Unable to update as portage is unhappy with a new package called realpath fighting with coreutils. This is a predominantly stable 64-bit machine and I don't expect anything in sys-apps to fight by the time things go stable. Reproducible: Always Steps to Reproduce: 1. emerge -pvDuN @world Actual Results: c2RAID6 ~ # emerge -pvDuN @world These are the packages that would be merged, in order: Calculating dependencies... done! [ebuild U ] sys-libs/timezone-data-2013d [2013c] USE="nls" 349 kB [ebuild N ] app-misc/realpath-1.17 USE="nls" 34 kB [ebuild U ~] dev-lang/R-3.0.2 [3.0.1-r1] USE="X cairo java jpeg nls openmp png readline tiff -bash-completion -doc -icu -lapack -minimal -perl (-prefix) -profile -static-libs -tk" 24,770 kB [blocks B ] app-misc/realpath ("app-misc/realpath" is blocking sys-apps/coreutils-8.20) Total: 3 packages (2 upgrades, 1 new), Size of downloads: 25,152 kB Conflict: 1 block (1 unsatisfied) * Error: The above package list contains packages which cannot be * installed at the same time on the same system. (sys-apps/coreutils-8.20::gentoo, installed) pulled in by >=sys-apps/coreutils-8.5 required by (dev-python/setuptools-0.8-r1::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-libs/libxslt-1.1.28-r1::gentoo, installed) sys-apps/coreutils required by @system >=sys-apps/coreutils-6.4 required by (sys-apps/portage-2.2.1::gentoo, installed) >=sys-apps/coreutils-6.10-r1 required by (sys-apps/debianutils-4.3.4::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/pygobject-3.2.2-r1::gentoo, installed) >=sys-apps/coreutils-8.5 required by (app-emulation/qemu-1.5.3::gentoo, installed) >=sys-apps/coreutils-8.5 required by (sys-process/iotop-0.6::gentoo, installed) sys-apps/coreutils required by (app-admin/eselect-1.3.8::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-libs/libxml2-2.9.1-r1::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/ipaddr-2.1.10-r1::gentoo, installed) >=sys-apps/coreutils-8.5 required by (net-libs/gtk-vnc-0.5.2::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/numpy-1.6.2-r2::gentoo, installed) >=sys-apps/coreutils-8.5 required by (media-libs/fontconfig-2.10.92::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-vcs/subversion-1.7.13::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/pyparsing-2.0.1::gentoo, installed) >=sys-apps/coreutils-8.5 required by (app-portage/mirrorselect-2.2.0.1::gentoo, installed) >=sys-apps/coreutils-8.5 required by (app-portage/layman-2.0.0::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/pygobject-2.28.6-r53::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/pycairo-1.10.0-r4::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/pycurl-7.19.0-r3::gentoo, installed) sys-apps/coreutils[acl?] (sys-apps/coreutils[acl]) required by (sys-auth/consolekit-0.4.6::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/urlgrabber-3.9.1-r2::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-util/gdbus-codegen-2.32.4-r1::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/python-exec-0.3.1::gentoo, installed) >=sys-apps/coreutils-8.5 required by (virtual/python-argparse-1::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-java/java-config-2.1.12-r1::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/pygtk-2.24.0-r3::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/lxml-3.2.1::gentoo, installed) >=sys-apps/coreutils-8.15 required by (app-portage/gentoolkit-0.3.0.7::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-libs/boost-1.52.0-r6::gentoo, installed) >=sys-apps/coreutils-8.5 required by (dev-python/pypam-0.5.0-r2::gentoo, installed) (app-misc/realpath-1.17::gentoo, ebuild scheduled for merge) pulled in by app-misc/realpath required by (dev-lang/R-3.0.2::gentoo, ebuild scheduled for merge) For more information about Blocked Packages, please refer to the following section of the Gentoo Linux x86 Handbook (architecture is irrelevant): http://www.gentoo.org/doc/en/handbook/handbook-x86.xml?full=1#blocked c2RAID6 ~ # equery depends realpath * These packages depend on realpath: app-admin/eselect-1.3.8 (app-misc/realpath) app-portage/gentoolkit-0.3.0.7 (app-misc/realpath) c2RAID6 ~ # eix -I coreutils [I] sys-apps/coreutils Available versions: 8.5 ~8.5-r1 8.7 ~8.8 ~8.9 ~8.10 ~8.11 ~8.12 ~8.13 8.14 ~8.15 8.16 ~8.17 ~8.18 ~8.19 8.20{tbz2} ~8.20-r1 ~8.20-r2 ~8.21 {acl caps gmp nls selinux static unicode vanilla xattr USERLAND="BSD"} Installed versions: 8.20{tbz2}(16:00:43 03/28/13)(acl nls -caps -gmp -selinux -static -vanilla -xattr USERLAND="-BSD") Homepage: http://www.gnu.org/software/coreutils/ Description: Standard GNU file utilities (chmod, cp, dd, dir, ls...), text utilities (sort, tr, head, wc..), and shell utilities (whoami, who,...) c2RAID6 ~ # Expected Results: Should just work. c2RAID6 ~ # emerge --info Portage 2.2.1 (default/linux/amd64/13.0/desktop/kde, gcc-4.6.3, glibc-2.15-r3, 3.10.12-gentoo x86_64) ================================================================= System uname: Linux-3.10.12-gentoo-x86_64-Intel-R-_Core-TM-_i7_CPU_X_980_@_3.33GHz-with-gentoo-2.2 KiB Mem: 24687772 total, 9491736 free KiB Swap: 12602976 total, 12602976 free Timestamp of tree: Thu, 26 Sep 2013 14:45:01 +0000 ld GNU ld (GNU Binutils) 2.23.1 app-shells/bash: 4.2_p45 dev-java/java-config: 2.1.12-r1 dev-lang/python: 2.7.5-r2, 3.2.5-r2 dev-util/cmake: 2.8.10.2-r2 dev-util/pkgconfig: 0.28 sys-apps/baselayout: 2.2 sys-apps/openrc: 0.11.8 sys-apps/sandbox: 2.6-r1 sys-devel/autoconf: 2.13, 2.69 sys-devel/automake: 1.11.6, 1.12.6, 1.13.4 sys-devel/binutils: 2.23.1 sys-devel/gcc: 4.6.3 sys-devel/gcc-config: 1.7.3 sys-devel/libtool: 2.4.2 sys-devel/make: 3.82-r4 sys-kernel/linux-headers: 3.9 (virtual/os-headers) sys-libs/glibc: 2.15-r3 Repositories: gentoo vmware ACCEPT_KEYWORDS="amd64" ACCEPT_LICENSE="* -@EULA dlj-1.1 PUEL AdobeFlash-10.3 skype-eula google-chrome skype-4.0.0.7-copyright google-talkplugin Google-TOS" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-O2 -march=native -pipe" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /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 /etc/terminfo" CXXFLAGS="-O2 -march=native -pipe" DISTDIR="/usr/portage/distfiles" EMERGE_DEFAULT_OPTS="--with-bdeps=y --jobs=5" 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 strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync" FFLAGS="-O2 -pipe" GENTOO_MIRRORS="http://gentoo.osuosl.org/ " LDFLAGS="-Wl,-O1 -Wl,--as-needed" MAKEOPTS="-j13 -l8" 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" PORTAGE_TMPDIR="/var/tmp" PORTDIR="/usr/portage" PORTDIR_OVERLAY="/var/lib/layman/vmware" SYNC="rsync://rsync.namerica.gentoo.org/gentoo-portage" USE="X a52 aac acl acpi alsa amd64 berkdb branding bzip2 cairo cdda cdr cleartype cli consolekit corefonts cracklib crypt cxx dbus declarative dri dts dvd dvdr emboss encode exif fam firefox flac fortran gdbm gif gpm gstreamer gtk iconv java jpeg jpeg2k kde kipi lcms ldap libnotify mad mmx mng modules mp3 mp4 mpeg mudflap multilib ncurses nls nptl ogg opengl openmp pam pango pcre pdf phonon plasma png policykit ppds qt3support qt4 readline sdl semantic-desktop session spell sse sse2 ssl ssse3 startup-notification svg tcpd tiff truetype type1 udev udisks unicode upower usb vdpau vorbis wxwidgets x264 xcb xcomposite xinerama xml xscreensaver xv xvid xvmc zlib" ABI_X86="64" ALSA_CARDS="hda-intel" 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" 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 ubx" INPUT_DEVICES="evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="en" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-5" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_2" RUBY_TARGETS="ruby19 ruby18" USERLAND="GNU" VIDEO_CARDS="nvidia" 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: CPPFLAGS, CTARGET, INSTALL_MASK, LANG, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON c2RAID6 ~ # c2RAID6 ~ # cat /etc/portage/package.keywords sys-kernel/gentoo-sources ~amd64 app-emulation/virtualbox ~amd64 app-emulation/virtualbox-additions ~amd64 app-emulation/virtualbox-modules ~amd64 app-emulation/virtualbox-extpack-oracle ~amd64 app-emulation/vmware-modules ~amd64 app-emulation/vmware-tools ~amd64 app-emulation/vmware-player ~amd64 www-client/google-chrome ~amd64 media-video/handbrake ~amd64 net-im/skype ~amd64 dev-lang/R ~amd64 sci-mathematics/rstudio ~amd64 app-admin/checkrestart ~amd64 app-benchmarks/bonnie++ ~amd64 app-benchmarks/ramspeed ~amd64 media-fonts/takao-fonts ~amd64 =media-libs/libmkv-0.6.5.1 ~amd64 =media-video/makemkv-1.8.5 ~amd64 =virtual/ffmpeg-9 ~amd64 c2RAID6 ~ #
Thanks for pointing out where the problem really was. I've masked dev-lang/R-3.0.2 for now and will watch for a new ebuild.
This bug affects everyone who uses KDE on unstable, since kde-meta pulls in dev-lang/R.
(In reply to Johan Myreen from comment #2) > This bug affects everyone who uses KDE on unstable, since kde-meta pulls in > dev-lang/R. Unless (I think) they set -R use flag for the cantor package as a work around. I use R everyday so I cannot do that but I suspect very few KDE users really use R.
+ 27 Sep 2013; Patrick Lauer <patrick@gentoo.org> R-3.0.2.ebuild: + Fix realpath dependency for #486086 Much better like this :)
Appears to be fixed here. Thanks for the quick response!
Hey, that was really quick. Many thanks to Bonsaikitten for fixing that bug, I was also affected by, see: (de only) https://forums.gentoo.org/viewtopic-p-7405326.html#7405326 Best regards, Andy.
