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Bug 597754 - media-libs/opencv-3.1.0-r5 doesn't compile with cuda
Summary: media-libs/opencv-3.1.0-r5 doesn't compile with cuda
Status: RESOLVED FIXED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: All Linux
: Normal normal (vote)
Assignee: Amy Liffey
URL:
Whiteboard:
Keywords:
Depends on:
Blocks:
 
Reported: 2016-10-22 08:13 UTC by Silvio
Modified: 2017-11-19 13:18 UTC (History)
3 users (show)

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


Attachments
build.log (opencv-gcc5.zip,13.08 KB, application/zip)
2016-10-22 08:13 UTC, Silvio
Details
build.log with old gcc 4.9 (opencv-gcc4.zip,13.65 KB, application/zip)
2016-10-22 08:20 UTC, Silvio
Details
build log (media-libs:opencv-3.1.0-r7:20170112-093039.log,40.11 KB, text/x-log)
2017-01-12 10:09 UTC, Volkmar Glauche
Details
emerge --info (emerge-info.txt,7.47 KB, text/plain)
2017-01-12 10:10 UTC, Volkmar Glauche
Details

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Description Silvio 2016-10-22 08:13:05 UTC
Created attachment 450978 [details]
build.log

I tried to compile with gcc x86_64-pc-linux-gnu-5.4.0 and it gives (inside log) this message:

In file included from /opt/cuda/include/cuda_runtime.h:76:0,
                 from <command-line>:0:
/opt/cuda/include/host_config.h:115:2: error: #error -- unsupported GNU version! gcc versions later than 4.9 are not supported!
 #error -- unsupported GNU version! gcc versions later than 4.9 are not supported!

At the beginning it gives this message:

CMake Warning:
  Manually-specified variables were not used by the project:

    CUDA_NPP_LIBRARY_ROOT_DIR


And in the log:


  Error generating
  /var/tmp/portage/media-libs/opencv-3.1.0-r5/work/opencv-3.1.0_build/modules/core/CMakeFiles/cuda_compile.dir/src/cuda/./cuda_compile_generated_gpu_mat.cu.o


make[2]: *** [modules/core/CMakeFiles/opencv_core.dir/build.make:65: modules/core/CMakeFiles/cuda_compile.dir/src/cuda/cuda_compile_generated_gpu_mat.cu.o] Error 1
make[2]: uscita dalla directory "/var/tmp/portage/media-libs/opencv-3.1.0-r5/work/opencv-3.1.0_build"
make[1]: *** [CMakeFiles/Makefile2:1848: modules/core/CMakeFiles/opencv_core.dir/all] Error 2


So I tried to use a different gcc -> next message

In attech my log file.
Comment 1 Silvio 2016-10-22 08:20:35 UTC
Created attachment 450980 [details]
build.log with old gcc 4.9

Using gcc

x86_64-pc-linux-gnu-4.9.4

It fails to compile all the same (in attachment the new build.log).

In the log I read

CMake Warning:
  Manually-specified variables were not used by the project:

    CUDA_NPP_LIBRARY_ROOT_DIR


And it exits in this way:

[  3%] Built target libprotobuf
/usr/include/string.h: In function ‘void* __mempcpy_inline(void*, const void*, size_t)’:
/usr/include/string.h:652:42: error: ‘memcpy’ was not declared in this scope
   return (char *) memcpy (__dest, __src, __n) + __n;
                                          ^
-- Removing /var/tmp/portage/media-libs/opencv-3.1.0-r5/work/opencv-3.1.0_build/modules/core/CMakeFiles/cuda_compile.dir/src/cuda/./cuda_compile_generated_gpu_mat.cu.o
/usr/bin/cmake -E remove /var/tmp/portage/media-libs/opencv-3.1.0-r5/work/opencv-3.1.0_build/modules/core/CMakeFiles/cuda_compile.dir/src/cuda/./cuda_compile_generated_gpu_mat.cu.o
CMake Error at cuda_compile_generated_gpu_mat.cu.o.cmake:266 (message):
  Error generating file
  /var/tmp/portage/media-libs/opencv-3.1.0-r5/work/opencv-3.1.0_build/modules/core/CMakeFiles/cuda_compile.dir/src/cuda/./cuda_compile_generated_gpu_mat.cu.o


make[2]: *** [modules/core/CMakeFiles/opencv_core.dir/build.make:65: modules/core/CMakeFiles/cuda_compile.dir/src/cuda/cuda_compile_generated_gpu_mat.cu.o] Error 1
Comment 2 Silvio 2016-10-22 08:21:54 UTC
here my emerge --info

