Whenever I perform a revdep-rebuild, pointless-1.6.2 and cctbx-2010.03.29.2334-r3 always appear: === * Configuring search environment for revdep-rebuild * Temporary cache files are located in /var/cache/revdep-rebuild revdep-rebuild environment: SEARCH_DIRS="/bin /lib /lib32 /lib64 /opt/bin /opt/vmware/bin /sbin /usr/bin /usr/lib /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3 /usr/lib/gcc/x86_64-pc-linux-gnu/4.5.3/32 /usr/lib/qt4 /usr/lib32 /usr/lib32/opengl/nvidia/lib /usr/lib32/qt4 /usr/lib64 /usr/lib64/R/lib /usr/lib64/itcl3.4/ /usr/lib64/itk3.4/ /usr/lib64/opengl/nvidia/lib /usr/lib64/qca2 /usr/lib64/qt4 /usr/lib64/xulrunner-2.0 /usr/libexec /usr/local/lib /usr/local/lib32 /usr/local/lib64 /usr/sbin /usr/share/ccp4/XIAROOT/xia2-0.3.3.1/Applications /usr/x86_64-pc-linux-gnu/gcc-bin/4.5.3 /usr/x86_64-pc-linux-gnu/lib" SEARCH_DIRS_MASK="/lib/modules /lib64/modules /opt/sun-jdk-1.6.0.29 /usr/lib64/opera" LD_LIBRARY_MASK="libjava.so libjawt.so libjvm.so libodbc.so libodbcinst.so" PORTAGE_ROOT="/" EMERGE_OPTIONS="" ORDER_PKGS="1" FULL_LD_PATH="1" * Checking reverse dependencies * Packages containing binaries and libraries broken by a package update * will be emerged. * Collecting system binaries and libraries * Generated new 1_files.rr * Collecting complete LD_LIBRARY_PATH * Generated new 2_ldpath.rr * Checking dynamic linking consistency [ 18% ] * broken /usr/bin/othercell (requires libcctbx.so.0.0) ... [ 100% ] * Generated new 3_broken.rr * Assigning files to packages * /usr/bin/othercell -> sci-chemistry/pointless ... * /usr/libexec/cctbx/mmtbx/masks/tst_mask -> sci-libs/cctbx * Generated new 4_raw.rr and 4_owners.rr * Cleaning list of packages to rebuild * Generated new 4_pkgs.rr * Assigning packages to ebuilds * Generated new 4_ebuilds.rr * Evaluating package order * Generated new 5_order.rr * All prepared. Starting rebuild emerge --complete-graph=y --oneshot --with-bdeps y --verbose sci-chemistry/pointless:0 sci-libs/cctbx:0 .......... These are the packages that would be merged, in order: Calculating dependencies... done! [ebuild R ] sci-libs/cctbx-2010.03.29.2334-r3 USE="minimal openmp threads" 0 kB [ebuild R ] sci-chemistry/pointless-1.6.2 0 kB === Reproducible: Always Portage 2.1.10.41 (default/linux/amd64/10.0/desktop/kde, gcc-4.5.3, glibc-2.13-r4, 3.1.6-gentoo x86_64) ================================================================= System uname: Linux-3.1.6-gentoo-x86_64-Intel-R-_Core-TM-2_Quad_CPU_Q8300_@_2.50GHz-with-gentoo-2.0.3 Timestamp of tree: Wed, 11 Jan 2012 09:00:01 +0000 app-shells/bash: 4.1_p9 dev-java/java-config: 2.1.11-r3 dev-lang/python: 2.7.2-r3, 3.1.4-r3 dev-util/cmake: 2.8.6-r4 dev-util/pkgconfig: 0.26 sys-apps/baselayout: 2.0.3 sys-apps/openrc: 0.9.4 sys-apps/sandbox: 2.5 sys-devel/autoconf: 2.13, 2.68 sys-devel/automake: 1.10.3, 1.11.1 sys-devel/binutils: 2.21.1-r1 sys-devel/gcc: 4.5.3-r1 sys-devel/gcc-config: 1.4.1-r1 sys-devel/libtool: 2.4-r1 sys-devel/make: 3.82-r1 sys-kernel/linux-headers: 2.6.39 (virtual/os-headers) sys-libs/glibc: 2.13-r4 Repositories: science x-local gentoo ACCEPT_KEYWORDS="amd64" ACCEPT_LICENSE="* -@EULA" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-march=core2 -mtune=core2 -O2 -pipe -msse4.1" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/share/config /usr/share/gnupg/qualified.txt /var/lib/hsqldb" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/env.d/java/ /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=core2 -mtune=core2 -O2 -pipe -msse4.1" DISTDIR="/usr/portage/distfiles" EMERGE_DEFAULT_OPTS="--with-bdeps y" FEATURES="assume-digests binpkg-logs distlocks ebuild-locks fixlafiles news parallel-fetch protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch" FFLAGS="" GENTOO_MIRRORS="ftp://gentoo.mirror.dkm.cz/pub/gentoo/" LANG="es_ES.utf8" LDFLAGS="-Wl,-O1 -Wl,--as-needed" LINGUAS="es_ES es en_US en" MAKEOPTS="-j5" PKGDIR="/home/ramiro/usr/local/portage/pkgdir-backup/" PORTAGE_CONFIGROOT="/" PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress --force --whole-file --delete --stats --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages" PORTAGE_TMPDIR="/var/tmp" PORTDIR="/usr/portage" PORTDIR_OVERLAY="/var/lib/layman/science /usr/portage/local /usr/portage" SYNC="rsync://rsync.gentoo.org/gentoo-portage" USE="3dnow 3dnowext X X509 a52 aac aalib abiword