Created attachment 434434 [details] build.log cythoning zmq/backend/cython/context.pyx to zmq/backend/cython/context.c Error compiling Cython file: ------------------------------------------------------------ ... def underlying(self): """The address of the underlying libzmq context""" return <size_t> self.handle # backward-compat, though nobody is using it _handle = underlying ^ ------------------------------------------------------------ zmq/backend/cython/context.pyx:119:24: 'underlying' is not a constant, variable or function identifier building 'zmq.backend.cython.context' extension x86_64-pc-linux-gnu-gcc -pipe -O2 -march=bdver3 -fno-strict-aliasing -fPIC -DHAVE_SYS_UN_H=1 -Izmq/utils -Izmq/backend/cython -Izmq/devices -I/usr/include/python2.7 -c zmq/backend/cython/context.c -o /var/tmp/portage/dev-python/pyzmq-15.2.0/work/pyzmq-15.2.0-python2_7/temp.linux-x86_64-2.7/zmq/backend/cython/context.o zmq/backend/cython/context.c:1:2: error: #error Do not use this file, it is the result of a failed Cython compilation. #error Do not use this file, it is the result of a failed Cython compilation. ^ error: command 'x86_64-pc-linux-gnu-gcc' failed with exit status 1 # emerge --info cython pyzmq Portage 2.3.0_rc1 (python 2.7.10-final-42, default/linux/amd64/13.0/desktop/plasma/systemd, gcc-5.3.0, glibc-2.23-r2, 4.5.3-gentoo x86_64) ================================================================= System Settings ================================================================= System uname: Linux-4.5.3-gentoo-x86_64-AMD_A10-7800_Radeon_R7,_12_Compute_Cores_4C+8G-with-gentoo-2.2 KiB Mem: 15381092 total, 3279720 free KiB Swap: 0 total, 0 free sh bash 4.3_p42-r2 ld GNU ld (Gentoo 2.25 p1.2) 2.25 ccache version 3.2.5 [disabled] app-shells/bash: 4.3_p42-r2::gentoo dev-java/java-config: 2.2.0-r3::gentoo dev-lang/perl: 5.22.2::gentoo dev-lang/python: 2.7.11-r2::gentoo, 3.4.3-r7::gentoo, 3.5.1-r2::gentoo dev-util/ccache: 3.2.5::gentoo dev-util/cmake: 3.5.2::gentoo dev-util/pkgconfig: 0.29.1::gentoo sys-apps/baselayout: 2.2::gentoo sys-apps/sandbox: 2.10-r2::gentoo sys-devel/autoconf: 2.13::gentoo, 2.69-r2::gentoo sys-devel/automake: 1.11.6-r2::gentoo, 1.12.6-r1::gentoo, 1.13.4-r1::gentoo, 1.14.1-r1::gentoo, 1.15-r2::gentoo sys-devel/binutils: 2.25-r1::gentoo sys-devel/gcc: 5.3.0::gentoo sys-devel/gcc-config: 1.8-r1::gentoo sys-devel/libtool: 2.4.6-r2::gentoo sys-devel/make: 4.1-r1::gentoo sys-kernel/linux-headers: 4.5::gentoo (virtual/os-headers) sys-libs/glibc: 2.23-r2::gentoo Repositories: gentoo location: /var/cache/portage/gentoo-git sync-type: git sync-uri: git://anongit.gentoo.org/repo/gentoo.git priority: -1000 kde location: /var/lib/layman/kde sync-type: laymansync sync-uri: git://anongit.gentoo.org/proj/kde.git masters: gentoo priority: 50 sage-on-gentoo location: /var/lib/layman/sage-on-gentoo sync-type: laymansync sync-uri: git://github.com/cschwan/sage-on-gentoo.git masters: gentoo science priority: 50 science location: /var/lib/layman/science sync-type: laymansync sync-uri: git://anongit.gentoo.org/proj/sci.git masters: gentoo priority: 50 local location: /var/cache/portage/local masters: gentoo priority: 100 ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="* -@EULA" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-pipe -O2 -march=bdver3" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/lib64/libreoffice/program/sofficerc /usr/share/config /usr/share/gnupg/qualified.txt /var/lib/hsqldb" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php7.0/ext-active/ /etc/php/cgi-php7.0/ext-active/ /etc/php/cli-php7.0/ext-active/ /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo /etc/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c" CXXFLAGS="-pipe -O2 -march=bdver3" DISTDIR="/var/cache/portage/distfiles" EMERGE_DEFAULT_OPTS="--keep-going --nospinner" FCFLAGS="-O2 -pipe" FEATURES="assume-digests binpkg-logs buildsyspkg cgroup compressdebug config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync network-sandbox news parallel-fetch parallel-install preserve-libs protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" FFLAGS="-O2 -pipe" GENTOO_MIRRORS="http://ftp.spline.inf.fu-berlin.de/mirrors/gentoo/ http://ftp-stud.hs-esslingen.de/pub/Mirrors/gentoo/ http://distfiles.gentoo.org" LANG="en_GB.UTF-8" LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu" MAKEOPTS="-j3" PKGDIR="/var/cache/portage/packages" PORTAGE_COMPRESS="xz" PORTAGE_CONFIGROOT="/" PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages --exclude=/.git" PORTAGE_TMPDIR="/var/tmp" USE="X a52 aac aacplus aacs acl