Portage 2.3.2 (python 2.7.12-final-0, default/linux/amd64/13.0/desktop/plasma, gcc-4.9.4, glibc-2.23-r2, 4.8.1-gentoo x86_64)
=================================================================
System uname: Linux-4.8.1-gentoo-x86_64-Intel-R-_Core-TM-_i7-4710HQ_CPU_@_2.50GHz-with-gentoo-2.3
KiB Mem:    16314168 total,   3482812 free
KiB Swap:   17825788 total,  17825788 free
Timestamp of repository gentoo: Fri, 21 Oct 2016 19:45:01 +0000
sh bash 4.4-r1
ld ld di GNU (Gentoo 2.26.1 p1.0) 2.26.1
distcc 3.2rc1 x86_64-pc-linux-gnu [disabled]
ccache version 3.2.7 [disabled]
app-shells/bash:          4.4-r1::gentoo
dev-java/java-config:     2.2.0-r3::gentoo
dev-lang/perl:            5.24.0-r1::gentoo
dev-lang/python:          2.7.12::gentoo, 3.4.5::gentoo
dev-util/ccache:          3.2.7::gentoo
dev-util/cmake:           3.6.2::gentoo
dev-util/pkgconfig:       0.29.1::gentoo
sys-apps/baselayout:      2.3::gentoo
sys-apps/openrc:          0.22.2::gentoo
sys-apps/sandbox:         2.10-r2::gentoo
sys-devel/autoconf:       2.13::gentoo, 2.69-r2::gentoo
sys-devel/automake:       1.11.6-r2::gentoo, 1.13.4-r1::gentoo, 1.14.1-r1::gentoo, 1.15-r2::gentoo
sys-devel/binutils:       2.26.1::gentoo
sys-devel/gcc:            4.9.3::gentoo, 4.9.4::gentoo, 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: 4.7::gentoo (virtual/os-headers)
sys-libs/glibc:           2.23-r2::gentoo
Repositories:

gentoo
    location: /usr/portage
    sync-type: rsync
    sync-uri: rsync://rsync.europe.gentoo.org/gentoo-portage
    priority: -1000

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

bibletime
    location: /var/lib/layman/bibletime
    masters: gentoo
    priority: 1

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

belak
    location: /var/lib/layman/belak
    masters: gentoo
    priority: 50

betagarden
    location: /var/lib/layman/betagarden
    masters: gentoo
    priority: 50

gamerlay
    location: /var/lib/layman/gamerlay
    masters: gentoo
    priority: 50

luman
    location: /var/lib/layman/luman
    masters: gentoo
    priority: 50

maekke
    location: /var/lib/layman/maekke
    masters: gentoo
    priority: 50

maggu2810-overlay
    location: /var/lib/layman/maggu2810-overlay
    masters: gentoo
    priority: 50

nikai
    location: /var/lib/layman/nikai
    masters: gentoo
    priority: 50

pentoo
    location: /var/lib/layman/pentoo
    masters: gentoo
    priority: 50

pinkbyte
    location: /var/lib/layman/pinkbyte
    masters: gentoo
    priority: 50

sunrise
    location: /var/lib/layman/sunrise
    masters: gentoo
    priority: 50

vortex
    location: /var/lib/layman/vortex
    masters: gentoo
    priority: 50

voyageur
    location: /var/lib/layman/voyageur
    masters: gentoo
    priority: 50

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

zugaina
    location: /var/lib/layman/zugaina
    masters: gentoo
    priority: 50

ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="*"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-march=native -O2 -pipe -fomit-frame-pointer"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/lib64/libreoffice/program/sofficerc /usr/share/config /usr/share/gnupg/qualified.txt /usr/share/maven-bin-3.3/conf /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/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="-march=native -O2 -pipe -fomit-frame-pointer"
DISTDIR="/usr/portage/distfiles"
FCFLAGS="-O2 -pipe"
FEATURES="assume-digests binpkg-logs config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch preserve-libs protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-O2 -pipe"
GENTOO_MIRRORS=" http://mirror.ovh.net/gentoo-distfiles/ http://ftp.heanet.ie/pub/gentoo/ http://mirror.ovh.net/gentoo-distfiles/ http://www.die.unipd.it/pub/Linux/distributions/gentoo-sources/ rsync://rsync3.it.gentoo.org/gentoo-sources/ ftp://ftp.unina.it/pub/linux/distributions/gentoo/"
LANG="en"
LC_ALL="it_IT.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
MAKEOPTS="-j9"
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="3ds 64bit X a52 aac aacplus aacs aalib acl acpi ads aften aiglx akode alias alsa amd64 amr ao apache apm apng asyncns audiofile autoreplace autotrace avahi avi bash-completion berkdb bidi bitmap-fonts bluetooth bluray bmp branding browserplugin bzip bzip2 cairo caps cdaudio cdda cddb cdr cli clucene connectionstatus consolekit contactnotes cracklib crypt cuda cups cvd cvs cxx dbus declarative designer dia dialup dirac djvu dri dtmf dts dv dvb dvd dvdr dvdread dvi dxva2 dynamicplugin ebook efi emboss encode ethereal exif faac faad fam farstream fat fdk ffmpeg firefox flac fluidsynth fontconfig foomaticdb fortran freetds frei0r fribidi g726 g729 gbm gdbm geolocation gif gimp git glamor glib glitz gme gnome-keyring gphoto2 gpm gps gpu groupwise gstreamer gtk gtk3 h323 highlight history hvm i8x0 iconv icu ieee1394 ilbc imagemagick innodb ios iphone ipv6 irc ithreads jack java javascript jingle jpeg jpeg2k kate kde kdenlive kdepim kipi kontact kqemu lame laptop lcms ldap libass libkms libnotify lm_sensors lucene m4a mad mbrola mdb mdnsresponder-compat mercurial midi mime minizip mmx mmxext mng modules moonlight mozilla mp3 mp4 mpeg mpeg2 mplayer msn mssql multilib musepack musicbrainz ncurses netmeeting nls nowlistening npt1 nptl nptlonly nsplugin ntfs nvidia odbc ogg openal openexr opengl openipmi openmp opus orc pam pango pcmcia pcre pda pdf perl phonon pkcs11 plasma pmu png policykit portaudio postgres postproc ppds pulseaudio python python3 qemu qml qt3support qt4 qt5 quicktime rar raw rdesktop rdp readline reiserfs reports rtsp samba sametime sane scanner sdl sdl-image seccomp semantic-desktop session shout sip sipim skype smartcardx smp sms soprano soundtouch sozi speex spell sqlite sse sse2 sse3 ssh ssl startup-notification subtitles subversion svg tcpd texteffect texteffects theora tidy tiff timidity tk tordns touchpad translator truetype truetype-fonts twolame type1-fonts udev udisks unicode upower usb utempter uxa v4l v4l2 vaapi vcd vcdx vdpau video virtualbox visio vnc vorbis vpx wav wavpack webkit webpresence webrtc-aec wicd widevine widgets wifi wiimote win32codecs win64 winbind winetriks winpopup wlm wma wma-fixed wmf wxwidgets wxwindows x264 xattr xcb xcomposite xen xetex xine xinerama xml xmp xscreensaver xv xvid xvmc yahoo zeroconf zlib" ABI_X86="64 32" ALSA_CARDS="snd_hda_intel" APACHE2_MODULES="actions alias auth_basic auth_digest authn_anon authn_dbd authn_dbm authn_default authn_file authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache dav dav_fs dav_lock dbd deflate dir disk_cache env expires ext_filter file_cache filter headers ident imagemap include info log_config logio mem_cache mime mime_magic negotiation proxy proxy_ajp proxy_balancer proxy_connect proxy_http rewrite setenvif so speling status unique_id userdir usertrack vhost_alias" CALLIGRA_FEATURES="kexi words flow plan sheets stage tables krita karbon braindump author" CAMERAS="*" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CPU_FLAGS_X86="mmx mmxext sse sse2 sse3 ssse3 sse4_1 sse4_2 avx avx2 fma3" 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" INPUT_DEVICES="keyboard mouse evdev joystick synaptics wacom" KERNEL="linux" L10N="it en it-IT en-GB en-US uk es" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="it en it_IT en_US es" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-6" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_4" RUBY_TARGETS="ruby20 ruby21 ruby22" SANE_BACKENDS="*" USERLAND="GNU" VIDEO_CARDS="nvidia intel i965 nv vesa nouveau v4l v4l2 modesetting fbdev" 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, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON
Comment 3 Silvio 2016-10-22 08:45:22 UTC
USE=-cuda emerge -1 opencv

goes well
Comment 4 Jonathan Scruggs (RETIRED) gentoo-dev 2016-10-23 09:59:43 UTC
What version of CUDA are you using?
Comment 5 Silvio 2016-10-23 10:47:47 UTC
(In reply to Jon from comment #4)
> What version of CUDA are you using?

