0.160.3011.txz Installing /packages/All/x265-3.2.1_4.txz Installing /packages/All/xvid-1.3.7,1.txz Installing /packages/All/ffmpeg-4.3.1_1,1.txz Installing /packages/All/libevent-2.1.12.txz Installing /packages/All/jsoncpp-1.9.3.txz Installing /packages/All/nspr-4.28.txz Installing /packages/All/sqlite3-3.33.0,1.txz Installing /packages/All/nss-3.56.txz Installing /packages/All/libpci-3.7.0.txz Installing /packages/All/re2-20200401.txz Installing /packages/All/snappy-1.1.8.txz Installing /packages/All/alsa-lib-1.1.2_2.txz ===== Message from alsa-lib-1.1.2_2: -- ===> NOTICE: The alsa-lib 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 Installing /packages/All/libgpg-error-1.39.txz Installing /packages/All/libgcrypt-1.8.5.txz Installing /packages/All/libxslt-1.1.34_1.txz Installing /packages/All/alsa-plugins-1.1.1_6.txz ===== Message from alsa-plugins-1.1.1_6: -- ===> NOTICE: The alsa-plugins 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 Installing /packages/All/libXcomposite-0.4.5,1.txz Installing /packages/All/libXcursor-1.2.0.txz Installing /packages/All/libXtst-1.2.3_2.txz Installing /packages/All/qt5-xml-5.15.0.txz Installing /packages/All/qt5-sqldrivers-sqlite3-5.15.0.txz Installing /packages/All/qt5-help-5.15.0.txz Installing /packages/All/qt5-assistant-5.15.0.txz Installing /packages/All/qt5-uiplugin-5.15.0.txz Installing /packages/All/qt5-designer-5.15.0.txz Installing /packages/All/qt5-webengine-5.15.0_2.txz ===== Message from qt5-webengine-5.15.0_2: -- ===> NOTICE: This port is deprecated; you may wish to reconsider installing it: Uses Python 2.7 which is EOLed upstream. It is scheduled to be removed on or after 2020-12-31. Installing /packages/All/py37-qt5-network-5.13.1_1.txz Installing /packages/All/py37-qt5-qml-5.13.1_1.txz Installing /packages/All/py37-qt5-webchannel-5.13.1_1.txz Installing /packages/All/py37-qt5-webengine-5.12.1_1.txz Installing /packages/All/orange3-3.19.0_2.txz Installing /packages/All/py37-slumber-0.7.1.txz Installing /packages/All/py37-Genesis-PyAPI-1.2.1.txz Installing /packages/All/py37-requests-cache-0.4.13.txz Installing /packages/All/py37-orange3-bioinformatics-3.2.2_3.txz Installing /packages/All/py37-astropy-3.1.2,2.txz Installing /packages/All/py37-fastdtw-0.3.4.txz Installing /packages/All/hdf-szip-2.1.1.txz Installing /packages/All/hdf5-1.10.6,1.txz Installing /packages/All/py37-h5py-2.10.0.txz Installing /packages/All/py37-sqlite3-3.7.9_7.txz Installing /packages/All/py37-numexpr-2.7.1.txz Installing /packages/All/py37-pandas-0.24.2_1,1.txz ===== Message from py37-pandas-0.24.2_1,1: -- Install math/py-statsmodels to enable parts of pandas.stats. Install devel/py-xarray to enable the to_xarray() function. Installing /packages/All/py37-loompy-3.0.6.txz UNFLAVORED devel/binutils -> use devel/binutils@native SUCCEEDED 00:05:04 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> py37-orange3-single-cell-0.8.2_3 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> py37-orange3-single-cell-0.8.2_3 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py37-orange3-single-cell-0.8.2_3 for building SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> py37-orange3-single-cell-0.8.2_3 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py37-orange3-single-cell-0.8.2_3 for building => SHA256 Checksum OK for biolab-orange3-single-cell-0.8.2_GH0.tar.gz. SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> py37-orange3-single-cell-0.8.2_3 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py37-orange3-single-cell-0.8.2_3 for building ===> Extracting for py37-orange3-single-cell-0.8.2_3 => SHA256 Checksum OK for biolab-orange3-single-cell-0.8.2_GH0.tar.gz. Extracted Memory Use: 18.55M SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for py37-orange3-single-cell-0.8.2_3 SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> py37-orange3-single-cell-0.8.2_3 depends on executable: gmake - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-sphinx>=0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-setuptools>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on file: /usr/local/bin/python3.7 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> py37-orange3-single-cell-0.8.2_3 depends on executable: gmake - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-sphinx>=0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-setuptools>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on file: /usr/local/bin/python3.7 - found ===> Configuring for py37-orange3-single-cell-0.8.2_3 Warning: 'keywords' should be a list, got type 'tuple' running config SUCCEEDED 00:00:03 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for py37-orange3-single-cell-0.8.2_3 gmake[1]: Entering directory '/construction/biology/py-orange3-single-cell/orange3-single-cell-0.8.2/doc' /usr/local/bin/sphinx-build-3.7 -b html -d build/doctrees . build/html Running Sphinx v3.2.1 making output directory... done /construction/biology/py-orange3-single-cell/orange3-single-cell-0.8.2/doc/conf.py:291: RemovedInSphinx40Warning: The app.add_stylesheet() is deprecated. Please use app.add_css_file() instead. app.add_stylesheet('style.css') building [mo]: targets for 0 po files that are out of date building [html]: targets for 8 source files that are out of date updating environment: [new config] 8 added, 0 changed, 0 removed reading sources... [ 12%] index reading sources... [ 25%] widgets/filter reading sources... [ 37%] widgets/louvain reading sources... [ 50%] widgets/normalize reading sources... [ 62%] widgets/scorecells reading sources... [ 75%] widgets/scoregenes reading sources... [ 87%] widgets/singlecelldatasets reading sources... [100%] widgets/tsne looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [ 12%] index writing output... [ 25%] widgets/filter writing output... [ 37%] widgets/louvain writing output... [ 50%] widgets/normalize writing output... [ 62%] widgets/scorecells writing output... [ 