Bug 939798

Summary:	dev-python/lxml-5.3.0: fails to compile (temp.linux-x86_64-cpython-312/src/lxml/builder.o: No such file or directory)
Product:	Gentoo Linux	Reporter:	Sam James <sam>
Component:	Current packages	Assignee:	Python Gentoo Team <python>
Status:	RESOLVED FIXED
Severity:	normal	CC:	eschwartz
Priority:	Normal
Version:	unspecified
Hardware:	All
OS:	Linux
See Also:	https://github.com/pypa/setuptools/issues/4653 https://bugs.gentoo.org/show_bug.cgi?id=939875
Whiteboard:
Package list:		Runtime testing required:	---
Bug Depends on:
Bug Blocks:	351559
Attachments:	build.log

Description Sam James archtester

2024-09-18 00:18:34 UTC

Created attachment 903241 [details]
build.log

```
Assembler messages:
Fatal error: can't create /var/tmp/portage/dev-python/lxml-5.3.0/work/lxml-lxml-5.3.0-python3_12/build/temp.linux-x86_64-cpython-312/src/lxml/builder.o: No such file or directory
```

----

$ emerge --info
Portage 3.0.66 (python 3.12.6-final-0, default/linux/amd64/23.0/hardened, gcc-15, glibc-2.40-r3, 6.10.10-gentoo-dist-hardened x86_64)
=================================================================
System uname: Linux-6.10.10-gentoo-dist-hardened-x86_64-AMD_Ryzen_9_PRO_7940HS_w-_Radeon_780M_Graphics-with-glibc2.40
KiB Mem:    64427408 total,  37114348 free
KiB Swap:   25051128 total,  24644856 free
Timestamp of repository gentoo: Tue, 17 Sep 2024 17:06:36 +0000
Head commit of repository gentoo: d41716bee95c5774e2677f9733fde730dad39773

Timestamp of repository kde: Sat, 14 Sep 2024 22:48:50 +0000
Head commit of repository kde: b367c4d4fd8557c4acbaac629f8441f2b845f21b

Timestamp of repository sam_c: Sun, 08 Sep 2024 18:37:00 +0000
Head commit of repository sam_c: de452065b84e5e1bc5eb871d567e659fc29a6cb6

sh dash 0.5.12
ld GNU ld (Gentoo 9999 p1) 2.43.50.20240909
app-misc/pax-utils:        1.3.7::gentoo
app-shells/bash:           5.2_p32-r1::gentoo
dev-build/autoconf:        2.13-r8::gentoo, 2.72-r1::gentoo
dev-build/automake:        1.17-r1::gentoo
dev-build/cmake:           3.30.3::gentoo
dev-build/libtool:         2.4.7-r4::gentoo
dev-build/make:            4.4.1-r1::gentoo
dev-build/meson:           1.5.1::gentoo
dev-java/java-config:      2.3.4::gentoo
dev-lang/perl:             5.40.0::gentoo
dev-lang/python:           3.12.6::gentoo, 3.13.0_rc2::gentoo
dev-lang/rust:             1.81.0::gentoo
sys-apps/baselayout:       2.15::gentoo
sys-apps/sandbox:          2.39::gentoo
sys-apps/systemd:          256.5::gentoo
sys-devel/binutils:        2.43-r1::gentoo, 9999::gentoo
sys-devel/binutils-config: 5.5.2::gentoo
sys-devel/clang:           18.1.8::gentoo
sys-devel/gcc:             14.2.1_p20240817::gentoo, 15.0.0_pre20240915::gentoo
sys-devel/gcc-config:      2.11::gentoo
sys-devel/llvm:            18.1.8-r4::gentoo
sys-kernel/linux-headers:  6.10::gentoo (virtual/os-headers)
sys-libs/glibc:            2.40-r3::gentoo
Repositories:

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

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

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

Binary Repositories:

gentoobinhost
    priority: 1
    sync-uri: https://distfiles.gentoo.org/releases/amd64/binpackages/23.0/x86-64