[I] dev-util/nvidia-cuda-toolkit
     Available versions:  6.5.14(0/6.5.14) (~)6.5.19-r1(0/6.5.19) (~)7.5.18-r2(0/7.5.18) {debugger doc eclipse profiler}
     Installed versions:  7.5.18-r2(10:35:00 22/10/2016)(-debugger -doc -eclipse -profiler)
     Homepage:            http://developer.nvidia.com/cuda
     Description:         NVIDIA CUDA Toolkit (compiler and friends)

I've not installed: dev-util/nvidia-cuda-sdk
Comment 6 Jonathan Scruggs (RETIRED) gentoo-dev 2016-10-29 10:25:12 UTC
(In reply to Silvio from comment #5)
> (In reply to Jon from comment #4)
> > What version of CUDA are you using?
> 
> [I] dev-util/nvidia-cuda-toolkit
>      Available versions:  6.5.14(0/6.5.14) (~)6.5.19-r1(0/6.5.19)
> (~)7.5.18-r2(0/7.5.18) {debugger doc eclipse profiler}
>      Installed versions:  7.5.18-r2(10:35:00 22/10/2016)(-debugger -doc
> -eclipse -profiler)
>      Homepage:            http://developer.nvidia.com/cuda
>      Description:         NVIDIA CUDA Toolkit (compiler and friends)
> 
> I've not installed: dev-util/nvidia-cuda-sdk

CUDA Toolkit ebuilds have:
RDEPEND="${DEPEND}
	>=sys-devel/gcc-4.7[cxx]
	<sys-devel/gcc-5[cxx]

How did you manage to install GCC 5.x without merge conflicts? You should have gotten blockers on nvidia-cuda-toolkit blocks sys-devel/gcc-5.4.
Comment 7 Jonathan Scruggs (RETIRED) gentoo-dev 2016-10-29 10:27:31 UTC
Also, mixing GCC 4.9.x and 5.x binaries is generally a bad thing. CUDA 8 is in the tree now, so I'm working on a patch to make OpenCV compile with that cleanly. CUDA 8 allows the use of GCC 5.3, not sure about 5.4, so you might be able to compile it then.
Comment 8 Jonathan Scruggs (RETIRED) gentoo-dev 2016-11-04 15:17:54 UTC
@Silvio: Since you managed to install GCC 5.4 with CUDA toolkit 7.5 installed, can you try installing CUDA 8 which is compatible with that version of GCC and using the new -r6 revision of OpenCV? It's not in Gentoo portage yet, so you would need to download this folder to an overlay:
https://github.com/dracwyrm/gentoo-ebuilds/tree/master/media-libs/opencv

It has CUDA 8 fixes with it.

Thanks.
Comment 9 Jonathan Scruggs (RETIRED) gentoo-dev 2016-11-11 10:49:50 UTC
@Silvio, can you compile OpenCV with the r6 revision? There's a patch to compile against CUDA v8 which is compatible with GCC 5.x, so you won't have a mixed environment.

Hope this is working for you now.
Comment 10 Jonathan Scruggs (RETIRED) gentoo-dev 2016-11-14 16:08:12 UTC
No responses at all, so closing as fixed. If it's not, please ask for this to be reopened.
Comment 11 Volkmar Glauche 2017-01-12 10:09:40 UTC
Created attachment 459736 [details]
build log

Similar error here for the combination of:

media-libs/opencv-3.1.0-r7
dev-util/nvidia-cuda-toolkit-7.5.18-r2
sys-devel/gcc-4.9.4
Comment 12 Volkmar Glauche 2017-01-12 10:10:07 UTC
Created attachment 459738 [details]
emerge --info
Comment 13 Volkmar Glauche 2017-01-12 10:38:25 UTC
Additional info:

it compiled using gcc-4.9.3, but does no longer compile with gcc-4.9.4.
Comment 14 Volkmar Glauche 2017-01-12 12:30:45 UTC
(In reply to Volkmar Glauche from comment #13)
> Additional info:
> 
> it compiled using gcc-4.9.3, but does no longer compile with gcc-4.9.4.