75%] widgets/scoregenes writing output... [ 87%] widgets/singlecelldatasets writing output... [100%] widgets/tsne generating indices... genindexdone writing additional pages... searchdone copying images... [ 10%] widgets/images/Filter-stamped.png copying images... [ 20%] widgets/images/Filter-Example.png copying images... [ 30%] widgets/images/LouvainClustering-stamped.png copying images... [ 40%] widgets/images/LouvainClustering-Example.png copying images... [ 50%] widgets/images/Normalize-stamped.png copying images... [ 60%] widgets/images/ScoreCells-stamped.png copying images... [ 70%] widgets/images/tSNE-Example.png copying images... [ 80%] widgets/images/ScoreGenes-stamped.png copying images... [ 90%] widgets/images/SingleCellDatasets-stamped.png copying images... [100%] widgets/images/tSNE-stamped.png copying static files... ... done copying extra files... done dumping search index in English (code: en)... done dumping object inventory... done build succeeded. The HTML pages are in build/html. Build finished. The HTML pages are in build/html. /usr/local/bin/sphinx-build-3.7 -b htmlhelp -d build/doctrees . build/htmlhelp Running Sphinx v3.2.1 making output directory... done /construction/biology/py-orange3-single-cell/orange3-single-cell-0.8.2/doc/conf.py:291: RemovedInSphinx40Warning: The app.add_stylesheet() is deprecated. Please use app.add_css_file() instead. app.add_stylesheet('style.css') loading pickled environment... done building [mo]: targets for 0 po files that are out of date building [htmlhelp]: targets for 8 source files that are out of date updating environment: 0 added, 0 changed, 0 removed looking for now-outdated files... none found preparing documents... done writing output... [ 12%] index writing output... [ 25%] widgets/filter writing output... [ 37%] widgets/louvain writing output... [ 50%] widgets/normalize writing output... [ 62%] widgets/scorecells writing output... [ 75%] widgets/scoregenes writing output... [ 87%] widgets/singlecelldatasets writing output... [100%] widgets/tsne generating indices... genindexdone writing additional pages... done copying images... [ 10%] widgets/images/Filter-stamped.png copying images... [ 20%] widgets/images/Filter-Example.png copying images... [ 30%] widgets/images/LouvainClustering-stamped.png copying images... [ 40%] widgets/images/LouvainClustering-Example.png copying images... [ 50%] widgets/images/Normalize-stamped.png copying images... [ 60%] widgets/images/ScoreCells-stamped.png copying images... [ 70%] widgets/images/tSNE-Example.png copying images... [ 80%] widgets/images/ScoreGenes-stamped.png copying images... [ 90%] widgets/images/SingleCellDatasets-stamped.png copying images... [100%] widgets/images/tSNE-stamped.png copying static files... ... done copying extra files... done copying stopword list... done writing project file... done writing TOC file... done writing index file... build succeeded. You can now run HTML Help Workshop with the .htp file in build/htmlhelp. Build finished; now you can run HTML Help Workshop with the .hhp project file in build/htmlhelp. gmake[1]: Leaving directory '/construction/biology/py-orange3-single-cell/orange3-single-cell-0.8.2/doc' Warning: 'keywords' should be a list, got type 'tuple' running build running build_py creating build creating build/lib creating build/lib/orangecontrib copying orangecontrib/__init__.py -> build/lib/orangecontrib creating build/lib/orangecontrib/single_cell copying orangecontrib/single_cell/reader.py -> build/lib/orangecontrib/single_cell copying orangecontrib/single_cell/__init__.py -> build/lib/orangecontrib/single_cell copying orangecontrib/single_cell/__main__.py -> build/lib/orangecontrib/single_cell creating build/lib/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/scbnorm.py -> build/lib/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/alignment.py -> build/lib/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/clusteranalysis.py -> build/lib/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/__init__.py -> build/lib/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/biweight.py -> build/lib/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/cca.py -> build/lib/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/scpreprocess.py -> build/lib/orangecontrib/single_cell/preprocess creating build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owaligndatasets.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owbatchnorm.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/owscorecells.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owloaddata.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owscoregenes.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owscpreprocess.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owtsne.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owmarkergenes.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owdatasets.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/__init__.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_load_data.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owfilter.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owmultisample.py -> build/lib/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owgenerank.py -> build/lib/orangecontrib/single_cell/tests creating build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owdotmatrix.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/load_data.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owbatchnorm.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owscoregenes.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/contingency_table.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owscorecells.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owmarkergenes.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owscdatasets.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owloaddata.