acpi alsa amd64 appindicator archive audit avahi bash-completion bdplus berkdb bluetooth bluray branding bzip2 cairo caps cdda cddb cdio cdr celt cjk cli colord conntrack cracklib crypt cups cxx d3d9 dbus declarative dirac dri dts dvb dvd dvdr egl emboss encode exif fam fax ffmpeg firefox flac fontconfig fortran fribidi gdbm geoclue geolocation gif git glamor gles gmp gpm gstreamer gtk gtk3 harfbuzz ibus iconv ipv6 jpeg jpeg2k kde kipi ladspa latex lcms ldap libinput libnotify libproxy libsecret lua_target_lua5-2 lv2 lz4 lzma lzo mad mercurial mmx mmxext mng modemmanager modplug modules mp3 mp4 mpeg mplayer mtp multilib multitarget mysql ncurses netlink networkmanager nls nptl ogg openal opencl openexr opengl openmax openmp opus pam pango pcap pch pcre pdf phonon plasma png policykit ppds pulseaudio qml qt3support qt4 qt5 readline rtmp samba scanner schroedinger sctp sdl seccomp semantic-desktop session speex spell sse sse2 ssl startup-notification svg systemd tcpd theora threads tiff truetype udev udisks unicode upnp upnp-av upower usb v4l v4l2 vaapi vdpau vorbis vpx wavpack wayland webp widgets x264 x265 xattr xcb xcomposite xinerama xml xrandr xscreensaver xv xvid xz zeroconf zlib" ABI_X86="64" ALSA_CARDS="hda-intel" APACHE2_MODULES="authn_core authz_core socache_shmcb unixd actions alias auth_basic authn_alias authn_anon authn_dbm authn_default authn_file authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgi cgid dav dav_fs dav_lock deflate dir disk_cache env expires ext_filter file_cache filter headers include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif speling status unique_id userdir usertrack vhost_alias" CALLIGRA_FEATURES="stage words flow sheets gemini" CAMERAS="ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="aes avx fma3 fma4 mmx mmxext popcnt sse sse2 sse3 sse4_1 sse4_2 sse4a ssse3 xop" DRACUT_MODULES="btrfs caps systemd" ELIBC="glibc" ENLIGHTENMENT_MODULES="*" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf superstar2 timing tsip tripmate tnt ublox ubx" GRUB_PLATFORMS="coreboot efi-64 pc" INPUT_DEVICES="joystick" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="de en en_GB ar fa tr" LIRC_DEVICES="devinput" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-5" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_4 pypy pypy3" RUBY_TARGETS="ruby20 ruby21" USERLAND="GNU" VIDEO_CARDS="amdgpu radeon radeonsi" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account" Unset: CC, CPPFLAGS, CTARGET, CXX, INSTALL_MASK, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON ================================================================= Package Settings ================================================================= dev-python/cython-0.24::sage-on-gentoo was built with the following: USE="-doc -emacs -examples -test" ABI_X86="64" PYTHON_TARGETS="python2_7 python3_4 -python3_3 -python3_5" dev-python/pyzmq-15.2.0::gentoo was built with the following: USE="-doc -examples -test" ABI_X86="64" PYTHON_TARGETS="python2_7 python3_4 -python3_3 -python3_5"
I have the same issue.
Masking cython-0.24 amd sage-7.2 and emerging cython-0.23.5 seems to remove this issue. At least it removes the blocking of 'emerge -uvDN world' which is connected with this bug.
I had to mask cysignals-1.1.1 as well.
I encountered the same, and reported it at https://github.com/cschwan/sage-on-gentoo/issues/422. The issue has been addressed by https://github.com/zeromq/pyzmq/pull/819. François Bissey said he'd adopt the pyzmq ebuild into the sage-on-gentoo overlay in order to apply that fix. As a quick workaround until then, the following works for me: mkdir -p /etc/portage/patches/dev-python/pyzmq-15.2.0 wget -O /etc/portage/patches/dev-python/pyzmq-15.2.0/659f921.patch \ https://github.com/zeromq/pyzmq/commit/659f9211aad1565543e26ef6877456d0.patch
Thank you for pointing me to this bug Martin. You can synchronise the sage-on-gentoo overlay and get a fixed pyzmq-15.2.0.
This bug is now also present in the main Portage tree since Cython was bumped to 0.24 a week ago.
Thanks for the report, and the link to the patch! commit e105a00cab63d93cb86e59a6b2663e283a732fe2 Author: Mike Gilbert <floppym@gentoo.org> Date: Tue Jun 28 18:19:46 2016 -0400 dev-python/pyzmq: fix build with cython-0.24 Bug: https://bugs.gentoo.org/583192 Package-Manager: portage-portage_p2.3.0 dev-python/pyzmq/files/pyzmq-cython-0.24.patch | 33 ++++++++++++++++++++++++++ dev-python/pyzmq/pyzmq-15.2.0.ebuild | 2 ++ 2 files changed, 35 insertions(+)
Thank you. The sage-on-gentoo overlay version will be removed in the next 24 hours.
