Bug 831228 – dev-python/numpy-1.22.1 fails to compile: error: Command "x86_64-pc-linux-gnu-gcc ..." failed with exit status 1

• Product: Gentoo Linux
• Status: CONFIRMED ---

[Description Miroslav Šulc 2022-01-15 09:09:40 UTC]

Created attachment 762191 [details]
build.log

INFO: x86_64-pc-linux-gnu-gcc: numpy/random/mtrand.c
INFO: x86_64-pc-linux-gnu-gcc: numpy/random/src/legacy/legacy-distributions.c
INFO: x86_64-pc-linux-gnu-gcc: numpy/random/src/distributions/distributions.c
INFO: x86_64-pc-linux-gnu-gcc -march=native -O2 -pipe -frecord-gcc-switches -shared -Wl,-O1 -Wl,--as-needed -shared -march=native -O2 -pipe -frecord-gcc-switches -fno-strict-aliasing /var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/temp.linux-x86_64-3.10/numpy/random/mtrand.o /var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/temp.linux-x86_64-3.10/numpy/random/src/legacy/legacy-distributions.o /var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/temp.linux-x86_64-3.10/numpy/random/src/distributions/distributions.o -L/usr/lib64 -L/var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/temp.linux-x86_64-3.10 -lm -lnpymath -o /var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/lib/numpy/random/mtrand.cpython-310-x86_64-linux-gnu.so
error: Command "x86_64-pc-linux-gnu-gcc -march=native -O2 -pipe -frecord-gcc-switches -march=native -O2 -pipe -frecord-gcc-switches -fno-strict-aliasing -fPIC -DNPY_INTERNAL_BUILD=1 -DHAVE_NPY_CONFIG_H=1 -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE=1 -D_LARGEFILE64_SOURCE=1 -DNO_ATLAS_INFO=1 -DHAVE_CBLAS -I/usr/include -I/var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/src.linux-x86_64-3.10/numpy/core/src/common -I/var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/src.linux-x86_64-3.10/numpy/core/src/umath -Inumpy/core/include -I/var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/src.linux-x86_64-3.10/numpy/core/include/numpy -I/var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/src.linux-x86_64-3.10/numpy/distutils/include -Inumpy/core/src/common -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -Inumpy/core/src/_simd -I/usr/include/python3.10 -I/var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/src.linux-x86_64-3.10/numpy/core/src/common -I/var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/src.linux-x86_64-3.10/numpy/core/src/npymath -c /var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/src.linux-x86_64-3.10/numpy/core/src/umath/loops.c -o /var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/temp.linux-x86_64-3.10/var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/src.linux-x86_64-3.10/numpy/core/src/umath/loops.o -MMD -MF /var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/temp.linux-x86_64-3.10/var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/src.linux-x86_64-3.10/numpy/core/src/umath/loops.o.d -msse -msse2 -msse3 -mssse3 -msse4.1 -mpopcnt -msse4.2 -mavx -mf16c -mfma -mavx2 -mavx512f -mavx512cd -mavx512vl -mavx512bw -mavx512dq -mavx512vnni -mavx512ifma -mavx512vbmi -mavx512vbmi2 -mavx512bitalg -mavx512vpopcntdq" failed with exit status 1
INFO: 
########### EXT COMPILER OPTIMIZATION ###########
INFO: Platform      : 
  Architecture: x64
  Compiler    : gcc

CPU baseline  : 
  Requested   : 'native'
  Enabled     : SSE SSE2 SSE3 SSSE3 SSE41 POPCNT SSE42 AVX F16C FMA3 AVX2 AVX512F AVX512CD AVX512_SKX AVX512_CLX AVX512_CNL AVX512_ICL
  Flags       : -msse -msse2 -msse3 -mssse3 -msse4.1 -mpopcnt -msse4.2 -mavx -mf16c -mfma -mavx2 -mavx512f -mavx512cd -mavx512vl -mavx512bw -mavx512dq -mavx512vnni -mavx512ifma -mavx512vbmi -mavx512vbmi2 -mavx512bitalg -mavx512vpopcntdq
  Extra checks: AVX512F_REDUCE AVX512BW_MASK AVX512DQ_MASK

CPU dispatch  : 
  Requested   : 'max -xop -fma4'
  Enabled     : AVX512_KNL AVX512_KNM
  Generated   : none
INFO: CCompilerOpt.cache_flush[817] : write cache to path -> /var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/temp.linux-x86_64-3.10/ccompiler_opt_cache_ext.py
INFO: 
########### CLIB COMPILER OPTIMIZATION ###########
INFO: Platform      : 
  Architecture: x64
  Compiler    : gcc