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owmultisample.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/__init__.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owfilter.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owtsne.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owscpreprocess.py -> build/lib/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owaligndatasets.py -> build/lib/orangecontrib/single_cell/widgets creating build/lib/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/__init__.py -> build/lib/orangecontrib/single_cell/tutorials creating build/lib/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/__init__.py -> build/lib/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/update_check.py -> build/lib/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/splash.py -> build/lib/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/iconview.py -> build/lib/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/config.py -> build/lib/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/welcome.py -> build/lib/orangecontrib/single_cell/launcher creating build/lib/orangecontrib/single_cell/tests/preprocess copying orangecontrib/single_cell/tests/preprocess/test_scpreprocess.py -> build/lib/orangecontrib/single_cell/tests/preprocess copying orangecontrib/single_cell/tests/preprocess/test_cca.py -> build/lib/orangecontrib/single_cell/tests/preprocess copying orangecontrib/single_cell/tests/preprocess/test_scbnorm.py -> build/lib/orangecontrib/single_cell/tests/preprocess copying orangecontrib/single_cell/tests/preprocess/test_alignment.py -> build/lib/orangecontrib/single_cell/tests/preprocess copying orangecontrib/single_cell/tests/preprocess/__init__.py -> build/lib/orangecontrib/single_cell/tests/preprocess running egg_info creating Orange3_SingleCell.egg-info writing Orange3_SingleCell.egg-info/PKG-INFO writing dependency_links to Orange3_SingleCell.egg-info/dependency_links.txt writing entry points to Orange3_SingleCell.egg-info/entry_points.txt writing namespace_packages to Orange3_SingleCell.egg-info/namespace_packages.txt writing requirements to Orange3_SingleCell.egg-info/requires.txt writing top-level names to Orange3_SingleCell.egg-info/top_level.txt writing manifest file 'Orange3_SingleCell.egg-info/SOURCES.txt' reading manifest file 'Orange3_SingleCell.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.tab.gz' under directory 'orangecontrib/single_cell/tutorials' warning: no files found matching '*.tab' under directory 'orangecontrib/single_cell/tutorials' writing manifest file 'Orange3_SingleCell.egg-info/SOURCES.txt' creating build/lib/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/DATA_MATRIX_LOG_TPM.txt -> build/lib/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/data.loom -> build/lib/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/data.pkl -> build/lib/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/data.txt.gz -> build/lib/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/data.xlsx -> build/lib/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/lib.cell.count -> build/lib/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/lib.cell.meta -> build/lib/orangecontrib/single_cell/tests/data creating build/lib/orangecontrib/single_cell/tests/data/10x creating build/lib/orangecontrib/single_cell/tests/data/10x/hg19 copying orangecontrib/single_cell/tests/data/10x/hg19/barcodes.tsv -> build/lib/orangecontrib/single_cell/tests/data/10x/hg19 copying orangecontrib/single_cell/tests/data/10x/hg19/genes.tsv -> build/lib/orangecontrib/single_cell/tests/data/10x/hg19 copying orangecontrib/single_cell/tests/data/10x/hg19/matrix.mtx -> build/lib/orangecontrib/single_cell/tests/data/10x/hg19 creating build/lib/orangecontrib/single_cell/tests/data/10x/mm10 copying orangecontrib/single_cell/tests/data/10x/mm10/barcodes.tsv -> build/lib/orangecontrib/single_cell/tests/data/10x/mm10 copying orangecontrib/single_cell/tests/data/10x/mm10/genes.tsv -> build/lib/orangecontrib/single_cell/tests/data/10x/mm10 copying orangecontrib/single_cell/tests/data/10x/mm10/matrix.mtx -> build/lib/orangecontrib/single_cell/tests/data/10x/mm10 creating build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/AlignDatasets.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/BatchEffectRemoval.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/Binarize.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/DotMatrix.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/Filter.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/LoadData.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/LogarithmicScale.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/MarkerGenes.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/MultiSample.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/Normalize.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/Rank.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/ScoreCells.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/ScoreGenes.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/SelectGenes.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/SingleCellDatasets.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/SingleCellPreprocess.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/Standardize.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/TSNE.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/VCFFile.