Installed sets: @sam-emacs, @sam-fonts, @sam-fortune
ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="@FREE"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O3 -march=native -flto=jobserver -fno-semantic-interposition -mtls-dialect=gnu2 -fdiagnostics-color=always -Wa,-O2 -Wa,-mtune=znver4 -pipe -Werror=strict-aliasing -Werror=lto-type-mismatch -Werror=odr -frecord-gcc-switches"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/lib64/libreoffice/program/sofficerc /usr/share/config /usr/share/gnupg/qualified.txt"
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"
CXXFLAGS="-O3 -march=native -flto=jobserver -fno-semantic-interposition -mtls-dialect=gnu2 -fdiagnostics-color=always -Wa,-O2 -Wa,-mtune=znver4 -pipe -Werror=strict-aliasing -Werror=lto-type-mismatch -Werror=odr -frecord-gcc-switches"
DISTDIR="/var/cache/distfiles"
EMERGE_DEFAULT_OPTS="--keep-going --jobs=8 --load-average=8 --implicit-system-deps=n --with-bdeps=y --usepkg=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="-O3 -march=native -flto=jobserver -fno-semantic-interposition -mtls-dialect=gnu2 -fdiagnostics-color=always -Wa,-O2 -Wa,-mtune=znver4 -pipe -Werror=strict-aliasing -Werror=lto-type-mismatch -Werror=odr -frecord-gcc-switches"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs binpkg-multi-instance buildpkg clean-logs config-protect-if-modified distlocks fixlafiles ipc-sandbox merge-sync merge-wait multilib-strict network-sandbox news parallel-fetch parallel-install pid-sandbox pkgdir-index-trusted preserve-libs protect-owned qa-unresolved-soname-deps sandbox sfperms split-log strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-O3 -march=native -flto=jobserver -fno-semantic-interposition -mtls-dialect=gnu2 -fdiagnostics-color=always -Wa,-O2 -Wa,-mtune=znver4 -pipe -Werror=strict-aliasing -Werror=lto-type-mismatch -Werror=odr -frecord-gcc-switches"
GENTOO_MIRRORS="https://mirror.bytemark.co.uk/gentoo/ https://mirrors.gethosted.online/gentoo/ https://www.mirrorservice.org/sites/distfiles.gentoo.org/"
LANG="en_GB.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,--defsym=__gentoo_check_ldflags__=0"
LEX="flex"
LINGUAS="en en_GB"
MAKEOPTS="-j8 -l8"
PKGDIR="/var/cache/binpkgs"
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"
RUSTFLAGS="-C target-cpu=native -C link-arg=-Wl,-z,pack-relative-relocs"
SHELL="/bin/bash"
USE="X a52 aac acl acpi activities alsa amd64 bluetooth branding bzip2 cairo caps cdda cdr cet compress-xz crypt cups dbus declarative dist-kernel dri dts dvd dvdr emacs encode exif filecaps flac gdbm gif gpm gtk gui hardened iconv icu ipv6 jpeg kde kf6compat kwallet lcms libnotify libtirpc lto mad mng modules-compress mp3 mp4 mpeg multilib ncurses networkmanager nls ogg opengl openmp pam pango pcre pdf pgo pic pie pipewire plasma png policykit ppds pulseaudio qml qt5 qt6 readline screencast sdl seccomp semantic-desktop sound spell ssl ssp startup-notification svg systemd test-rust tiff truetype udev udisks unicode upower usb verify-sig vorbis vulkan wayland widgets wxwidgets x264 xattr xcb xft xml xtpax xv xvid zlib" ABI_X86="64" ADA_TARGET="gcc_12" APACHE2_MODULES="authn_core authz_core socache_shmcb unixd actions alias auth_basic authn_anon authn_dbm authn_file authz_dbm authz_groupfile authz_host authz_owner authz_user autoindex cache cgi cgid dav dav_fs dav_lock deflate dir env expires ext_filter file_cache filter headers include info log_config logio 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" CPU_FLAGS_X86="mmx mmxext sse sse2 aes avx avx2 avx512_bf16 avx512_bitalg avx512_vbmi2 avx512_vnni avx512_vpopcntdq avx512bw avx512cd avx512dq avx512f avx512ifma avx512vbmi avx512vl f16c fma3 pclmul popcnt rdrand sha sse3 sse4_1 sse4_2 sse4a ssse3 vpclmulqdq" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock greis isync itrax mtk3301 ntrip navcom oceanserver oncore rtcm104v2 rtcm104v3 sirf skytraq superstar2 tsip tripmate tnt ublox" GUILE_SINGLE_TARGET="3-0" GUILE_TARGETS="3-0" INPUT_DEVICES="libinput" KERNEL="linux" L10N="en en-GB" LCD_DEVICES="bayrad cfontz glk hd44780 lb216 lcdm001 mtxorb text" LUA_SINGLE_TARGET="lua5-1" LUA_TARGETS="lua5-1" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php8-2" POSTGRES_TARGETS="postgres15" PYTHON_SINGLE_TARGET="python3_12" PYTHON_TARGETS="python3_12" RUBY_TARGETS="ruby31 ruby32" VIDEO_CARDS="amdgpu radeon radeonsi" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipp2p iface geoip fuzzy condition tarpit sysrq proto 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, MAKE, MAKEFLAGS, NM, OBJCOPY, OBJDUMP, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, PYTHONPATH, RANLIB, READELF, SIZE, STRINGS, STRIP, YACC, YFLAGS

Comment 1 Sam James archtester

2024-09-18 00:18:43 UTC

A parallel build issue?

Comment 2 Sam James archtester

2024-09-18 02:28:51 UTC

I see a similar issue with pygame which is suspicious.

But cython didn't change recently. setuptools maybe?

Comment 3 Eli Schwartz gentoo-dev

2024-09-18 02:52:23 UTC

It's a cythonized .o file so it's not clear what it would be racing with.


It actually looks like a directory creation issue? You do get precisely the same error message when you attempt to `gcc /tmp/foo.c -c -o /tmp/directory/does/not/exist/foo.o`

Comment 4 Larry the Git Cow gentoo-dev

2024-09-19 23:54:53 UTC

The bug has been closed via the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=9263b3159f547b099e7f6abd61f929305e0c1516

commit 9263b3159f547b099e7f6abd61f929305e0c1516
Author:     Eli Schwartz <eschwartz@gentoo.org>
AuthorDate: 2024-09-19 23:49:11 +0000
Commit:     Eli Schwartz <eschwartz@gentoo.org>
CommitDate: 2024-09-19 23:53:25 +0000

    profiles: mask =dev-python/setuptools-75*
    
    It is very broken in the face of parallel builds and breaks all software
    using it as a build system via randomly appearing race conditions. One
    day, setuptools will update without breaking everything...
    
    Bug: https://github.com/pypa/setuptools/issues/4653
    Closes: https://bugs.gentoo.org/939798
    Closes: https://bugs.gentoo.org/939875
    Signed-off-by: Eli Schwartz <eschwartz@gentoo.org>

 profiles/package.mask | 6 ++++++
 1 file changed, 6 insertions(+)