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Bug 840776 - sci-libs/vtk-9.0.3-r4: failed (test phase)
Summary: sci-libs/vtk-9.0.3-r4: failed (test phase)
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:
Whiteboard:
Keywords:
Depends on:
Blocks: 829841
  Show dependency tree
 
Reported: 2022-04-25 13:48 UTC by Joonas Niilola
Modified: 2024-01-10 12:41 UTC (History)
3 users (show)

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


Attachments
build.log (vtk-9.0.3-r4:20220425-131549.log.xz,200.82 KB, application/x-xz)
2022-04-25 13:48 UTC, Joonas Niilola
Details
vtk-9.0.3-r4-LastTest.log (vtk-9.0.3-r4-LastTest.log.xz,294.06 KB, application/x-xz)
2022-04-25 13:49 UTC, Joonas Niilola
Details

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Description Joonas Niilola gentoo-dev 2022-04-25 13:48:46 UTC
Created attachment 774506 [details]
build.log

# emerge --info
Portage 3.0.30 (python 3.9.11-final-0, default/linux/amd64/17.1, gcc-11.2.1, glibc-2.34-r10, 5.17.0-pf3 x86_64)
=================================================================
System uname: Linux-5.17.0-pf3-x86_64-AMD_Ryzen_7_3700X_8-Core_Processor-with-glibc2.34
KiB Mem:    32855304 total,  31644800 free
KiB Swap:          0 total,         0 free
Timestamp of repository gentoo: Sun, 24 Apr 2022 09:34:05 +0000
Head commit of repository gentoo: e0fa7abfd5d788afb11c2c3597081a4ec17436b6

sh bash 5.1_p16
ld GNU ld (Gentoo 2.37_p1 p2) 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-r9::gentoo
dev-lang/python:           3.8.13::gentoo, 3.9.11::gentoo, 3.10.3::gentoo
dev-util/cmake:            3.22.2::gentoo
dev-util/meson:            0.60.3::gentoo
sys-apps/baselayout:       2.7-r3::gentoo
sys-apps/openrc:           0.44.10::gentoo
sys-apps/sandbox:          2.29::gentoo
sys-devel/autoconf:        2.71-r1::gentoo
sys-devel/automake:        1.16.5::gentoo
sys-devel/binutils:        2.37_p1-r2::gentoo
sys-devel/binutils-config: 5.4.1::gentoo
sys-devel/clang:           13.0.1::gentoo
sys-devel/gcc:             11.2.1_p20220115::gentoo
sys-devel/gcc-config:      2.5-r1::gentoo
sys-devel/libtool:         2.4.6-r6::gentoo
sys-devel/llvm:            13.0.1::gentoo
sys-devel/make:            4.3::gentoo
sys-kernel/linux-headers:  5.15-r3::gentoo (virtual/os-headers)
sys-libs/glibc:            2.34-r10::gentoo
Repositories:

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

ACCEPT_KEYWORDS="amd64"
ACCEPT_LICENSE="*"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-march=native -O2 -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /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 /etc/terminfo"
CXXFLAGS="-march=native -O2 -pipe"
DISTDIR="/var/cache/distfiles"
EMERGE_DEFAULT_OPTS="--autounmask=y --autounmask-continue --autounmask-use=y --autounmask-write --binpkg-changed-deps=y --buildpkg-exclude virtual --buildpkg-exclude acct-* --buildpkg-exclude sys-kernel --nospinner --jobs=8 --usepkg"
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"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs binpkg-multi-instance buildpkg buildpkg-live config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync multilib-strict network-sandbox news parallel-fetch parallel-install pid-sandbox preserve-libs protect-owned qa-unresolved-soname-deps sandbox sfperms strict strict-keepdir unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-march=native -O2 -pipe"
GENTOO_MIRRORS="https://distfiles.gentoo.org"
LANG="C.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
LINGUAS=" en en_US en-US fi sv "
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"
USE="acl amd64 bzip2 cli crypt dbus dri elogind fortran gdbm iconv ipv6 libglvnd libtirpc multilib ncurses nptl openmp openrc pam pcre readline seccomp split-usr ssl udev unicode xattr zlib" ABI_X86="64 32" ADA_TARGET="gnat_2020" 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" CPU_FLAGS_X86="aes avx avx2 f16c fma3 mmx mmxext pclmul popcnt sha sse sse2 sse3 sse4_1 sse4_2 sse4a 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" KERNEL="linux" L10N="en en_US en-US fi sv" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LLVM_TARGETS="AMDGPU BPF" 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_9" PYTHON_TARGETS="python3_9" RUBY_TARGETS="ruby26 ruby27" USERLAND="GNU" VIDEO_CARDS="amdgpu radeonsi" 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, SHELL, SIZE, STRINGS, STRIP, YACC, YFLAGS
Comment 1 Joonas Niilola gentoo-dev 2022-04-25 13:49:04 UTC
Created attachment 774509 [details]
vtk-9.0.3-r4-LastTest.log
Comment 2 Bernd 2022-04-26 07:06:48 UTC
Only about one third of the tests are passing. I wonder, how to fix this. Upstream build system testing seems not to be made for downstream testing inside a sandbox, with downloading files, a target VTKData to build extra data files, which I wasn't be able to get it build properly.

