Удовлетворение зависимостей

Как выйти из ситуации? Пакеты akonadi и kdepimlibs создали кольцо из которого нет выхода. В результате не могу обновить станцию.

[blocks B      ] kde-apps/kdepimlibs:4 ("kde-apps/kdepimlibs:4" is blocking kde-apps/akonadi-mime-16.12.0, app-crypt/gpgme-1.8.0-r2, kde-apps/kmailtransport-16.12.0)
[blocks B      ] kde-apps/kdepimlibs ("kde-apps/kdepimlibs" is blocking kde-apps/akonadi-16.12.0)
[blocks B      ] kde-apps/akonadi:4 ("kde-apps/akonadi:4" is blocking kde-apps/akonadi-16.12.0)
 * 189 пакетов будет установлено, 309806 KiB будет загружено
    >=app-crypt/gpgme-1.1.6 required by (kde-apps/kdepimlibs-4.14.11_pre20160211-r2:4/4.14::gentoo, binary scheduled for merge)

  (kde-apps/kmailtransport-16.12.0:5/5::gentoo, binary scheduled for merge) pulled in by
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/kmail-account-wizard-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/incidenceeditor-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/akonadi-calendar-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/mailcommon-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/messagelib-16.12.0:5/5::gentoo, binary scheduled for merge)

  (kde-apps/kdepimlibs-4.14.11_pre20160211-r2:4/4.14::gentoo, binary scheduled for merge) pulled in by
    >=kde-apps/kdepimlibs-4.14.3:4[-aqua] required by (kde-apps/kuser-16.08.2:4/16.08::gentoo, binary scheduled for merge)

For more information about Blocked Packages, please refer to the following
section of the Gentoo Linux x86 Handbook (architecture is irrelevant):

https://wiki.gentoo.org/wiki/Handbook:X86/Working/Portage#Blocked_packages

Удалите пакет kde-apps/kdepimlibs, он больше не нужен.

Я уже там много чего удалил, чтобы убрать блокировки, но воз и ныне там.
Удалил пакеты:
kde-apps/kdepimlibs
kde-apps/akonadi
app-crypt/gpgme
kde-apps/kmailtransport
Но блокировки остались.

[blocks B      ] kde-apps/akonadi:4 ("kde-apps/akonadi:4" is blocking kde-apps/akonadi-16.12.0)
[blocks B      ] kde-apps/kdepimlibs ("kde-apps/kdepimlibs" is blocking kde-apps/akonadi-16.12.0)
[blocks B      ] kde-apps/kdepimlibs:4 ("kde-apps/kdepimlibs:4" is blocking app-crypt/gpgme-1.8.0-r2, kde-apps/kmailtransport-16.12.0, kde-apps/akonadi-mime-16.12.0)
 * 190 пакетов будет установлено, 309180 KiB будет загружено
    >=app-crypt/gpgme-1.1.6 required by (kde-apps/kdepimlibs-4.14.11_pre20160211-r2:4/4.14::gentoo, binary scheduled for merge)

  (kde-apps/kmailtransport-16.12.0:5/5::gentoo, binary scheduled for merge) pulled in by
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/mailcommon-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/incidenceeditor-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/akonadi-calendar-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/kmail-account-wizard-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/messagelib-16.12.0:5/5::gentoo, binary scheduled for merge)

  (kde-apps/akonadi-mime-16.12.0:5/5::gentoo, binary scheduled for merge) pulled in by
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-contacts-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/calendarsupport-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/pimcommon-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/messagelib-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-search-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/mailimporter-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/incidenceeditor-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/mailcommon-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-calendar-16.12.0:5/5::gentoo, binary scheduled for merge)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/kmailtransport-16.12.0:5/5::gentoo, binary scheduled for merge)

  (kde-apps/kdepimlibs-4.14.11_pre20160211-r2:4/4.14::gentoo, binary scheduled for merge) pulled in by
    >=kde-apps/kdepimlibs-4.14.3:4[-aqua] required by (kde-apps/kuser-16.08.2:4/16.08::gentoo, binary scheduled for merge)

For more information about Blocked Packages, please refer to the following
section of the Gentoo Linux x86 Handbook (architecture is irrelevant):

https://wiki.gentoo.org/wiki/Handbook:X86/Working/Portage#Blocked_packages

 * Use eselect news read to view new items.
 * Выполнение Emerge завершилось с ошибкой
 * Не удалось обновить

Исследование показало, что kde-apps/kdepimlibs-4.14.11_pre20160211-r2 необходим
для kde-apps/kuser-16.08.3::gentoo
Хотя самого отдельного пакета kuser нет в системе.

eix kde-apps/kuser
Совпадений не найдено.