CPU baseline  : 
  Requested   : 'native'
  Enabled     : SSE SSE2 SSE3 SSSE3 SSE41 POPCNT SSE42 AVX F16C FMA3 AVX2 AVX512F AVX512CD AVX512_SKX AVX512_CLX AVX512_CNL AVX512_ICL
  Flags       : -msse -msse2 -msse3 -mssse3 -msse4.1 -mpopcnt -msse4.2 -mavx -mf16c -mfma -mavx2 -mavx512f -mavx512cd -mavx512vl -mavx512bw -mavx512dq -mavx512vnni -mavx512ifma -mavx512vbmi -mavx512vbmi2 -mavx512bitalg -mavx512vpopcntdq
  Extra checks: AVX512F_REDUCE AVX512BW_MASK AVX512DQ_MASK

CPU dispatch  : 
  Requested   : 'max -xop -fma4'
  Enabled     : AVX512_KNL AVX512_KNM
  Generated   : none
INFO: CCompilerOpt.cache_flush[817] : write cache to path -> /var/tmp/portage/dev-python/numpy-1.22.1/work/numpy-1.22.1-python3_10/temp.linux-x86_64-3.10/ccompiler_opt_cache_clib.py


# emerge --info '=dev-python/numpy-1.22.1::gentoo'
Portage 3.0.30 (python 3.10.1-final-0, default/linux/amd64/17.1/hardened, gcc-11.2.1, glibc-2.34-r6, 5.16.0-gentoo x86_64)
=================================================================
                         System Settings
=================================================================
System uname: Linux-5.16.0-gentoo-x86_64-11th_Gen_Intel-R-_Core-TM-_i9-11900K_@_3.50GHz-with-glibc2.34
KiB Mem:   131764076 total,  90477300 free
KiB Swap:          0 total,         0 free
Timestamp of repository gentoo: Sat, 15 Jan 2022 08:00:01 +0000
Head commit of repository gentoo: 8ea76e544bfa6ca296c317c1631b0813288fc65c
sh bash 5.1_p16
ld GNU ld (Gentoo 2.37_p1 p1) 2.37
app-misc/pax-utils:        1.3.3::gentoo
app-shells/bash:           5.1_p16::gentoo
dev-java/java-config:      2.3.1::gentoo
dev-lang/perl:             5.34.0-r6::gentoo
dev-lang/python:           2.7.18_p13::gentoo, 3.8.12_p1-r1::gentoo, 3.9.9-r1::gentoo, 3.10.1-r3::gentoo
dev-lang/rust:             1.58.0::gentoo
dev-util/cmake:            3.22.1::gentoo
dev-util/meson:            0.60.3::gentoo
sys-apps/baselayout:       2.8::gentoo
sys-apps/openrc:           0.44.10::gentoo
sys-apps/sandbox:          2.29::gentoo
sys-devel/autoconf:        2.13-r1::gentoo, 2.71-r1::gentoo
sys-devel/automake:        1.16.5::gentoo
sys-devel/binutils:        2.37_p1-r1::gentoo
sys-devel/binutils-config: 5.4::gentoo
sys-devel/clang:           13.0.0::gentoo
sys-devel/gcc:             11.2.1_p20211127::gentoo
sys-devel/gcc-config:      2.5-r1::gentoo
sys-devel/libtool:         2.4.6-r6::gentoo
sys-devel/lld:             13.0.0::gentoo
sys-devel/llvm:            13.0.0::gentoo
sys-devel/make:            4.3::gentoo
sys-kernel/linux-headers:  5.16::gentoo (virtual/os-headers)
sys-libs/glibc:            2.34-r6::gentoo
Repositories:

gentoo
    location: /var/db/repos/gentoo
    sync-type: rsync
    sync-uri: rsync://rsync.gentoo.org/gentoo-portage
    priority: -1000
    sync-rsync-verify-max-age: 24
    sync-rsync-extra-opts: 
    sync-rsync-verify-metamanifest: yes
    sync-rsync-verify-jobs: 1

fordfrog
    location: /usr/src/fordfrog.git
    masters: gentoo
    priority: 0

local
    location: /usr/local/portage
    masters: gentoo

brother-overlay
    location: /var/lib/layman/brother-overlay
    masters: gentoo
    priority: 50

ceamac
    location: /var/lib/layman/ceamac
    masters: gentoo
    priority: 50

flavour
    location: /var/lib/layman/flavour
    masters: gentoo
    priority: 50