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/category.svg -> build/lib/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM.ows -> build/lib/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/020-Showcase-Markers.ows -> build/lib/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/030-Showcase-Clustering.ows -> build/lib/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/040-Showcase-RegrBatchEffects.ows -> build/lib/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/050-Showcase-DatasetAlignment.ows -> build/lib/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/053-Showcase-DataSetPreprocessingAlignment.ows -> build/lib/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/060-Showcase-StagePrediction.ows -> build/lib/orangecontrib/single_cell/tutorials creating build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data creating build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A/barcodes.tsv -> build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A/genes.tsv -> build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A/matrix.mtx -> build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A creating build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B/barcodes.tsv -> build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B/genes.tsv -> build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B/matrix.mtx -> build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B creating build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C/barcodes.tsv -> build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C/genes.tsv -> build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C/matrix.mtx -> build/lib/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C creating build/lib/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/Biomarkers.svg -> build/lib/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/BiomarkersColor.svg -> build/lib/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/CellTypeDiscovery.svg -> build/lib/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/CellTypeDiscoveryColor.svg -> build/lib/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/PopulationPrediction.svg -> build/lib/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/PopulationPredictionColor.svg -> build/lib/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/Templates.svg -> build/lib/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/Welcome.svg -> build/lib/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/getting-started-video-tutorials.png -> build/lib/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/splash.png -> build/lib/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/welcome-background.png -> build/lib/orangecontrib/single_cell/launcher/icons SUCCEEDED 00:00:17 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- ===> py37-orange3-single-cell-0.8.2_3 depends on package: orange3>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-orange3-bioinformatics>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-astropy>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-fastdtw>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-joblib>=0.11 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-loompy>=2.0.10 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-networkx>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-pandas>=0.23 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-scikit-learn>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-numpy>=1.16,1<1.20,1 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-setuptools>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on file: /usr/local/bin/python3.7 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for py37-orange3-single-cell-0.8.2_3 ===> py37-orange3-single-cell-0.8.2_3 depends on package: orange3>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-orange3-bioinformatics>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-astropy>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-fastdtw>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-joblib>=0.11 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-loompy>=2.0.10 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-networkx>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-pandas>=0.23 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-scikit-learn>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-numpy>=1.16,1<1.20,1 - found ===> py37-orange3-single-cell-0.8.2_3 depends on package: py37-setuptools>0 - found ===> py37-orange3-single-cell-0.8.2_3 depends on file: /usr/local/bin/python3.7 - found ===> Generating temporary packing list Warning: 'keywords' should be a list, got type 'tuple' running install running build running build_py running egg_info writing Orange3_SingleCell.egg-info/PKG-INFO writing dependency_links to Orange3_SingleCell.egg-info/dependency_links.txt writing entry points to Orange3_SingleCell.egg-info/entry_points.txt writing namespace_packages to Orange3_SingleCell.egg-info/namespace_packages.txt writing requirements to Orange3_SingleCell.egg-info/requires.txt writing top-level names to Orange3_SingleCell.egg-info/top_level.txt reading manifest file 'Orange3_SingleCell.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.tab.gz' under directory 'orangecontrib/single_cell/tutorials' warning: no files found matching '*.tab' under directory 'orangecontrib/single_cell/tutorials' writing manifest file 'Orange3_SingleCell.egg-info/SOURCES.txt' running install_lib Skipping installation of /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/__init__.py (namespace package) copying orangecontrib/single_cell/reader.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell copying orangecontrib/single_cell/__main__.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell copying orangecontrib/single_cell/__init__.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell copying orangecontrib/single_cell/launcher/__init__.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/splash.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/update_check.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/config.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/iconview.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/welcome.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher copying orangecontrib/single_cell/launcher/icons/Biomarkers.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/Welcome.