Видимо он идёт в составе другого пакета.

Есть отличное средство -

cl-update --rebuild-world

Улитилита приведёт world в соответствие с текущим CLD и выполнит обновление. После этого предложит удалить неиспользуемые зависимости. На этом шаге можно прервать и перенести необходимые пакеты в локальный сет /etc/portage/sets/custom. Если вы не меняли флаги и маски, обновление должно пройти без блокировок.

Выполнил cl-update --rebuild-world
На шаге удаления пакетов выпал список из 257 пакетов. Естественно, я остановил.
Затем снова выполнил cl-update --rebuild-world и вот, что получилось.

 # cl-update --rebuild-world
Синхронизация репозиториев
 * Синхронизация репозитория Distros ...                                                                                           [ ok ]
 * Синхронизация репозитория Calculate ...                                                                                         [ ok ]
 * Синхронизация репозитория Gentoo ...                                                                                            [ ok ]
 * Синхронизация завершена
Конфигурация системы
 * Исправление настроек ...                                                                                                        [ ok ]
 * Обновление конфигурационных файлов ...                                                                                          [ ok ]
 * Сервер обновлений http://miroir.linuxtricks.fr/calculate
Проверка обновлений
 * Вычисление зависимостей ...
 * Система находится в актуальном состоянии  
Пересборка зависимых модулей
 * Обновление сохранённых библиотек ...                                                                                            [ ok ]
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/kdepim-runtime-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-contacts-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-calendar-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/korganizer-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/kmail-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/pimcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/messagelib-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/incidenceeditor-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-search-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/kmailtransport-16.12.0:5/5::gentoo, installed)

  (kde-apps/kmailtransport-16.12.0:5/5::gentoo, installed) pulled in by
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/korganizer-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/messagelib-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/akonadi-calendar-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/kmail-account-wizard-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/kmail-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/libksieve-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/mailcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/incidenceeditor-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/kdepim-runtime-16.12.0-r1:5/5::gentoo, installed)

  (kde-apps/kdepimlibs-4.14.11_pre20160211-r2:4/4.14::gentoo, binary scheduled for merge) pulled in by
    >=kde-apps/kdepimlibs-4.14.3:4[aqua=] (>=kde-apps/kdepimlibs-4.14.3:4[-aqua]) required by (kde-apps/kopete-16.12.0:4/16.12::gentoo, ebuild scheduled for merge)
    >=kde-apps/kdepimlibs-4.14.3:4[-aqua] required by (kde-apps/kuser-16.08.2:4/16.08::gentoo, binary scheduled for merge)

For more information about Blocked Packages, please refer to the following
section of the Gentoo Linux x86 Handbook (architecture is irrelevant):

https://wiki.gentoo.org/wiki/Handbook:X86/Working/Portage#Blocked_packages
 * Выполнение Emerge завершилось с ошибкой
 * Не удалось обновить

Теперь тем более не понятно. Система находится в актуальном состоянии, но kdepimlibs опять чего-то блокирует.

Ну и до кучи.

 # emerge @preserved-rebuild

Local copy of remote index is up-to-date and will be used.

 * IMPORTANT: 3 news items need reading for repository 'gentoo'.
 * Use eselect news read to view new items.


These are the packages that would be merged, in order:

