Package: aptitude Version: 0.8.1-1 Severity: normal After installing packages (having dependencies) with "apt" and running aptitude, aptitude sometimes changes the auto-installed dependencies to manually installed in the /var/lib/apt/extended_states file.
To reproduce, the problem, I did the following: 1. An upgrade with aptitude (this appears to be important). /var/log/apt/history.log contains: Start-Date: 2016-07-20 10:59:25 Upgrade: linux-doc-4.6:amd64 (4.6.3-1, 4.6.4-1), manpages:amd64 (4.06-1, 4.07-1), libc6-dev-x32:amd64 (2.23-1, 2.23-2), linux-libc-dev:amd64 (4.6.3-1, 4.6.4-1), libc6-dev-i386:amd64 (2.23-1, 2.23-2), libdv4:amd64 (1.0.0-10, 1.0.0-11), libc6-dbg:amd64 (2.23-1, 2.23-2), libc6-dev:amd64 (2.23-1, 2.23-2), ruby-xmlparser:amd64 (0.7.3-2, 0.7.3-3), libc6:amd64 (2.23-1, 2.23-2), libc6:i386 (2.23-1, 2.23-2), locales:amd64 (2.23-1, 2.23-2), metacity:amd64 (1:3.20.1.1-1, 1:3.20.2-1), ruby-unf-ext:amd64 (0.0.7.2-1+b2, 0.0.7.2-2), linux-headers-4.6.0-1-common:amd64 (4.6.3-1, 4.6.4-1), linux-headers-4.6.0-1-amd64:amd64 (4.6.3-1, 4.6.4-1), libinput-bin:amd64 (1.3.1-1, 1.3.3-1), libc-l10n:amd64 (2.23-1, 2.23-2), libc-bin:amd64 (2.23-1, 2.23-2), libc6-x32:amd64 (2.23-1, 2.23-2), libmetacity0:amd64 (1:3.20.1.1-1, 1:3.20.2-1), metacity-common:amd64 (1:3.20.1.1-1, 1:3.20.2-1), libc6-i386:amd64 (2.23-1, 2.23-2), linux-kbuild-4.6:amd64 (4.6.3-1, 4.6.4-1), ruby-unf:amd64 (0.1.4-1, 0.1.4-2), manpages-dev:amd64 (4.06-1, 4.07-1), libc-dev-bin:amd64 (2.23-1, 2.23-2), multiarch-support:amd64 (2.23-1, 2.23-2), glibc-doc:amd64 (2.23-1, 2.23-2), linux-compiler-gcc-5-x86:amd64 (4.6.3-1, 4.6.4-1), linux-image-4.6.0-1-amd64:amd64 (4.6.3-1, 4.6.4-1), libinput10:amd64 (1.3.1-1, 1.3.3-1) End-Date: 2016-07-20 11:06:52 2. Purge packages with "apt" (the goal being to reproduce the problem after reinstalling them). /var/log/apt/history.log contains: Start-Date: 2016-07-20 11:07:48 Commandline: apt purge julia libopenlibm2 libjs-mathjax julia-doc libspqr2 libdsfmt-19937-1 fonts-mathjax libjs-underscore sphinx-rtd-theme-common libpcre2-8-0 libopenblas-base libunwind8 julia-common libarpack2 libopenspecfun1 libjs-modernizr libjs-sphinxdoc libutf8proc2 Purge: julia:amd64 (0.4.6-1+b1), libopenlibm2:amd64 (0.5.1+dfsg-1), libutf8proc2:amd64 (2.0.1-1), libjs-mathjax:amd64 (2.6.1-1), julia-doc:amd64 (0.4.6-1), libspqr2:amd64 (1:4.5.3-1), libdsfmt-19937-1:amd64 (2.2.3+dfsg-3), fonts-mathjax:amd64 (2.6.1-1), libjs-underscore:amd64 (1.7.0~dfsg-1), sphinx-rtd-theme-common:amd64 (0.1.9-1), libpcre2-8-0:amd64 (10.21-1), libopenblas-base:amd64 (0.2.18-1), libunwind8:amd64 (1.1-4.1), julia-common:amd64 (0.4.6-1), libarpack2:amd64 (3.4.0-1), libopenspecfun1:amd64 (0.5.2-1), libjs-modernizr:amd64 (2.6.2+ds1-1), libjs-sphinxdoc:amd64 (1.4.5-1) End-Date: 2016-07-20 11:07:56 3. Reinstall the packages (with auto-installed dependencies) with "apt". /var/log/apt/history.log contains: Start-Date: 2016-07-20 11:08:36 Commandline: apt install julia julia-doc Install: julia:amd64 (0.4.6-1+b1), libopenlibm2:amd64 (0.5.1+dfsg-1, automatic), libutf8proc2:amd64 (2.0.1-1, automatic), libjs-mathjax:amd64 (2.6.1-1, automatic), julia-doc:amd64 (0.4.6-1), libspqr2:amd64 (1:4.5.3-1, automatic), libdsfmt-19937-1:amd64 (2.2.3+dfsg-3, automatic), fonts-mathjax:amd64 (2.6.1-1, automatic), libjs-underscore:amd64 (1.7.0~dfsg-1, automatic), sphinx-rtd-theme-common:amd64 (0.1.9-1, automatic), libpcre2-8-0:amd64 (10.21-1, automatic), libopenblas-base:amd64 (0.2.18-1, automatic), libunwind8:amd64 (1.1-4.1, automatic), julia-common:amd64 (0.4.6-1, automatic), libarpack2:amd64 (3.4.0-1, automatic), libopenspecfun1:amd64 (0.5.2-1, automatic), libjs-modernizr:amd64 (2.6.2+ds1-1, automatic), libjs-sphinxdoc:amd64 (1.4.5-1, automatic) End-Date: 2016-07-20 11:08:48 At this time, the "automatic" packages are marked as auto-installed in /var/lib/apt/extended_states, i.e. with "Auto-Installed: 1". But just after running aptitude as root with no arguments (just to get the UI), for the above "automatic" packages, the Auto-Installed field is changed to "Auto-Installed: 0". -- Package-specific info: Terminal: xterm-debian $DISPLAY is set. which aptitude: /usr/bin/aptitude aptitude version information: aptitude 0.8.1 Compiler: g++ 5.3.1 20160429 Compiled against: apt version 5.0.0 NCurses version 6.0 libsigc++ version: 2.8.0 Gtk+ support disabled. Qt support disabled. Current library versions: NCurses version: ncurses 6.0.20160625 cwidget version: 0.5.17 Apt version: 5.0.0 aptitude linkage: linux-vdso.so.1 (0x00007fff249d1000) libapt-pkg.so.5.0 => /usr/lib/x86_64-linux-gnu/libapt-pkg.so.5.0 (0x00007fdc3c61f000) libncursesw.so.5 => /lib/x86_64-linux-gnu/libncursesw.so.5 (0x00007fdc3c3ef000) libtinfo.so.5 => /lib/x86_64-linux-gnu/libtinfo.so.5 (0x00007fdc3c1c4000) libsigc-2.0.so.0 => /usr/lib/x86_64-linux-gnu/libsigc-2.0.so.0 (0x00007fdc3bfbd000) libcwidget.so.3 => /usr/lib/x86_64-linux-gnu/libcwidget.so.3 (0x00007fdc3bcc0000) libsqlite3.so.0 => /usr/lib/x86_64-linux-gnu/libsqlite3.so.0 (0x00007fdc3b9bb000) libboost_iostreams.so.1.58.0 => /usr/lib/x86_64-linux-gnu/libboost_iostreams.so.1.58.0 (0x00007fdc3b7a1000) libboost_filesystem.so.1.58.0 => /usr/lib/x86_64-linux-gnu/libboost_filesystem.so.1.58.0 (0x00007fdc3b588000) libboost_system.so.1.58.0 => /usr/lib/x86_64-linux-gnu/libboost_system.so.1.58.0 (0x00007fdc3b383000) libxapian.so.22 => /usr/lib/x86_64-linux-gnu/libxapian.so.22 (0x00007fdc3af7f000) libpthread.so.0 => /lib/x86_64-linux-gnu/libpthread.so.0 (0x00007fdc3ad62000) libstdc++.so.6 => /usr/lib/x86_64-linux-gnu/libstdc++.so.6 (0x00007fdc3a9e1000) libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007fdc3a6dc000) libgcc_s.so.1 => /lib/x86_64-linux-gnu/libgcc_s.so.1 (0x00007fdc3a4c6000) libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007fdc3a124000) libutil.so.1 => /lib/x86_64-linux-gnu/libutil.so.1 (0x00007fdc39f21000) libdl.so.2 => /lib/x86_64-linux-gnu/libdl.so.2 (0x00007fdc39d1d000) libresolv.so.2 => /lib/x86_64-linux-gnu/libresolv.so.2 (0x00007fdc39b05000) libz.so.1 => /lib/x86_64-linux-gnu/libz.so.1 (0x00007fdc398ea000) libbz2.so.1.0 => /lib/x86_64-linux-gnu/libbz2.so.1.0 (0x00007fdc396da000) liblzma.so.5 => /lib/x86_64-linux-gnu/liblzma.so.5 (0x00007fdc394b6000) liblz4.so.1 => /usr/lib/x86_64-linux-gnu/liblz4.so.1 (0x00007fdc392a4000) librt.so.1 => /lib/x86_64-linux-gnu/librt.so.1 (0x00007fdc3909b000) libuuid.so.1 => /lib/x86_64-linux-gnu/libuuid.so.1 (0x00007fdc38e96000) /lib64/ld-linux-x86-64.so.2 (0x000055f2447a4000) -- System Information: Debian Release: stretch/sid APT prefers unstable-debug APT policy: (500, 'unstable-debug'), (500, 'stable-updates'), (500, 'unstable'), (500, 'testing'), (500, 'stable'), (1, 'experimental') Architecture: amd64 (x86_64) Foreign Architectures: i386 Kernel: Linux 4.6.0-1-amd64 (SMP w/12 CPU cores) Locale: LANG=POSIX, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8) Shell: /bin/sh linked to /bin/dash Init: systemd (via /run/systemd/system) Versions of packages aptitude depends on: ii aptitude-common 0.8.1-1 ii libapt-pkg5.0 1.3~pre2 ii libboost-filesystem1.58.0 1.58.0+dfsg-5.1 ii libboost-iostreams1.58.0 1.58.0+dfsg-5.1 ii libboost-system1.58.0 1.58.0+dfsg-5.1 ii libc6 2.23-2 ii libcwidget3v5 0.5.17-4+b1 ii libgcc1 1:6.1.1-9 ii libncursesw5 6.0+20160625-1 ii libsigc++-2.0-0v5 2.8.0-1 ii libsqlite3-0 3.13.0-1 ii libstdc++6 6.1.1-9 ii libtinfo5 6.0+20160625-1 ii libxapian22v5 1.2.23-1 Versions of packages aptitude recommends: ii libparse-debianchangelog-perl 1.2.0-10 ii sensible-utils 0.0.9 Versions of packages aptitude suggests: pn apt-xapian-index <none> ii aptitude-doc-en [aptitude-doc] 0.8.1-1 pn debtags <none> ii tasksel 3.35 -- no debconf information