waebbl
    location: /var/lib/layman/waebbl
    masters: gentoo
    priority: 50

ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="* -@EULA"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-march=native -O2 -pipe -frecord-gcc-switches"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /opt/brother/scanner/brscan4/brsanenetdevice4.cfg /usr/lib64/libreoffice/program/sofficerc /usr/share/config /usr/share/gnupg/qualified.txt /usr/share/maven-bin-3.8/conf"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /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="-march=native -O2 -pipe -frecord-gcc-switches"
DISTDIR="/var/db/repos/gentoo/distfiles"
EMERGE_DEFAULT_OPTS="--misspell-suggestions n"
ENV_UNSET="CARGO_HOME DBUS_SESSION_BUS_ADDRESS DISPLAY GOBIN GOPATH PERL5LIB PERL5OPT PERLPREFIX PERL_CORE PERL_MB_OPT PERL_MM_OPT XAUTHORITY XDG_CACHE_HOME XDG_CONFIG_HOME XDG_DATA_HOME XDG_RUNTIME_DIR"
FCFLAGS="-march=native -O2 -pipe -frecord-gcc-switches"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs binpkg-multi-instance buildpkg-live config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync multilib-strict network-sandbox news parallel-fetch pid-sandbox preserve-libs protect-owned qa-unresolved-soname-deps sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-march=native -O2 -pipe -frecord-gcc-switches"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LANG="cs_CZ.utf8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
LINGUAS="cs cs_CZ en en_US en_UK"
MAKEOPTS="-j17"
PKGDIR="/var/db/repos/gentoo/packages"
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"
SHELL="/bin/bash"
USE="X a52 aac aacplus acl alsa amd64 aubio bluetooth bzip2 cdda cddb cdr color-management colord crypt cuda cups dbus dia dssi dvb dvd elogind exif ffmpeg flac gegl gif gphoto2 gsm gtk gtk3 hardened hddtemp http2 ibus iconv icu id3tag ipv6 jack jack-dbus jacksession javafx jpeg ladspa lastfm latex lcms libass libglvnd libnotify libproxy libsamplerate libtirpc lilypond lm-sensors lv2 mad modplug mp3 mpeg mpi mtp multilib musepack ncurses nls nptl ocr ogg openexr opengl openmp opus osc pam pcre pdf pie png policykit pulseaudio qt5 raw readline rubberband samba scanner screencast seccomp sf2 sndfile soundio speex spell split-usr ssl ssp startup-notification svg svg2 taglib theora tiff timidity tk tray truetype udev unicode usb vamp visio vorbis vpx vst vulkan wavpack webp widevine wmf x264 x265 xattr xinerama xmp xtpax xv xvid zlib" ABI_X86="32 64" ADA_TARGET="gnat_2020" APACHE2_MODULES="alias auth_basic authn_core authn_file authz_core authz_host authz_user cgi cgid deflate dir expires filter headers http2 include info log_config mime mime_magic negotiation proxy proxy_ajp rewrite setenvif socache_shmcb status unixd vhost_alias" APACHE2_MPMS="event" CALLIGRA_FEATURES="karbon sheets words" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="aes avx avx2 avx512f avx512dq avx512cd avx512bw avx512vl avx512vbmi f16c fma3 mmx mmxext pclmul popcnt rdrand sha sse sse2 sse3 sse4_1 sse4_2 ssse3" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock greis isync itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf skytraq superstar2 timing tsip tripmate tnt ublox ubx" INPUT_DEVICES="evdev libinput synaptics wacom" KERNEL="linux" L10N="cs cs-CZ en en-US en-UK" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LLVM_TARGETS="NVPTX" LUA_SINGLE_TARGET="lua5-1" LUA_TARGETS="lua5-1" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php7-3 php7-4" POSTGRES_TARGETS="postgres12 postgres13" PYTHON_SINGLE_TARGET="python3_9" PYTHON_TARGETS="python3_7 python3_8 python3_9 python3_10" RUBY_TARGETS="ruby26 ruby27 ruby30" SANE_BACKENDS="genesys" USERLAND="GNU" VIDEO_CARDS="intel i915 i965 nvidia" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq proto steal rawnat logmark ipmark dhcpmac delude chaos account"
Unset:  ADDR2LINE, AR, ARFLAGS, AS, ASFLAGS, CC, CCLD, CONFIG_SHELL, CPP, CPPFLAGS, CTARGET, CXX, CXXFILT, ELFEDIT, EXTRA_ECONF, F77FLAGS, FC, GCOV, GPROF, INSTALL_MASK, LC_ALL, LD, LEX, LFLAGS, LIBTOOL, MAKE, MAKEFLAGS, NM, OBJCOPY, OBJDUMP, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, RANLIB, READELF, RUSTFLAGS, SIZE, STRINGS, STRIP, YACC, YFLAGS


# emerge -pqv '=dev-python/numpy-1.22.1::gentoo'
[ebuild     U ] dev-python/numpy-1.22.1 [1.22.0-r1] USE="lapack -doc -test" PYTHON_TARGETS="python3_8 python3_9 python3_10"