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/PopulationPrediction.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/welcome-background.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/Templates.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/getting-started-video-tutorials.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/CellTypeDiscovery.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/PopulationPredictionColor.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/CellTypeDiscoveryColor.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/splash.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/launcher/icons/BiomarkersColor.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/icons copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM.ows -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/060-Showcase-StagePrediction.ows -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/053-Showcase-DataSetPreprocessingAlignment.ows -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/020-Showcase-Markers.ows -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/050-Showcase-DatasetAlignment.ows -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/040-Showcase-RegrBatchEffects.ows -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/030-Showcase-Clustering.ows -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/__init__.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A/matrix.mtx -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A/genes.tsv -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A/barcodes.tsv -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-A copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C/genes.tsv -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C/barcodes.tsv -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C/matrix.mtx -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-C copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B/matrix.mtx -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B/genes.tsv -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B copying orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B/barcodes.tsv -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials/010-Showcase-LoadDataM-Data/batch-B copying orangecontrib/single_cell/tests/test_load_data.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owbatchnorm.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owmarkergenes.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owfilter.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owscpreprocess.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owgenerank.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/owscorecells.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owaligndatasets.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owtsne.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/__init__.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owloaddata.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owmultisample.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owscoregenes.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/test_owdatasets.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests copying orangecontrib/single_cell/tests/data/lib.cell.count -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/DATA_MATRIX_LOG_TPM.txt -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/data.loom -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/lib.cell.meta -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/data.pkl -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/data.txt.gz -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/data.xlsx -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data copying orangecontrib/single_cell/tests/data/10x/hg19/barcodes.tsv -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data/10x/hg19 copying orangecontrib/single_cell/tests/data/10x/hg19/genes.tsv -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data/10x/hg19 copying orangecontrib/single_cell/tests/data/10x/hg19/matrix.mtx -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data/10x/hg19 copying orangecontrib/single_cell/tests/data/10x/mm10/genes.tsv -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data/10x/mm10 copying orangecontrib/single_cell/tests/data/10x/mm10/matrix.mtx -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data/10x/mm10 copying orangecontrib/single_cell/tests/data/10x/mm10/barcodes.tsv -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/data/10x/mm10 copying orangecontrib/single_cell/tests/preprocess/test_scpreprocess.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/preprocess copying orangecontrib/single_cell/tests/preprocess/test_cca.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/preprocess copying orangecontrib/single_cell/tests/preprocess/test_scbnorm.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/preprocess copying orangecontrib/single_cell/tests/preprocess/test_alignment.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/preprocess copying orangecontrib/single_cell/tests/preprocess/__init__.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/preprocess copying orangecontrib/single_cell/preprocess/scpreprocess.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/__init__.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/alignment.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/scbnorm.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/cca.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/biweight.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/preprocess/clusteranalysis.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess copying orangecontrib/single_cell/widgets/owdotmatrix.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owloaddata.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owmultisample.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owscdatasets.