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Bug 758611 - sci-libs/vtk-8.2.0: fails to configure with dev-libs/pugixml-1.11 and dev-libs/pugixml-1.11.1
Summary: sci-libs/vtk-8.2.0: fails to configure with dev-libs/pugixml-1.11 and dev-lib...
Status: RESOLVED FIXED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: AMD64 Linux
: Normal normal
Assignee: Gentoo Science Related Packages
URL:
Whiteboard:
Keywords: PullRequest
Depends on:
Blocks:
 
Reported: 2020-12-05 09:42 UTC by Benjamin Réveillé
Modified: 2020-12-24 01:00 UTC (History)
3 users (show)

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


Attachments

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Description Benjamin Réveillé 2020-12-05 09:42:38 UTC
emerging sci-libs/vtk-8.2.0 with dev-libs/pugixml-1.11 fails with 


CMake Error at IO/CityGML/CMakeLists.txt:7 (get_target_property):
  get_target_property() called with non-existent target "pugixml".


CMake Error at IO/CityGML/CMakeLists.txt:8 (get_target_property):
  get_target_property() called with non-existent target "pugixml".


If I downgrade back to dev-libs/pugixml-1.10 sci-libs/vtk-8.2.0 emerges fine

Reproducible: Always

Steps to Reproduce:
1. upgrade to dev-libs/pugixml-1.11 (if not already upgraded too)
2. emerge sci-libs/vtk-8.2.0
3.
Actual Results:  
emerge sci-libs/vtk-8.2.0 fails during configure with

CMake Error at IO/CityGML/CMakeLists.txt:7 (get_target_property):
  get_target_property() called with non-existent target "pugixml".


CMake Error at IO/CityGML/CMakeLists.txt:8 (get_target_property):
  get_target_property() called with non-existent target "pugixml".

Expected Results:  
emerge sci-libs/vtk-8.2.0 succeeds

vtk remerge (after pugixml upgrade) got triggered for me by the removal of python3_7 single target

> emerge --info
Portage 3.0.11 (python 3.8.6-final-0, default/linux/amd64/17.1/desktop/plasma, gcc-10.2.0, glibc-2.32-r3, 5.9.12-gentoo-x86_64 x86_64)
=================================================================
System uname: Linux-5.9.12-gentoo-x86_64-x86_64-AMD_Ryzen_7_3700X_8-Core_Processor-with-glibc2.2.5
KiB Mem:    32865108 total,   9172596 free
KiB Swap:   65808380 total,  64391404 free
Timestamp of repository gentoo: Sat, 05 Dec 2020 08:15:01 +0000
Head commit of repository gentoo: 2ae008e5083dc21267dcf83f906d44dbe8a9f2bd
sh bash 5.0_p18
ld GNU ld (Gentoo 2.35.1 p2) 2.35.1
ccache version 4.1 [enabled]
app-shells/bash:          5.0_p18::gentoo
dev-java/java-config:     2.3.1::gentoo
dev-lang/perl:            5.30.3-r1::gentoo
dev-lang/python:          2.7.18-r4::gentoo, 3.7.9::gentoo, 3.8.6::gentoo, 3.9.0::gentoo, 3.10.0_alpha1::gentoo
dev-util/ccache:          4.1::gentoo
dev-util/cmake:           3.19.1::gentoo
dev-util/pkgconfig:       0.29.2::gentoo
sys-apps/baselayout:      2.7-r1::gentoo
sys-apps/openrc:          0.42.1::gentoo
sys-apps/sandbox:         2.20::gentoo
sys-devel/autoconf:       2.13-r1::gentoo, 2.69-r5::gentoo
sys-devel/automake:       1.13.4-r2::gentoo, 1.16.3-r1::gentoo
sys-devel/binutils:       2.35.1-r1::gentoo
sys-devel/gcc:            10.2.0-r3::gentoo
sys-devel/gcc-config:     2.3.2-r1::gentoo
sys-devel/libtool:        2.4.6-r6::gentoo
sys-devel/make:           4.3::gentoo
sys-kernel/linux-headers: 5.9::gentoo (virtual/os-headers)
sys-libs/glibc:           2.32-r3::gentoo
Repositories:

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

dwardo
    location: /usr/local/portage
    masters: gentoo
    priority: 0

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

Installed sets: @system
ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="@FREE vmware oracle-java-documentation-11 linux-fw-redistributable no-source-code grass-ipafonts NVIDIA-r2 oracle-java-documentation-8 smartgit free-noncomm dlj-1.1 skype-eula googleearth AdobeFlash-10 AdobeFlash-10.1 AdobeFlash-10.3 AdobeFlash-11.x Oracle-BCLA-JavaSE Intel-SDP skype-4.0.0.7-copyright google-chrome MPEG-4 RAR unRAR Skype-TOS BitstreamCyberbit Snes9x PUEL ValveSteamLicense paraview ms-teams-pre OFFIS"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -march=znver2 -fomit-frame-pointer -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/config /usr/share/easy-rsa /usr/share/gnupg/qualified.txt /usr/share/themes/oxygen-gtk/gtk-2.0"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php7.4/ext-active/ /etc/php/cgi-php7.4/ext-active/ /etc/php/cli-php7.4/ext-active/ /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="-O2 -march=znver2 -fomit-frame-pointer -pipe"
DISTDIR="/usr/portage/distfiles"
EMERGE_DEFAULT_OPTS="--quiet-build=n --keep-going --autounmask=n --verbose-conflicts --with-bdeps=y"
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="-O2 -pipe"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs candy ccache clean-logs config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync metadata-transfer multilib-strict network-sandbox news parallel-fetch parallel-install pid-sandbox preserve-libs protect-owned qa-unresolved-soname-deps sandbox sfperms strict stricter suidctl unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-O2 -pipe"
GENTOO_MIRRORS="http://gentoo.modulix.net/gentoo/ http://mirrors.soeasyto.com/distfiles.gentoo.org/ ftp://ftp.free.fr/mirrors/ftp.gentoo.org/ ftp://mirrors.soeasyto.com/distfiles.gentoo.org/"
LANG="fr_FR.UTF-8"
LC_ALL="fr_FR.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
LINGUAS="fr fr_FR en en_US en_GB"
MAKEOPTS="-j17"
PKGDIR="/usr/portage/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"
USE="X a52 aac aacplus accessibility acl acpi activities agent aim alsa amd64 amr apache2 apng ass audiofile avahi bash bash-completion bcmath berkdb bidi bluetooth boost bzip2 cairo calendar caps captury ccache cdaudio cdda cddb cdinstall cdio cdr cgi chromium chroot cli cpudetection crypt css cups cvs cxx d dbus declarative device-mapper dga dhcp dirac discover divx dnd doc dot dri dts dv dvb dvd dvdr dvdread efi egl elogind embedded emboss emoticon enca encode evdev exif experimental extras faac faad fam fame farstream fat fbcon fbcondecor fdk ffmpeg fftw firefox firefox3 flac font-server fontconfig fortran fortran2003 fpx fr freetype fts3 fuse g3dvl gcj gcl gd gdbm gegl gif gimp git gl2ps gles2 glib glibc-omitfp glitz gmail gmedia gmp gnutls go goom gphoto2 gpm graphviz grub gs gsl gstreamer gtk gtk3 gui h323 harfbuzz highlight history hpcups htmlhandbook http2 httpd iconv icq icu ieee1394 imagemagick imap imlib initramfs inspector ithreads jabber jadetex java javafx jemalloc jpeg jpeg2k kde kerberos kipi kwallet lapack lastfm lcms libglvnd libkms libnotify libtirpc libv4l libv4l2 libwww lirc live lm-sensors logitech-mouse logrotate lua lzo mad math matroska mdnsresponder-compat messages mikmod mime minizip mjpeg mng mod modplug motif mount mp3 mp3tunes mp4 mpeg mpeg2 mpi mplayer msn mtp multilib multimedia musepack musicbrainz mysql mysqli ncurses network networkmanager nforce2 nfs nfsv4 nfsv41 nis nls nptl nsplugin ntfs nvme objc objc++ ogg openal opencascade opengl openmp openssl opus pam pango parport parse-clocks pcre pcre32 pdf pdfimport perl phonon pic plasma plymouth png policykit posix ppds printsupport projectm pulseaudio pvr python qml qrcode qt5 quicktime rar rdesktop readline real realmedia remote romio rtc rtmp rtsp samba sasl scanner schroedinger screen screencast script sdl seccomp secure-delete semantic-desktop sensors server skins slang smbclient speex spell split-usr sql sqlite srt ssl staging startup-notification stream subtitles subversion svg swat sysfs szip tcl tcpd tetex texteffect theora threads threadsafe thunderbird tidy tiff tk transcode truetype udev udisks uefi unicode update_drivedb upnp upower usb user-session utils v4l v4l2 vaapi vdpau vdr videos vim vim-pager vim-syntax visualization vlm vnc vorbis vpx vulkan wayland webkit webpresence webserver widgets win32codecs winpopup wmf wmp wxwidgets wxwindows x264 x265 xa xanim xattr xcb xcomposite xface xinerama xml xmlreader xmltv xosd xpm xscreensaver xulrunner xv xvfb xvid xvmc yahoo yv12 zeroconf zink zip zlib" ABI_X86="64" ADA_TARGET="gnat_2018" ALSA_CARDS="hda-intel" APACHE2_MODULES="actions alias auth_basic auth_digest authn_anon authn_core authn_dbd authn_dbm authn_default authn_file authz_core authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgid dav dav_fs dav_lock dbd deflate dir disk_cache env expires ext_filter file_cache filter headers ident imagemap include info lbmethod_byrequests lbmethod_bytraffic lbmethod_bybusyness lbmethod_heartbeat log_config logio mem_cache mime mime_magic negotiation proxy proxy_ajp proxy_balancer proxy_connect proxy_http rewrite setenvif slotmem_shm so socache_shmcb speling status unique_id unixd userdir usertrack 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 f16c fma3 mmx mmxext pclmul popcnt rdrand 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" GRUB_PLATFORMS="efi-64" INPUT_DEVICES="libinput joystick" KERNEL="linux" L10N="fr fr-FR en en-US en-GB" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LIRC_DEVICES="default devinput" LUA_SINGLE_TARGET="lua5-1" LUA_TARGETS="lua5-1" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php7-2 php7-3 php7-4" POSTGRES_TARGETS="postgres10 postgres11" PYTHON_SINGLE_TARGET="python3_8" PYTHON_TARGETS="python3_8 python3_9" RUBY_TARGETS="ruby25 ruby26" SANE_BACKENDS="hp hp3500 hp3900 hp4200 hp5400 hp5590 hpljm1005 hpsj5s lexmark" USERLAND="GNU" VIDEO_CARDS="v4l nouveau amdgpu radeonsi" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account"
Unset:  CC, CPPFLAGS, CTARGET, CXX, INSTALL_MASK, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS
Comment 1 Benjamin Réveillé 2020-12-06 12:57:22 UTC
with update to dev-libs/pugixml-1.11.1 emerge still fails but error message is slightly different