Calculating dependencies... done!
[binary   R    ] media-video/vcdimager-0.7.24::gentoo  USE="xml -static-libs" ABI_X86="(64) -32 (-x32)" 472 KiB
[binary  NS    ] kde-apps/akonadi-1.13.1_pre20160203-r1:4::gentoo [16.12.0:5::gentoo] USE="postgres -mysql -sqlite {-test}" 0 KiB
[binary   R    ] net-misc/modemmanager-1.4.14:0/1::gentoo  USE="introspection policykit qmi -mbim -qmi-newest -vala" 1066 KiB
[ebuild   R    ] media-tv/kodi-16.1::gentoo  USE="X alsa bluetooth bluray css dbus nfs opengl pulseaudio rtmp samba sftp texturepacker udisks upnp usb vaapi vdpau webserver -airplay -caps -cec -debug -gles -java -joystick -midi -mysql -profile {-test} -upower -zeroconf" PYTHON_TARGETS="python2_7" 0 KiB
[binary   R    ] media-video/mplayer-1.2.1::gentoo  USE="X a52 alsa bidi cddb cdio cdparanoia cpudetection dv dvd dvdnav enca encode faac ftp gif iconv ipv6 jpeg jpeg2k libass live lzo mad mp3 network openal opengl osdmenu png pulseaudio samba sdl shm speex tga theora truetype unicode v4l vcd vdpau vorbis x264 xinerama xscreensaver xv xvid xvmc -aalib (-altivec) (-aqua) -bl -bluray -bs2b -debug -dga -directfb -doc -dts -dvb -faad -fbcon -ggi -gsm -jack -joystick -ladspa -libcaca -libmpeg2 -lirc -md5sum -mng -nas -nut -oss -pnm -pvr -radio -rar -rtc -rtmp (-selinux) -toolame -tremor -twolame (-vidix) -yuv4mpeg -zoran" CPU_FLAGS_X86="3dnow 3dnowext mmx mmxext sse sse2 ssse3" VIDEO_CARDS="-mga -s3virge -tdfx" 3024 KiB
[binary  N     ] kde-apps/kdepimlibs-4.14.11_pre20160211-r2:4/4.14::gentoo  USE="handbook (-aqua) -debug -ldap -prison {-test}" 0 KiB
[binary     UD ] kde-apps/kuser-16.08.2:4/16.08::gentoo [16.08.3:4/16.08::gentoo] USE="handbook (-aqua) -debug" 0 KiB
[ebuild     U  ] kde-apps/kopete-16.12.0:4/16.12::gentoo [16.08.3:4/16.08::gentoo] USE="addbookmarks autoreplace contactnotes handbook highlight history nowlistening oscar pipes privacy ssl statistics texteffect translator urlpicpreview v4l xmpp (-aqua) -debug -gadu -groupwise -jingle -latex -meanwhile -otr -skype -testbed -webpresence -winpopup -yahoo -zeroconf" 6193 KiB
[blocks B      ] kde-apps/kdepimlibs ("kde-apps/kdepimlibs" is blocking kde-apps/akonadi-16.12.0)
[blocks B      ] kde-apps/akonadi:4 ("kde-apps/akonadi:4" is blocking kde-apps/akonadi-16.12.0)
[blocks B      ] kde-apps/kdepimlibs:4 ("kde-apps/kdepimlibs:4" is blocking app-crypt/gpgme-1.8.0-r2, kde-apps/kmailtransport-16.12.0, kde-apps/akonadi-mime-16.12.0)

Total: 8 packages (1 upgrade, 1 downgrade, 1 new, 1 in new slot, 4 reinstalls, 6 binaries), Size of downloads: 10753 KiB
Conflict: 3 blocks (3 unsatisfied)

 * Error: The above package list contains packages which cannot be
 * installed at the same time on the same system.

  (kde-apps/kdepimlibs-4.14.11_pre20160211-r2:4/4.14::gentoo, binary scheduled for merge) pulled in by
    >=kde-apps/kdepimlibs-4.14.3:4[aqua=] (>=kde-apps/kdepimlibs-4.14.3:4[-aqua]) required by (kde-apps/kopete-16.12.0:4/16.12::gentoo, ebuild scheduled for merge)
    >=kde-apps/kdepimlibs-4.14.3:4[-aqua] required by (kde-apps/kuser-16.08.2:4/16.08::gentoo, binary scheduled for merge)

  (app-crypt/gpgme-1.8.0-r2:1/11::gentoo, installed) pulled in by
    >=app-crypt/gpgme-1.7.1[cxx,qt5] required by (kde-apps/messagelib-16.12.0:5/5::gentoo, installed)
    >=app-crypt/gpgme-1.7.1[cxx,qt5] required by (kde-apps/kmail-16.12.0-r1:5/5::gentoo, installed)
    >=app-crypt/gpgme-1.7.1[cxx,qt5] required by (kde-apps/libkleo-16.12.0:5/5::gentoo, installed)
    >=app-crypt/gpgme-1.1.6 required by (kde-apps/kdepimlibs-4.14.11_pre20160211-r2:4/4.14::gentoo, binary scheduled for merge)

