After upgrading to python 2.6 I ran "python-updater -o 2.5", when it was finished rerunning it results in it wanting to merge dev-libs/boost-1.35.0-r2 even though it was already remerged. Reproducible: Always Portage 2.1.6.11 (hardened/amd64, gcc-4.3.3, glibc-2.9_p20081201-r4, 2.6.29.1-grsec x86_64) ================================================================= System uname: Linux-2.6.29.1-grsec-x86_64-AMD_Athlon-tm-_64_X2_Dual_Core_Processor_4200+-with-gentoo-2.0.0 Timestamp of tree: Fri, 01 May 2009 09:45:02 +0000 app-shells/bash: 4.0_p17-r1 dev-lang/python: 2.6.2 dev-util/cmake: 2.6.3-r1 sys-apps/baselayout: 2.0.0 sys-apps/openrc: 0.4.3-r2 sys-apps/sandbox: 1.9 sys-devel/autoconf: 2.63-r1 sys-devel/automake: 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10.2 sys-devel/binutils: 2.19.1-r1 sys-devel/gcc-config: 1.4.1 sys-devel/libtool: 2.2.6a virtual/os-headers: 2.6.28-r1 ACCEPT_KEYWORDS="amd64 ~amd64" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-march=k8 -O2 -pipe -msse3" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/share/config /var/qmail/alias /var/qmail/control /var/vpopmail/etc" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php5/ext-active/ /etc/php/cgi-php5/ext-active/ /etc/php/cli-php5/ext-active/ /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo /etc/udev/rules.d" CXXFLAGS="-march=k8 -O2 -pipe -msse3" DISTDIR="/usr/portage/distfiles" FEATURES="candy distlocks fixpackages parallel-fetch protect-owned sandbox sfperms strict unmerge-orphans userfetch userpriv usersandbox" GENTOO_MIRRORS="http://distfiles.gentoo.org http://distro.ibiblio.org/pub/linux/distributions/gentoo" LDFLAGS="" PKGDIR="/usr/portage/packages" 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="/usr/local/portage/layman/xake-toolchain" SYNC="rsync://rsync.europe.gentoo.org/gentoo-portage" USE="X amd64 apache2 cracklib crypt hardened justify mailwrapper midi mmx mng mysql nls nptl nptlonly pam pcre pic qt-gui qt4 readline session sse sse2 ssl unicode urandom xorg zlib" 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" 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 authn_alias authn_anon 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 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" ELIBC="glibc" INPUT_DEVICES="mouse keyboard" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" USERLAND="GNU" VIDEO_CARDS="fbdev nv" Unset: CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, FFLAGS, INSTALL_MASK, LANG, LC_ALL, LINGUAS, MAKEOPTS, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS
I was bit hasty with this one.