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Bug 908738 - >=dev-python/numpy-1.25.0 fails to configure on 64-bit big-endian platforms
Summary: >=dev-python/numpy-1.25.0 fails to configure on 64-bit big-endian platforms
Status: RESOLVED FIXED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: All Linux
: Normal normal (vote)
Assignee: Gentoo Science Related Packages
URL: https://github.com/numpy/numpy/issues...
Whiteboard:
Keywords:
Depends on:
Blocks: 908739
  Show dependency tree
 
Reported: 2023-06-17 23:31 UTC by matoro
Modified: 2023-06-26 13:14 UTC (History)
6 users (show)

See Also:
Package list:
Runtime testing required: ---


Attachments
build.log (file_908738.txt,11.70 KB, text/plain)
2023-06-17 23:33 UTC, matoro
Details

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Description matoro archtester 2023-06-17 23:31:23 UTC
Checking for size of "long double" : 16 (cached)

../numpy-1.25.0/numpy/core/meson.build:379:4: ERROR: Problem encountered: No idea what this is ....

Affects all 64-bit big-endian platforms:  mips64 BE, ppc64 BE, and sparc64.  32-bit big-endian platforms like hppa and ppc are not affected.


This appears to be an artifact of the switch to meson and is due to this snippet in numpy/core/meson.build:

# long double representation detection (see setup_common.py)
# TODO: this is still incomplete, and different from how it's done in the
# numpy.distutils based build, see https://github.com/mesonbuild/meson/issues/11068
longdouble_size = cc.sizeof('long double')
if longdouble_size == 8
  if host_machine.endian() == 'little'
    longdouble_format = 'IEEE_DOUBLE_LE'
  else
    longdouble_format = 'IEEE_DOUBLE_BE'
  endif
elif longdouble_size == 12
  error('This should not be possible, 12 bits of "content" should still result in sizeof() being 16. Please report this error!'
  )
elif longdouble_size == 16
  if host_machine.endian() == 'little'
    # FIXME: this varies, there's multiple formats here! Not yet implemented.
    #        TBD how we deal with the mess of old long double formats.
    longdouble_format = 'INTEL_EXTENDED_16_BYTES_LE'
  else
    error('No idea what this is ....')
  endif
else
  error('Unknown long double size: ' + londouble_size)
endif
cdata.set10('HAVE_LDOUBLE_' + longdouble_format, true)

Reproducible: Always




Portage 3.0.48.1 (python 3.11.4-final-0, default/linux/mips/17.0/n64, gcc-13, glibc-2.37-r3, 6.3.8-gentoo-mips mips64)
=================================================================
System uname: Linux-6.3.8-gentoo-mips-mips64-Cavium_Octeon_II_V0.10-with-glibc2.37
KiB Mem:     8167164 total,   6193116 free
KiB Swap:          0 total,         0 free
Timestamp of repository gentoo: Sat, 17 Jun 2023 22:47:02 +0000
Head commit of repository gentoo: 0d54fc1aac3709f018699a43ac9802ded0e1477a

Timestamp of repository guru: Sat, 17 Jun 2023 22:46:54 +0000
Head commit of repository guru: 8bc7d1e50cd1a28aff173470398c9a5b1d22eb2d

sh bash 5.2_p15-r3
ld GNU ld (Gentoo 2.40 p5) 2.40.0
app-misc/pax-utils:        1.3.7::gentoo
app-shells/bash:           5.2_p15-r3::gentoo
dev-lang/perl:             5.36.1-r2::gentoo
dev-lang/python:           3.11.4::gentoo, 3.12.0_beta2::gentoo
dev-lang/rust:             1.69.0-r1::gentoo
dev-util/cmake:            3.26.4-r1::gentoo
dev-util/meson:            1.1.1::gentoo
sys-apps/baselayout:       2.13-r1::gentoo
sys-apps/openrc:           0.47.1::gentoo
sys-apps/sandbox:          2.31::gentoo
sys-devel/autoconf:        2.71-r6::gentoo
sys-devel/automake:        1.16.5-r1::gentoo
sys-devel/binutils:        2.38-r2::gentoo, 2.40-r5::gentoo
sys-devel/binutils-config: 5.5::gentoo
sys-devel/gcc:             13.1.1_p20230527::gentoo
sys-devel/gcc-config:      2.11::gentoo
sys-devel/libtool:         2.4.7-r1::gentoo
sys-devel/make:            4.4.1-r1::gentoo
sys-kernel/linux-headers:  6.3::gentoo (virtual/os-headers)
sys-libs/glibc:            2.37-r3::gentoo
Repositories:

gentoo
    location: /var/db/repos/gentoo
    sync-type: git
    sync-uri: https://github.com/gentoo-mirror/gentoo
    sync-user: portage:portage
    priority: -1000
    volatile: False

guru
    location: /var/db/repos/guru
    sync-type: git
    sync-uri: https://github.com/gentoo-mirror/guru.git
    masters: gentoo
    volatile: False