-- Configuring done
CMake Error: The following variables are used in this project, but they are set to NOTFOUND.
Please set them or make sure they are set and tested correctly in the CMake files:
pugixml_LIBRARIES
    linked by target "vtkIOCityGML" in directory /var/tmp/portage/sci-libs/vtk-8.2.0/work/VTK-8.2.0/IO/CityGML
Comment 2 Simon Litt 2020-12-13 15:45:05 UTC
Any news here? I have the same issue.
Comment 3 Aisha Tammy 2020-12-13 16:38:10 UTC
confirmed issue. configure worked with previous pugixml, failed on upgraded version.
Comment 4 Marcin 2020-12-14 22:34:21 UTC
Same here. I masked dev-libs/pugixml-1.11.1 as a workaroung.
`echo "=dev-libs/pugixml-1.11.1" >> /etc/portage/package.mask/vtk`
Comment 5 Larry the Git Cow gentoo-dev 2020-12-15 02:13:11 UTC
The bug has been closed via the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=ab7b1a7283457e9ab07edf0d031d78bf19b9c05b

commit ab7b1a7283457e9ab07edf0d031d78bf19b9c05b
Author:     Sam James <sam@gentoo.org>
AuthorDate: 2020-12-15 02:12:24 +0000
Commit:     Sam James <sam@gentoo.org>
CommitDate: 2020-12-15 02:13:09 +0000

    dev-libs/pugixml: add upstream patch for CMake file
    
    Ensure that the compatibility target uses legal syntax.
    
    Closes: https://bugs.gentoo.org/758611
    Package-Manager: Portage-3.0.9, Repoman-3.0.2
    Signed-off-by: Sam James <sam@gentoo.org>

 .../files/pugixml-1.11.1-cmake-config.patch        | 23 ++++++++++++++++++++++
 ...ixml-1.11.1.ebuild => pugixml-1.11.1-r1.ebuild} |  4 ++++
 2 files changed, 27 insertions(+)

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=767ff1a606565950d73c713ef498daaff12d6509

commit 767ff1a606565950d73c713ef498daaff12d6509
Author:     Aisha Tammy <gentoo@aisha.cc>
AuthorDate: 2020-12-13 16:59:35 +0000
Commit:     Sam James <sam@gentoo.org>
CommitDate: 2020-12-15 02:13:08 +0000

    sci-libs/vtk: fix finding pugixml
    
    Closes: https://bugs.gentoo.org/758611
    Package-Manager: Portage-3.0.11, Repoman-3.0.2
    Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
    Closes: https://github.com/gentoo/gentoo/pull/18640
    Signed-off-by: Sam James <sam@gentoo.org>

 sci-libs/vtk/files/vtk-8.2.0-pugixml.patch |  13 ++
 sci-libs/vtk/vtk-8.2.0-r1.ebuild           | 347 +++++++++++++++++++++++++++++
 2 files changed, 360 insertions(+)

Additionally, it has been referenced in the following commit(s):

https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=18f089b336e3dd952ac07a8571d578cf65ca530d

commit 18f089b336e3dd952ac07a8571d578cf65ca530d
Author:     Sam James <sam@gentoo.org>
AuthorDate: 2020-12-15 02:08:32 +0000
Commit:     Sam James <sam@gentoo.org>
CommitDate: 2020-12-15 02:13:08 +0000

    sci-libs/vtk: further >=dev-libs/pugixml-1.11 fixes
    
    * Drop the internal copy of pugixml just in case.
    
    * Adapt vtk to the new "proper" CMake config files
      from pugixml upstream.
    
    Note that Aisha Tammy's patch worked for her with
    CMake 3.19.1 but not for me on 3.17.4 (stable),
    so this seems to be needed to be safe.
    
    Bug: https://bugs.gentoo.org/758611
    Package-Manager: Portage-3.0.9, Repoman-3.0.2
    Signed-off-by: Sam James <sam@gentoo.org>

 sci-libs/vtk/files/vtk-8.2.0-pugixml.patch | 13 ++++++-------
 sci-libs/vtk/vtk-8.2.0-r1.ebuild           |  6 +++++-
 2 files changed, 11 insertions(+), 8 deletions(-)