accessibility acl acpi additions adns alsa amd64 apache2 apbs apm archive arpack ass audiofile auth authfile autoipd autoreplace autotrace avahi bash-completion bcmath bdf beagle berkdb binary-drivers binfilter blas bonjour branding bzip2 cairo caps cdda cddax cddb cdparanoia cdr cdrom chm chroot clamav cleartype cli compat consolekit contactnotes context cracklib crypt css ctype cups cupsddk curl curlwrappers custom-optimization cxx dbus dbx declarative designer-plugin desktopglobe detex dga dia directfb disk-partition diskio djvu dri dts dvb dvd dvdr dvi dvipdfm emboss emovix enca encode exif extensions extra fam fame fastcgi fat fbcon ffmpeg fftw firefox firefox3 flac flatfile fontconfig foomaticdb fortran fpx ftp fuse gallium gd gdbm gdu geoip geolocation gif gimp ginac git glibc-omitfp glitz gmp google gphoto2 gpm gps grammar graphics graphviz grub gs gsl gtk gzip hddtemp hdri hfs history hpcups hpijs hpn humanities iconv icu id3tag idn ieee1394 imagemagick imap imlib immqt-bc inifile inkjar innodb ipv6 jack jadetex java java6 javascript jbig jce jfs jpeg jpeg2k justify kde kipi ladspa lame lapack latex latex3 lcms ldap lensfun libcaca libdsk libgda libnotify libssh2 libwww live lm_sensors logrotate loop-aes lqr lua lzo m17n-lib mad maildir mailwrapper math matroska mbox mcve md5sum mdb memlimit milter mime mjpeg mmap mmx mmxext mng modplug modules mono motif mp3 mp4 mpeg mpi mplayer msn mudflap multilib multiuser musepack music musicbrainz nas ncurses neXt net netboot network network-cron networking networkmanager new-hpcups new-login nis nls npp nptl nptlonly nsplugin ntfs numpy nvidia ods ofx ogg ole omega openal openbabel openexr opengl openmp openssl opensslcrypt osc ots pam pango parse-clocks pcntl pcre pdf phonon plasma plotutils plugins png policykit portaudio posix postproc povray ppds profile ps pstricks publishers qt3support qt4 quicktime rar raster raw rdesktop readline reiserfs resolvconf rss rtc rtf rtsp ruby samba sasl scanner science screenshot sdk sdl sdl-image semantic-desktop sensord session shaders shout simplexml skey skins slang slp snmp soap sockets socks5 solver source sox speex spell sse sse2 sse4_1 ssl ssse3 startup-notification subtitles subversion svg swat sysfs syslog sysvipc szip t1lib taglib tcl tcpd teletext tex4ht tga theora thesaurus threads thumbnail thunderbird tidy tiff tk truetype twolame udev udev-acl unicode usb userlocales v4l v4l2 vcd vcdx vlm vmd vnc vorbis wavpack wddx webdav winbind winpopup wmf x264 xanim xattr xcb xcomposite xetex xface xforms xfs xft xindy xine xinerama xls xml xmlreader xmlrpc xmlwriter xorg xorgmodule xplanet xpm xscreensaver xsl xulrunner xv xvid xvmc yv12 zeroconf zip zlib zoran" ALSA_CARDS="hda-intel" ALSA_PCM_PLUGINS="adpcm alaw asym copy dmix dshare dsnoop empty extplug file hooks iec958 ioplug ladspa lfloat linear meter mmap_emul mulaw multi null plug rate route share shm softvol" 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 cgi cgid 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 stage tables krita karbon braindump" CAMERAS="ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" ELIBC="glibc" FOO2ZJS_DEVICES="hp1000" 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" LINGUAS="es_ES es en_US en" PHP_TARGETS="php5-3" RUBY_TARGETS="ruby18" SANE_BACKENDS="epson2 hp samsung" 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, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS
# ChangeLog for sci-libs/cctbx # Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2 # $Header: /var/cvsroot/gentoo-x86/sci-libs/cctbx/ChangeLog,v 1.21 2011/12/04 19:03:25 jlec Exp $ *cctbx-2010.03.29.2334-r5 (04 Dec 2011) 04 Dec 2011; Justin Lecher <jlec@gentoo.org> +cctbx-2010.03.29.2334-r5.ebuild: Create soname symlink, streamelined find and delete of unwanted files Should be fixed already. But seeing the ebuild history, perhaps =sci-libs/cctbx-2010.03.29.2334-r5 should go stable now - it's surely been tweaked for long enough since -r3 went stable?
Please stable. Changes from last stable revision were gcc46 compatibility Using soname
@x86 missed you
(In reply to comment #3) > @x86 missed you Bug 413815 wants sci-libs/cctbx-2010.03.29.2334-r6 stabilized because of boost, any reason not to skip this and go directly to that version?
*** This bug has been marked as a duplicate of bug 413815 ***