ACCEPT_KEYWORDS="mips ~mips"
ACCEPT_LICENSE="@FREE"
CBUILD="mips64-unknown-linux-gnu"
CFLAGS="-O3 -pipe -march=native -mtune=native -mabi=64"
CHOST="mips64-unknown-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo"
CXXFLAGS="-O3 -pipe -march=native -mtune=native -mabi=64"
DISTDIR="/var/cache/distfiles"
EMERGE_DEFAULT_OPTS="--usepkg --autounmask=n --complete-graph --keep-going --with-bdeps=y"
ENV_UNSET="CARGO_HOME DBUS_SESSION_BUS_ADDRESS DISPLAY GDK_PIXBUF_MODULE_FILE 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 XDG_STATE_HOME"
FCFLAGS=""
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs binpkg-multi-instance buildpkg buildpkg-live compress-build-logs compressdebug config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync multilib-strict network-sandbox news parallel-install pid-sandbox preserve-libs protect-owned qa-unresolved-soname-deps sandbox sfperms splitdebug strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS=""
GENTOO_MIRRORS="https://gentoo.osuosl.org/ https://mirror.leaseweb.com/gentoo/ https://mirror.rackspace.com/gentoo/"
LANG="en_US.utf8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
LEX="flex"
MAKEOPTS="-j16"
PKGDIR="/var/cache/binpkgs"
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="acl bash-completion big-endian bzip2 caps cli crypt elogind gdbm gentoo-vm graphite headless-awt iconv ipv6 libbsd lm-sensors lto mips native-extensions ncurses nls nptl pam pcre pgo readline seccomp split-usr ssl symlink system-bootstrap system-llvm test-rust threads udev unicode verify-sig vhosts vim-syntax xattr zlib" ABI_MIPS="n64" ADA_TARGET="gnat_2021" 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="karbon sheets words" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" 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="libinput" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LUA_SINGLE_TARGET="lua5-1" LUA_TARGETS="lua5-1" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php7-4 php8-0" POSTGRES_TARGETS="postgres12 postgres13" PYTHON_SINGLE_TARGET="python3_11" PYTHON_TARGETS="python3_11" RUBY_TARGETS="ruby31" 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, LFLAGS, LIBTOOL, LINGUAS, 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
Comment 1 matoro archtester 2023-06-17 23:33:38 UTC
Created attachment 864107 [details]
build.log
Comment 2 Sam James archtester Gentoo Infrastructure gentoo-dev Security 2023-06-17 23:34:25 UTC
Let's drop keywords for the new numpy then (I meant to do it earlier but didn't get to it) and rekeyword it, as a substantial change, and workarounds may indeed need to be re-added to either the ebuild and/or upstream.
Comment 3 Larry the Git Cow gentoo-dev 2023-06-17 23:35:26 UTC
The bug has been referenced in the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=f096a7819ea651ebc2432c1683b3594c0c738e0d

commit f096a7819ea651ebc2432c1683b3594c0c738e0d
Author:     Sam James <sam@gentoo.org>
AuthorDate: 2023-06-17 23:35:07 +0000
Commit:     Sam James <sam@gentoo.org>
CommitDate: 2023-06-17 23:35:15 +0000

    dev-python/numpy: drop keywords except for ~amd64
    
    Let's rekeyword it as it's a major change (switch to meson) and adding
    workarounds/changes upstream or in the ebuild may be needed for various platforms.
    
    Bug: https://bugs.gentoo.org/908738
    Signed-off-by: Sam James <sam@gentoo.org>

 dev-python/numpy/numpy-1.25.0.ebuild | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)
Comment 4 matoro archtester 2023-06-19 00:57:08 UTC
I've opened a PR to fix this:  https://github.com/numpy/numpy/pull/23982
Comment 5 Larry the Git Cow gentoo-dev 2023-06-26 13:14:45 UTC
The bug has been closed via the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=6e1f8eac3fc440fe8fe3de5d6f408e1a209df777

commit 6e1f8eac3fc440fe8fe3de5d6f408e1a209df777
Author:     Sam James <sam@gentoo.org>
AuthorDate: 2023-06-26 13:11:27 +0000
Commit:     Sam James <sam@gentoo.org>
CommitDate: 2023-06-26 13:14:18 +0000

    dev-python/numpy: backport long double check fix
    
    Many thanks to matoro for this.
    
    Closes: https://bugs.gentoo.org/908738
    Signed-off-by: Sam James <sam@gentoo.org>

 .../files/numpy-1.25.0-fix-long-double-check.patch | 151 +++++++++++++++++++++
 dev-python/numpy/numpy-1.25.0.ebuild               |   1 +
 2 files changed, 152 insertions(+)