Created attachment 440732 [details] build log I cannot re-emerge media-libs/opencv-3.1.0-r4, cmake fails with 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: HDF5_hdf5_cpp_LIBRARY linked by target "opencv_hdf" in directory /var/tmp/portage/media-libs/opencv-3.1.0-r4/work/opencv_contrib-3.1.0/modules/hdf I have upgraded to dev-util/cmake-3.6.0 only recently emerge --info media-libs/opencv Portage 2.3.0_rc1 (python 3.5.1-final-0, default/linux/amd64/13.0/desktop, gcc-5.4.0, glibc-2.23-r2, 4.7.0-rc7 x86_64) ================================================================= System Settings ================================================================= System uname: Linux-4.7.0-rc7-x86_64-AMD_Phenom-tm-_II_X4_940_Processor-with-gentoo-2.2 KiB Mem: 7905844 total, 2279884 free KiB Swap: 4194300 total, 4189416 free Timestamp of repository gentoo: Thu, 14 Jul 2016 07:15:01 +0000 sh bash 4.3_p46 ld GNU ld (Gentoo 2.25.1 p1.1) 2.25.1 ccache version 3.2.5 [disabled] app-shells/bash: 4.3_p46::gentoo dev-java/java-config: 2.2.0-r3::gentoo dev-lang/perl: 5.24.0-r1::gentoo dev-lang/python: 2.7.11-r2::gentoo, 3.4.3-r7::gentoo, 3.5.1-r3::gentoo dev-util/ccache: 3.2.5::gentoo dev-util/cmake: 3.6.0::gentoo dev-util/pkgconfig: 0.29.1::gentoo sys-apps/baselayout: 2.2-r1::gentoo sys-apps/openrc: 0.21.2::gentoo sys-apps/sandbox: 2.10-r2::gentoo sys-devel/autoconf: 2.13::gentoo, 2.69-r2::gentoo sys-devel/automake: 1.9.6-r4::gentoo, 1.10.3-r2::gentoo, 1.11.6-r2::gentoo, 1.12.6-r1::gentoo, 1.13.4-r1::gentoo, 1.14.1-r1::gentoo, 1.15-r2::gentoo sys-devel/binutils: 2.25.1-r1::gentoo, 2.26.1::gentoo sys-devel/gcc: 4.9.3::gentoo, 5.3.0::local, 5.4.0::gentoo sys-devel/gcc-config: 1.8-r1::gentoo sys-devel/libtool: 2.4.6-r2::gentoo sys-devel/make: 4.2.1::gentoo sys-kernel/linux-headers: 4.6::gentoo (virtual/os-headers) sys-libs/glibc: 2.23-r2::gentoo Repositories: gentoo location: /usr/portage sync-type: rsync sync-uri: rsync://rsync.informatik.rwth-aachen.de/gentoo-portage priority: -1000 local location: /usr/local/portage masters: gentoo priority: 0 java location: /usr/local/portage/layman/java sync-type: laymansync sync-uri: git://anongit.gentoo.org/proj/java.git masters: gentoo priority: 50 lisp location: /usr/local/portage/layman/lisp sync-type: laymansync sync-uri: git://anongit.gentoo.org/proj/lisp.git masters: gentoo priority: 50 science location: /usr/local/portage/layman/science sync-type: laymansync sync-uri: git://anongit.gentoo.org/proj/sci.git masters: gentoo priority: 50 sunrise location: /usr/local/portage/layman/sunrise sync-type: laymansync sync-uri: git://anongit.gentoo.org/proj/sunrise-reviewed.git masters: gentoo priority: 50 x11 location: /usr/local/portage/layman/x11 sync-type: laymansync sync-uri: git://anongit.gentoo.org/proj/x11 masters: gentoo priority: 50 ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="*" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-mtune=native -O2 -msse3 -pipe" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/lib64/libreoffice/program/sofficerc /usr/share/config /usr/share/gnupg/qualified.txt /var/lib/hsqldb" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php7.0/ext-active/ /etc/php/cgi-php7.0/ext-active/ /etc/php/cli-php7.0/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="-mtune=native -O2 -msse3 -pipe" DISTDIR="/usr/portage/distfiles" FCFLAGS="-O2 -pipe" FEATURES="assume-digests binpkg-logs buildpkg config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch preserve-libs protect-owned sandbox sfperms splitdebug strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" FFLAGS="-O2 -pipe" GENTOO_MIRRORS="ftp://sunsite.informatik.rwth-aachen.de/pub/Linux/gentoo " LANG="en_US.iso88591" LDFLAGS="-Wl,-O1 -Wl,--as-needed" MAKEOPTS="-j4" 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="3dnow 3dnowext 3dnowprefetch X a52 aac acl acpi alsa amd64 avahi berkdb branding bzip2 