Created attachment 538058 [details] build.log Please see build.log for details. Portage 2.3.40 (python 3.6.5-final-0, default/linux/x86/17.0, gcc-7.3.0, glibc-2.26-r7, 4.9.95-gentoo i686) ================================================================= System uname: Linux-4.9.95-gentoo-i686-Intel-R-_Core-TM-_i7-3770K_CPU_@_3.50GHz-with-gentoo-2.4.1 KiB Mem: 3108308 total, 1934432 free KiB Swap: 488276 total, 474896 free Timestamp of repository gentoo: Sun, 01 Jul 2018 17:46:15 +0000 Head commit of repository gentoo: 8976c97207c582dcdc87e474f3d435fcb6929037 sh bash 4.4_p12 ld GNU ld (Gentoo 2.30 p2) 2.30.0 app-shells/bash: 4.4_p12::gentoo dev-lang/perl: 5.24.3-r1::gentoo dev-lang/python: 2.7.14-r1::gentoo, 3.6.5::gentoo dev-util/cmake: 3.9.6::gentoo dev-util/pkgconfig: 0.29.2::gentoo sys-apps/baselayout: 2.4.1-r2::gentoo sys-apps/openrc: 0.34.11::gentoo sys-apps/sandbox: 2.13::gentoo sys-devel/autoconf: 2.13::gentoo, 2.69-r4::gentoo sys-devel/automake: 1.15.1-r2::gentoo sys-devel/binutils: 2.30-r2::gentoo sys-devel/gcc: 7.3.0-r3::gentoo sys-devel/gcc-config: 1.8-r1::gentoo sys-devel/libtool: 2.4.6-r3::gentoo sys-devel/make: 4.2.1::gentoo sys-kernel/linux-headers: 4.13::gentoo (virtual/os-headers) sys-libs/glibc: 2.26-r7::gentoo Repositories: gentoo location: /usr/portage sync-type: git sync-uri: https://github.com/gentoo-mirror/gentoo.git priority: -1000 ABI="x86" ABI_X86="32" ACCEPT_KEYWORDS="x86" ACCEPT_LICENSE="* -@EULA" ACCEPT_PROPERTIES="*" ACCEPT_RESTRICT="*" ARCH="x86" BROOT="" CBUILD="i686-pc-linux-gnu" CFLAGS="-O2 -pipe -march=pentium4m -mtune=pentium4m" CHOST="i686-pc-linux-gnu" CHOST_x86="i686-pc-linux-gnu" COLLISION_IGNORE="/lib/modules/* *.py[co] *$py.class */dropin.cache" CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt" CPU_FLAGS_X86="mmx mmxext sse sse2" CXXFLAGS="-O2 -pipe -march=pentium4m -mtune=pentium4m" DEFAULT_ABI="x86" EDITOR="/usr/bin/mcedit" ELIBC="glibc" ENV_UNSET="DBUS_SESSION_BUS_ADDRESS DISPLAY PERL5LIB PERL5OPT PERLPREFIX PERL_CORE PERL_MB_OPT PERL_MM_OPT XAUTHORITY XDG_CACHE_HOME XDG_CONFIG_HOME XDG_DATA_HOME XDG_RUNTIME_DIR" EPREFIX="" EROOT="/" ESYSROOT="/" FCFLAGS="-O2 -march=i686 -pipe" FEATURES="assume-digests binpkg-logs cgroup config-protect-if-modified distlocks downgrade-backup ebuild-locks fixlafiles merge-sync multilib-strict news parallel-fetch preserve-libs protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" FFLAGS="-O2 -march=i686 -pipe" GCC_SPECS="" GRUB_PLATFORMS="efi-32 pc" GSETTINGS_BACKEND="dconf" HOME="/root" INFOPATH="/usr/share/gcc-data/i686-pc-linux-gnu/7.3.0/info:/usr/share/binutils-data/i686-pc-linux-gnu/2.30/info:/usr/share/info" INPUT_DEVICES="libinput keyboard mouse" IUSE_IMPLICIT="abi_x86_32 prefix prefix-chain prefix-guest" KERNEL="linux" L10N="en en-US de de-DE" LANG="en_US.UTF-8" LC_ALL="en_US.UTF-8" LC_MESSAGES="C" LC_PAPER="de_DE.UTF-8" LDFLAGS="-Wl,-O1 -Wl,--as-needed" LIBDIR_x86="lib" LINGUAS="en de" LOGNAME="root" MAIL="/var/mail/root" MAKEOPTS="--jobs 5 --load-average 