  (kde-apps/akonadi-16.12.0:5/5::gentoo, installed) pulled in by
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/messagelib-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/akonadi-calendar-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/akonadi-notes-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/akonadi-search-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kmail-account-wizard-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/mailimporter-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/eventviews-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/akonadi-contacts-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/mailcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/calendarsupport-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kontact-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/pimcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/libkdepim-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kdepim-runtime-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kmail-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kalarmcal-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/incidenceeditor-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kdepim-apps-libs-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/korganizer-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/libksieve-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/akonadi-mime-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kmailtransport-16.12.0:5/5::gentoo, installed)

  (kde-apps/kmailtransport-16.12.0:5/5::gentoo, installed) pulled in by
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/mailcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/kdepim-runtime-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/kmail-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/korganizer-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/messagelib-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/incidenceeditor-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/akonadi-calendar-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/libksieve-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/kmail-account-wizard-16.12.0:5/5::gentoo, installed)

  (kde-apps/akonadi-mime-16.12.0:5/5::gentoo, installed) pulled in by
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-search-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/mailimporter-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-calendar-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/messagelib-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/incidenceeditor-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/korganizer-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/pimcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/kmail-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/kdepim-runtime-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-contacts-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/mailcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/calendarsupport-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/kmailtransport-16.12.0:5/5::gentoo, installed)


For more information about Blocked Packages, please refer to the following
section of the Gentoo Linux x86 Handbook (architecture is irrelevant):

https://wiki.gentoo.org/wiki/Handbook:X86/Working/Portage#Blocked_packages

Всё те же блокировки.

Нужно довести удаление до конца. Впишите в сет только то, что вам действительно нужно или установите пакеты после завершения обновления. Множество пакетов устарело, единственная возможность их корректно удалить - выполнить полное обновление. Не пугайтесь большому кол-ву удаляемых пакетов, в большинстве случаев это обновление на версии в другом слоте, поэтому показывает как установку/удаление.

После прерывания команды cl-update --rebuild-world и повторное выполнение, выдаёт привычную ошибку:

 * Выполнение Emerge завершилось с ошибкой
 * Не удалось обновить

Списка удаляемых пакетов при этом нет.

Прервал, чтобы вписать в /etc/portage/sets/custom x11-drivers/nvidia-drivers

Вы что-либо меняли в настройках /etc/portage/? Покажите вывод emerge -uDNp world.

Конечно менял.

  1. Настраивал флаги в /etc/portage/make.conf/custom

  2. Маскировал старые версии, чтобы не было отката на них при обновлении.

  3. Размаскировал новые версии, которые нужны для работы. В частности mariadb.

  4. Настраивал опции и флаги для конкретных пакетов в /etc/portage/package.use/custom

    emerge -uDNp world

    Local copy of remote index is up-to-date and will be used.

    These are the packages that would be merged, in order:

    Calculating dependencies… done!

    Total: 0 packages, Size of downloads: 0 KiB

    • IMPORTANT: 3 news items need reading for repository ‘gentoo’.
    • Use eselect news read to view new items.

После перезапуска станции, cl-update --rebuild-world выдал список пакетов на удаление.
Удалил 220 пакетов.

В данном случае, проблемным пакетом может быть Kopete. У меня система обновилась без проблем, но сейчас я попробовал сделать emerge -pv kopete, и получил:

emerge -pv kopete

Local copy of remote index is up-to-date and will be used.

These are the packages that would be merged, in order:

Calculating dependencies... done!
[binary  N     ] dev-libs/qjson-0.8.1-r1::gentoo  USE="-debug -doc {-test}" ABI_X86="(64) -32 (-x32)" 105 KiB
[binary  N     ] media-libs/qimageblitz-0.0.6-r1::gentoo  USE="(-altivec) -debug" CPU_FLAGS_X86="3dnow mmx sse sse2" 110 KiB
[ebuild  NS    ] kde-apps/akonadi-1.13.1_pre20160203-r1:4::gentoo [16.12.0:5::gentoo] USE="postgres -mysql -sqlite {-test}" 376 KiB
[ebuild  N     ] kde-apps/kdepimlibs-4.14.11_pre20160211-r2:4/4.14::gentoo  USE="handbook (-aqua) -debug -ldap -prison {-test}" 4200 KiB
[ebuild  N     ] kde-apps/kopete-16.12.0:4/16.12::gentoo  USE="addbookmarks autoreplace contactnotes handbook highlight history nowlistening oscar pipes privacy ssl statistics texteffect translator urlpicpreview v4l xmpp (-aqua) -debug -gadu -groupwise -jingle -latex -meanwhile -otr -skype -testbed -webpresence -winpopup -yahoo -zeroconf" 6193 KiB
[blocks B      ] kde-apps/kdepimlibs:4 ("kde-apps/kdepimlibs:4" is blocking kde-apps/kmailtransport-16.12.0, kde-apps/akonadi-mime-16.12.0, app-crypt/gpgme-1.8.0-r2)
[blocks B      ] kde-apps/akonadi:4 ("kde-apps/akonadi:4" is blocking kde-apps/akonadi-16.12.0)
[blocks B      ] kde-apps/kdepimlibs ("kde-apps/kdepimlibs" is blocking kde-apps/akonadi-16.12.0)