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owaligndatasets.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owfilter.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/load_data.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owmarkergenes.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owscoregenes.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owscorecells.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owscpreprocess.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owbatchnorm.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/__init__.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/owtsne.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/contingency_table.py -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets copying orangecontrib/single_cell/widgets/icons/Binarize.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/Standardize.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/SingleCellPreprocess.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/category.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/SingleCellDatasets.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/SelectGenes.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/AlignDatasets.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/ScoreCells.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/Rank.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/LogarithmicScale.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/LoadData.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/ScoreGenes.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/Normalize.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/MultiSample.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/MarkerGenes.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/Filter.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/BatchEffectRemoval.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/DotMatrix.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/VCFFile.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons copying orangecontrib/single_cell/widgets/icons/TSNE.svg -> /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/icons byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/reader.py to reader.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/__main__.py to __main__.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/__init__.py to __init__.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/__init__.py to __init__.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/splash.py to splash.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/update_check.py to update_check.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/config.py to config.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/iconview.py to iconview.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/launcher/welcome.py to welcome.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tutorials/__init__.py to __init__.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_load_data.py to test_load_data.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_owbatchnorm.py to test_owbatchnorm.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_owmarkergenes.py to test_owmarkergenes.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_owfilter.py to test_owfilter.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_owscpreprocess.py to test_owscpreprocess.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_owgenerank.py to test_owgenerank.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/owscorecells.py to owscorecells.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_owaligndatasets.py to test_owaligndatasets.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_owtsne.py to test_owtsne.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/__init__.py to __init__.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_owloaddata.py to test_owloaddata.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_owmultisample.py to test_owmultisample.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_owscoregenes.py to test_owscoregenes.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/test_owdatasets.py to test_owdatasets.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/preprocess/test_scpreprocess.py to test_scpreprocess.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/preprocess/test_cca.py to test_cca.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/preprocess/test_scbnorm.py to test_scbnorm.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/preprocess/test_alignment.py to test_alignment.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/tests/preprocess/__init__.py to __init__.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess/scpreprocess.py to scpreprocess.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess/__init__.py to __init__.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess/alignment.py to alignment.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess/scbnorm.py to scbnorm.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess/cca.py to cca.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess/biweight.py to biweight.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/preprocess/clusteranalysis.py to clusteranalysis.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owdotmatrix.py to owdotmatrix.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owloaddata.py to owloaddata.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owmultisample.py to owmultisample.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owscdatasets.py to owscdatasets.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owaligndatasets.py to owaligndatasets.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owfilter.py to owfilter.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/load_data.py to load_data.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owmarkergenes.py to owmarkergenes.