In reply to myself: gcc-4.9.3/gcc-4.9.4 does not change things, both compilers don't compile this code anymore. However, there was also a glibc-upgrade from =sys-libs/glibc-2.22-r4 to =sys-libs/glibc-2.23-r3.
Comment 15 Jonathan Scruggs (RETIRED) gentoo-dev 2017-01-12 15:54:10 UTC
(In reply to Volkmar Glauche from comment #11)
> Created attachment 459736 [details]
> build log
> 
> Similar error here for the combination of:
> 
> media-libs/opencv-3.1.0-r7
> dev-util/nvidia-cuda-toolkit-7.5.18-r2
> sys-devel/gcc-4.9.4

Have you tried CUDA8? Or do you have an unsupported card? CUDA is a precompiled binary, so it may not take system upgrades well, like glibc. Would you be able to downgrade glibc to see if that works? If it works with a previous version of glibc then the CUDA ebuilds need to block the new version.

Thanks.
Comment 16 Volkmar Glauche 2017-01-13 09:10:01 UTC
(In reply to Jon from comment #15)
> (In reply to Volkmar Glauche from comment #11)
> > Created attachment 459736 [details]
> > build log
> > 
> > Similar error here for the combination of:
> > 
> > media-libs/opencv-3.1.0-r7
> > dev-util/nvidia-cuda-toolkit-7.5.18-r2
> > sys-devel/gcc-4.9.4
> 
> Have you tried CUDA8? Or do you have an unsupported card? CUDA is a
> precompiled binary, so it may not take system upgrades well, like glibc.
> Would you be able to downgrade glibc to see if that works? If it works with
> a previous version of glibc then the CUDA ebuilds need to block the new
> version.
> 
> Thanks.

I've not tried downgrading glibc, but it compiles successfully with gcc-4.4.7. I have seen similar problems in other places. There, they were caused by changes in mem*cpy-implementation in gcc-4.9.x/recent glibc. This might be the case here too.

Volkmar
Comment 17 Volkmar Glauche 2017-01-13 09:36:50 UTC
(In reply to Volkmar Glauche from comment #16)
> (In reply to Jon from comment #15)
> > (In reply to Volkmar Glauche from comment #11)
> > > Created attachment 459736 [details]
> > > build log
> > > 
> > > Similar error here for the combination of:
> > > 
> > > media-libs/opencv-3.1.0-r7
> > > dev-util/nvidia-cuda-toolkit-7.5.18-r2
> > > sys-devel/gcc-4.9.4
> > 
> > Have you tried CUDA8? Or do you have an unsupported card? CUDA is a
> > precompiled binary, so it may not take system upgrades well, like glibc.
> > Would you be able to downgrade glibc to see if that works? If it works with
> > a previous version of glibc then the CUDA ebuilds need to block the new
> > version.
> > 
> > Thanks.
> 
> I've not tried downgrading glibc, but it compiles successfully with
> gcc-4.4.7. I have seen similar problems in other places. There, they were
> caused by changes in mem*cpy-implementation in gcc-4.9.x/recent glibc. This
> might be the case here too.
> 
> Volkmar

Well, it does not compile either :-(. The mem*cpy issue is gone, but its failing to compile some CXX stuff. If I had remembered the gcc requirement mentioned earlier in this bug, I wouldn't have tried. Will try with gcc-4.7.x again...
Comment 18 Volkmar Glauche 2017-02-16 09:50:23 UTC
(In reply to Jon from comment #15)
> (In reply to Volkmar Glauche from comment #11)
> > Created attachment 459736 [details]
> > build log
> > 
> > Similar error here for the combination of:
> > 
> > media-libs/opencv-3.1.0-r7
> > dev-util/nvidia-cuda-toolkit-7.5.18-r2
> > sys-devel/gcc-4.9.4
> 
> Have you tried CUDA8? Or do you have an unsupported card? CUDA is a
> precompiled binary, so it may not take system upgrades well, like glibc.
> Would you be able to downgrade glibc to see if that works? If it works with
> a previous version of glibc then the CUDA ebuilds need to block the new
> version.
> 
> Thanks.

Hi Jon,

it compiles in this setup

opencv-3.1.0-r7
dev-util/nvidia-cuda-toolkit-8.0.44
dev-util/nvidia-cuda-sdk-8.0.44-r1
sys-devel/gcc-4.9.4

Volkmar