Total: 5 packages (4 new, 1 in new slot, 2 binaries), Size of downloads: 10982 KiB
Conflict: 3 blocks (3 unsatisfied)

 * Error: The above package list contains packages which cannot be
 * installed at the same time on the same system.

  (kde-apps/kdepimlibs-4.14.11_pre20160211-r2:4/4.14::gentoo, ebuild scheduled for merge) pulled in by
    >=kde-apps/kdepimlibs-4.14.3:4[aqua=] (>=kde-apps/kdepimlibs-4.14.3:4[-aqua]) required by (kde-apps/kopete-16.12.0:4/16.12::gentoo, ebuild scheduled for merge)

  (kde-apps/kmailtransport-16.12.0:5/5::gentoo, installed) pulled in by
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/incidenceeditor-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/mailcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/korganizer-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/kdepim-runtime-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/kmail-account-wizard-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/messagelib-16.12.0:5/5::gentoo, installed)
    >=kde-apps/kmailtransport-16.12.0:5 required by (kde-apps/akonadi-calendar-16.12.0:5/5::gentoo, installed)

  (app-crypt/gpgme-1.8.0-r2:1/11::gentoo, installed) pulled in by
    >=app-crypt/gpgme-1.7.1[cxx,qt5] required by (kde-apps/libkleo-16.12.0:5/5::gentoo, installed)
    >=app-crypt/gpgme-1.7.1[cxx,qt5] required by (kde-apps/messagelib-16.12.0:5/5::gentoo, installed)
    >=app-crypt/gpgme-1.1.6 required by (kde-apps/kdepimlibs-4.14.11_pre20160211-r2:4/4.14::gentoo, ebuild scheduled for merge)

  (kde-apps/akonadi-mime-16.12.0:5/5::gentoo, installed) pulled in by
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/mailcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/korganizer-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/calendarsupport-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/kdepim-runtime-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-contacts-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/pimcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-calendar-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/messagelib-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/akonadi-search-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/mailimporter-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/incidenceeditor-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-mime-16.12.0:5 required by (kde-apps/kmailtransport-16.12.0:5/5::gentoo, installed)

  (kde-apps/akonadi-16.12.0:5/5::gentoo, installed) pulled in by
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/mailimporter-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/libkdepim-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/incidenceeditor-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/mailcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kdepim-apps-libs-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/korganizer-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kdepim-runtime-16.12.0-r1:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/akonadi-contacts-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kmail-account-wizard-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/messagelib-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kontact-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/eventviews-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kalarmcal-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/akonadi-notes-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/calendarsupport-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/pimcommon-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/akonadi-calendar-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/akonadi-search-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/akonadi-mime-16.12.0:5/5::gentoo, installed)
    >=kde-apps/akonadi-16.12.0:5 required by (kde-apps/kmailtransport-16.12.0:5/5::gentoo, installed)


For more information about Blocked Packages, please refer to the following
section of the Gentoo Linux x86 Handbook (architecture is irrelevant):

https://wiki.gentoo.org/wiki/Handbook:X86/Working/Portage#Blocked_packages

Как видим, kopete хочет старый пакет akonadi, что и тянет за собой чреду конфликтов.

kopete устарел. Используйте kde-apps/plasma-telepathy-meta.

Ну, в общем-то Антон Кривенко прав. После удаления 220 пакетов и восстановления того софта, который был установлен, примерно 180 пакетов вновь вернулись в систему. kopete не устанавливал. Обновление проходит без ошибок и многое стало понятным. Спасибо за помощь!