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owscoregenes.py to owscoregenes.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owscorecells.py to owscorecells.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owscpreprocess.py to owscpreprocess.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owbatchnorm.py to owbatchnorm.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/__init__.py to __init__.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/owtsne.py to owtsne.cpython-37.pyc byte-compiling /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/orangecontrib/single_cell/widgets/contingency_table.py to contingency_table.cpython-37.pyc writing byte-compilation script '/tmp/tmpbvb7cn72.py' /usr/local/bin/python3.7 /tmp/tmpbvb7cn72.py removing /tmp/tmpbvb7cn72.py running install_data creating /construction/biology/py-orange3-single-cell/stage/usr/local/help creating /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell copying doc/build/htmlhelp/Orange3ExampleAdd-ondoc.hhk -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell copying doc/build/htmlhelp/Orange3ExampleAdd-ondoc.hhc -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell copying doc/build/htmlhelp/genindex.html -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell copying doc/build/htmlhelp/.buildinfo -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell copying doc/build/htmlhelp/Orange3ExampleAdd-ondoc.stp -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell copying doc/build/htmlhelp/Orange3ExampleAdd-ondoc.hhp -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell copying doc/build/htmlhelp/index.html -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell creating /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_images copying doc/build/htmlhelp/_images/Filter-stamped.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_images copying doc/build/htmlhelp/_images/tSNE-Example.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_images copying doc/build/htmlhelp/_images/LouvainClustering-Example.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_images copying doc/build/htmlhelp/_images/LouvainClustering-stamped.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_images copying doc/build/htmlhelp/_images/SingleCellDatasets-stamped.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_images copying doc/build/htmlhelp/_images/Filter-Example.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_images copying doc/build/htmlhelp/_images/ScoreGenes-stamped.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_images copying doc/build/htmlhelp/_images/ScoreCells-stamped.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_images copying doc/build/htmlhelp/_images/Normalize-stamped.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_images copying doc/build/htmlhelp/_images/tSNE-stamped.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_images creating /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/widgets copying doc/build/htmlhelp/widgets/filter.html -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/widgets copying doc/build/htmlhelp/widgets/louvain.html -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/widgets copying doc/build/htmlhelp/widgets/tsne.html -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/widgets copying doc/build/htmlhelp/widgets/normalize.html -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/widgets copying doc/build/htmlhelp/widgets/scoregenes.html -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/widgets copying doc/build/htmlhelp/widgets/scorecells.html -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/widgets copying doc/build/htmlhelp/widgets/singlecelldatasets.html -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/widgets creating /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/nature.css -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/jquery.js -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/pygments.css -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/searchtools.js -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/minus.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/plus.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/basic.css -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/style.css -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/jquery-3.5.1.js -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/underscore.js -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/underscore-1.3.1.js -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/doctools.js -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/file.png -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/documentation_options.js -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static copying doc/build/htmlhelp/_static/language_data.js -> /construction/biology/py-orange3-single-cell/stage/usr/local/help/orange3-single_cell/_static running install_egg_info Copying Orange3_SingleCell.egg-info to /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/Orange3_SingleCell-0.8.2-py3.7.egg-info Installing /construction/biology/py-orange3-single-cell/stage/usr/local/lib/python3.7/site-packages/Orange3_SingleCell-0.8.2-py3.7-nspkg.pth running install_scripts writing list of installed files to '/construction/biology/py-orange3-single-cell/.PLIST.pymodtmp' ====> 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 00:00:05 ------------------------------------------------------------------------------- -- 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 py37-orange3-single-cell-0.8.2_3 file sizes/checksums [261]: 0% file sizes/checksums [261]: 38% file sizes/checksums [261]: 76% file sizes/checksums [261]: 100% packing files [261]: 0% packing files [261]: 38% packing files [261]: 76% packing files [261]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:15 TOTAL TIME 00:05:47