7.95" MULTILIB_ABIS="x86" NOCOLOR="true" OFFICE_IMPLEMENTATION="libreoffice" OPENCL_PROFILE="mesa" OPENGL_PROFILE="xorg-x11" PAGER="/usr/bin/less" PATH="/usr/i686-pc-linux-gnu/gcc-bin/7.3.0:/usr/lib/llvm/5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin" PHP_TARGETS="php5-6 php7-0" POSTGRES_TARGETS="postgres9_5 postgres10" PWD="/root" PYTHONDONTWRITEBYTECODE="1" PYTHON_SINGLE_TARGET="python3_6" PYTHON_TARGETS="python2_7 python3_6" QT_GRAPHICSSYSTEM="raster" ROOT="/" ROOTPATH="/usr/i686-pc-linux-gnu/gcc-bin/7.3.0:/usr/lib/llvm/5/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin" RUBY_TARGETS="ruby22 ruby23" SHELL="/bin/bash" SHLVL="2" SSH_TTY="/dev/pts/0" SYSROOT="/" TERM="tmux-256color" TMUX="/tmp/tmux-0/default,6917,0" TMUX_PANE="%3" TWISTED_DISABLE_WRITING_OF_PLUGIN_CACHE="1" USER="root" USERLAND="GNU" VIDEO_CARDS="vmware"
It seems tests want more memory... but I don't know how much they need: ..............................sss.s...........MemoryError: Insufficient memory for buffer allocation required by LAPACK.
I am unable to reproduce this in a stable x86 container with a 1 GB RSS limit (ulimit -m 1G).
Oh, I have dev-python/numpy[-lapack]. I will try enabling lapack.
Nope, still can't reproduce this, even with lapack enabled. Whissi: Are you able to reproduce this consistently?
Yes, it is reproducible. Due to 32-bit, this system has only 2.96GB memory available. I just re-run test while watching memory usage: It looks like it didn't even hit that 2.96GB limit. Memory peak usage was ~1.2GB when tests ended with the error shown. Not even swapping or something like this. I also noticed that the test process (/usr/bin/python2.7 -c import numba; numba.test()) which will get started isn't releasing any memory. I.e. starting with ~200MB and increasing memory until test suite is failing.
Is anyone else able to reproduce this on x86?
I modified the python_test function to run the tests in verbose mode. If you can re-run the tests, we should be able to tell which one is triggering the memory error.
I was able to reproduce the error with dev-python/scipy installed. I suspect the test is skipped without it.
The failing test is numba.tests.test_linalg.TestLinalgLstsq. strace shows it trying to allocate ~3.5G of memory. mmap2(NULL, 3752775680, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) = -1 ENOMEM (Cannot allocate memory)
It passed for me in verbose mode?!
Ah, at least during the last test run, sci-libs/scipy wasn't installed: > test_linalg_lstsq (numba.tests.test_linalg.TestLinalgLstsq) ... skipped 'LAPACK needs Scipy 0.16+'
The bug has been closed via the following commit(s): https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=ef879f0851014f832170d6104ca4479c67b46b5b commit ef879f0851014f832170d6104ca4479c67b46b5b Author: Mike Gilbert <floppym@gentoo.org> AuthorDate: 2018-07-09 01:13:09 +0000 Commit: Mike Gilbert <floppym@gentoo.org> CommitDate: 2018-07-09 01:24:40 +0000 dev-python/numba: skip memory-intensive test on 32-bit systems Closes: https://bugs.gentoo.org/659804 Package-Manager: Portage-2.3.40_p15, Repoman-2.3.9_p247 dev-python/numba/files/numba-skip-tests.patch | 14 ++++++++++++++ dev-python/numba/numba-0.37.0.ebuild | 4 ++++ 2 files changed, 18 insertions(+)