cairo cdda cdr cli consolekit cracklib crypt cups cxx dbus dri dts dvd dvdr emboss encode exif fam ffmpeg fftw firefox flac fortran fuse gdbm gfortran gif gimp glamor gpm gtk gtk3 iconv ipv6 jpeg lapack lcms libnotify mad mmx mmxext mng modules mp3 mp4 mpeg multilib ncurses nls nptl nptlonly ogg opengl openmp pam pango pcre pdf png policykit ppds python qt qt3support qt4 qt5 readline sdl seccomp session smp spell sqlite sqlite3 sse sse2 sse3 sse4a ssl startup-notification svg tcl tcpd threads tiff tk truetype udev udisks unicode upower usb vorbis wxwidgets x264 xattr xcb xml xulrunner xv xvid zlib" ABI_X86="64" ALSA_CARDS="ali5451 als4000 atiixp atiixp-modem bt87x ca0106 cmipci emu10k1x ens1370 ens1371 es1938 es1968 fm801 hda-intel intel8x0 intel8x0m maestro3 trident usb-audio via82xx via82xx-modem ymfpci" 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="kexi words flow plan sheets stage tables krita karbon braindump author" CAMERAS="ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="3dnow mmx 3dnowext mmxext popcnt sse sse2 sse3 sse4a" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf superstar2 timing tsip tripmate tnt ublox ubx" GRUB_PLATFORMS="pc multiboot" INPUT_DEVICES="keyboard mouse evdev wacom" KERNEL="linux" L10N="en de" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="en de" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-5" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python3_5" RUBY_TARGETS="ruby23" USERLAND="GNU" VIDEO_CARDS="radeon 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, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON ================================================================= Package Settings ================================================================= media-libs/opencv-3.1.0-r4::gentoo was built with the following: USE="contrib eigen ffmpeg gtk jpeg opengl openmp png python qt5 threads tiff -cuda -examples -gdal -gphoto2 -gstreamer -ieee1394 (-ipp) -java -jpeg2k -libav -opencl -openexr -pch -qt4 -testprograms -v4l -vaapi -vtk -webp -xine" ABI_X86="64" PYTHON_SINGLE_TARGET="python2_7 -python3_4 -python3_5" PYTHON_TARGETS="python2_7 python3_5 -python3_4"
I'm having the exact same problem. Additionally, I've attached the CMakeError.log file. Two additional notes: 1. cmake is looking for "png.h" in /usr/include/libpng/png.h instead of /usr/include/libpng16/png.h. 2. cmake can't find ffmpeg/avformat.h at all. Unfortunately, the logs don't show where it's trying to look for it.
Created attachment 442978 [details] CMakeError.log
I think I figured out the issue. Make sure that the "cxx" and "fortran" flags are enabled for sci-libs/hdf5. I enabled both flags and media-libs/opencv compiled without any issue.
(In reply to Frames from comment #3) > I think I figured out the issue. Make sure that the "cxx" and "fortran" > flags are enabled for sci-libs/hdf5. I enabled both flags and > media-libs/opencv compiled without any issue. Thank you very much ! Helmut can you confirm ? Amy
(In reply to Amy Winston from comment #4) > (In reply to Frames from comment #3) > > I think I figured out the issue. Make sure that the "cxx" and "fortran" > > flags are enabled for sci-libs/hdf5. I enabled both flags and > > media-libs/opencv compiled without any issue. > > Thank you very much ! > > Helmut can you confirm ? > yes, BUT at a high price! If the cxx flags is enabled, one has to disable mpi for sci-libs/hdf5. This in turn forces you to disable mpi on sci-libs/netcdf, dev-python/h5py and sci-visualization/paraview. And disabling mpi for sci-visualization/paraview forces you to disable python for that package, as well. I wouldn't call this a solution. Helmut
That's really an issue with sci-libs/hdf5, then, whether it is with the ebuild or upstream. But I don't see hdf5 yet listed in opencv deps, and I don't have it installed here, so it can surely be made optional/disabled.