Maybe the feature from EAPI 8 to allow downloading of files in certain circumstances can help with that?
Comment 3 Joonas Niilola gentoo-dev 2022-04-29 11:53:39 UTC
If I read and understood your comment right, then yes, maybe you can work it through the new available features. I don't really know if EAPI-8 is needed since you can already bypass the network sandbox in test phase via ALLOW_TEST="network" variable in your make.conf (env/test.conf). You also could pre-download the test cases, but I fear that'll require a lot of modifications to the ebuild.

So maybe let's try with ALLOW_TEST="network" first?
Comment 4 Joonas Niilola gentoo-dev 2022-04-29 12:03:56 UTC
Oh and you do need these in the _ebuild_ too:
PROPERTIES="test_network"
RESTRICT="test"
Comment 5 Bernd 2022-04-30 10:17:32 UTC
I can try these changes. Yet, they are just a small bit of the issues. v9.1.0 has all cases and needed data in a downloadable tarball, but still many tests fail with our setup.

If you look at their dashboard[1], most of their tests pass.

Maybe this points to some misconfiguration with the ebuild as well, i.e. USE flag combinations which might not play well together, but are not strictly forbidden by upstream.

While preparing for packaging v9.1.0, I tried building and testing from a git checkout, which resulted in lesser test fails than the ebuild shows. I was even thinking of restricting test until that has been solved.

[1] https://open.cdash.org/index.php?project=VTK
Comment 6 Larry the Git Cow gentoo-dev 2024-01-10 12:41:18 UTC
The bug has been closed via the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=0167fc77186716079471d895b32b2283ca8b7fc4

commit 0167fc77186716079471d895b32b2283ca8b7fc4
Author:     Paul Zander <negril.nx+gentoo@gmail.com>
AuthorDate: 2023-07-06 14:26:47 +0000
Commit:     Sam James <sam@gentoo.org>
CommitDate: 2024-01-10 12:41:01 +0000

    sci-libs/vtk: add 9.3.0
    
    Closes: https://bugs.gentoo.org/918898
    Closes: https://bugs.gentoo.org/909520
    Closes: https://bugs.gentoo.org/909380
    Closes: https://bugs.gentoo.org/908874
    Closes: https://bugs.gentoo.org/906264
    Closes: https://bugs.gentoo.org/906075
    Closes: https://bugs.gentoo.org/887505
    Closes: https://bugs.gentoo.org/840776
    Closes: https://bugs.gentoo.org/835659
    
    Signed-off-by: Paul Zander <negril.nx+gentoo@gmail.com>
    Closes: https://github.com/gentoo/gentoo/pull/34432
    Signed-off-by: Sam James <sam@gentoo.org>

 sci-libs/vtk/Manifest                              |   6 +
 sci-libs/vtk/files/vtk-9.2.5-pegtl-3.x.patch       | 136 +++
 ...ix-Java-error-with-integer-enum-overloads.patch |  51 ++
 sci-libs/vtk/files/vtk-9.3.0-java.patch            |  11 +
 sci-libs/vtk/files/vtk-9.3.0-opencascade.patch     |  17 +
 sci-libs/vtk/files/vtk-9.3.0-pdal-2.6.0.patch      |  77 ++
 .../vtk-9.3.0-too-many-initializer-values.patch    |  20 +
 sci-libs/vtk/metadata.xml                          |   1 +
 sci-libs/vtk/vtk-9.3.0.ebuild                      | 909 +++++++++++++++++++++
 9 files changed, 1228 insertions(+)