*** Bug 591932 has been marked as a duplicate of this bug. ***
(In reply to Andreas Sturmlechner from comment #6) > That's really an issue with sci-libs/hdf5, then, whether it is with the > ebuild or upstream. But I don't see hdf5 yet listed in opencv deps, and I > don't have it installed here, so it can surely be made optional/disabled. But there is no hdf5 USE flag for opencv, there is only the contrib USE flag. Without the contrib USE flag I can compile opencv-3.1.0-r4. With the contrib USE flag I get the error that HDF5_hdf5_cpp_LIBRARY is not defined.
At https://bugs.archlinux.org/task/50111 is also a discussion of the same issue.
Similar bugs are https://bugs.gentoo.org/show_bug.cgi?id=593964 and https://bugs.gentoo.org/show_bug.cgi?id=593310. Is there not any patch to solve this issue?
After downgrading to cmake-3.5.2 i could emerge opencv-3.1.0-r4 with the contrib USE flag and hdf5 compiled with USE="examples fortran mpi szip zlib -cxx -debug -fortran2003 -static-libs -threads".
Hey all, Can you test -r5 with a hopeful fix? The ebuilds can be found here: https://github.com/dracwyrm/gentoo-ebuilds/tree/master/media-libs/opencv There's a new patch involved, so just clone that directory to an overlay. I was able to get it to compile with HDF5 compiled with mpi -fortran -cxx, so test all the combinations you need. Thanks.
(In reply to Jon from comment #12) > Hey all, > > Can you test -r5 with a hopeful fix? The ebuilds can be found here: > https://github.com/dracwyrm/gentoo-ebuilds/tree/master/media-libs/opencv > There's a new patch involved, so just clone that directory to an overlay. > > I was able to get it to compile with HDF5 compiled with mpi -fortran -cxx, > so test all the combinations you need. Thanks. I can confirm, that it is possible to compile opencv-3.1.0-r5 with cmake-3.6.2 and hdf5-1.8.15_p1 compiled with USE="examples fortran mpi szip zlib -cxx -debug -fortran2003 -static-libs -threads".
(In reply to Juergen Rose from comment #13) > (In reply to Jon from comment #12) > > Hey all, > > > > Can you test -r5 with a hopeful fix? The ebuilds can be found here: > > https://github.com/dracwyrm/gentoo-ebuilds/tree/master/media-libs/opencv > > There's a new patch involved, so just clone that directory to an overlay. > > > > I was able to get it to compile with HDF5 compiled with mpi -fortran -cxx, > > so test all the combinations you need. Thanks. > > I can confirm, that it is possible to compile opencv-3.1.0-r5 with > cmake-3.6.2 and hdf5-1.8.15_p1 compiled with USE="examples fortran mpi szip > zlib -cxx -debug -fortran2003 -static-libs -threads". That's what we need so people don't need to disable mpi! Thanks for testing.
author Jonathan Scruggs <j.scruggs@gmail.com> 2016-09-22 17:08:23 (GMT) committer Amy Winston <amynka@gentoo.org> 2016-09-27 14:22:31 (GMT) commit 366480ac81d84673ffbbfcfff277a91d6c6041df media-libs/opencv: revision bump to 3.1.0-r5 - Feature: added in support for installing the Python module for each implementation selected Gentoo-Bug: 593504 - Bug fix: under certain conditions the HDF5 library isn't found Gentoo-Bug: 588850 - Bug fix: OpenGL needs Qt or Gtk+ otherwise it's disabled - Misc: cleaned up usex expressions added qtwidgets depend moved openmp detection to pkg_pretend as per Gentoo style guidelines Signed off by Jonathan Scruggs (j.scruggs@gmail.com, irc: Dracwyrm)
