0003473: unable to move aside './usr/share/bug/gedit' to install new version: Invalid cross-device link

ID	Project	Category	View Status	Date Submitted	Last Update

0003473	Kali Linux	Kali Package Bug	public	2016-08-16 20:17	2020-12-01 10:48

Reporter	lostincynicism	Assigned To	rhertzog
Priority	normal	Severity	major	Reproducibility	always
Status	resolved	Resolution	fixed
Product Version	2016.2
Fixed in Version	2017.1

Summary	0003473: unable to move aside './usr/share/bug/gedit' to install new version: Invalid cross-device link
Description	On a persistent live filesystem, it is impossible to upgrade packages that replace a directory with a file. This is a limitation of the "overlay" filesystem. See https://bugs.debian.org/836211 Original description: gedit in the gedit_3.20.2-2_amd64.deb appears to be corrupt. As a result, x crashes on reboot. Since kali-desktop-gnome requires gedit to be installed, one can't uninstall it without also uninstalling gnome.
Steps To Reproduce	I have tried this on multiple new USB drives from different manufacturers to eradicate possible usb thumb drive failures/bad manufacturing run. Hardware used: Viking 32gb USB 3.0 thumb drive SanDisk Ultra 32gb USB 3.0 Thumb Drive (repro's on both) Lenovo T420, i5 8gb RAM, 160gb Intel SSD Grab the fresh ISO from the Kali download page. Create a Kali Live USB stick with Encrypted Persistence. Boot into Kali, and update: apt-get update apt-get upgrade Gedit will fail to install with the error: Errors were encountered while processing: /var/cache/apt/archives/gedit_3.20.2-2_amd64.deb E: Sub-process /usr/bin/dpkg returned an error code (1 2. Unpacking gedit (3.20.2-2) over (3.18.2-1) ... dpkg: error processing archive /var/cache/apt/archives/gedit_3.20.2-2_amd64.deb (--unpack): unable to move aside './usr/share/bug/gedit' to install new version: Invalid cross-device link Bug 0003361 also references this issue, but with less info or repro steps. rhertzog recommends removing '/usr/share/bug/gedit'. I tried this, but after running 'apt-get -f install', it complains about not being able to 'securely remove' the dpkg temp file for gedit. I also removed this file as well, which only further aggravates the situation. Trying 'apt-get -f install' then complains: Package is in a very bad inconsistent state - you should reinstall it before attempting a removal. Reinstallation also fails in the same manner as the summarized issue. Something is not right. MD5 of the package: 70759d412f8db08028ee60e1300e6707
Additional Information	Related bug: https://bugs.kali.org/view.php?id=3361

lostincynicism 2016-08-16 20:18 reporter ~0005627	I've reinstalled Kali in this manner 3 different times, and get the same end result.

lostincynicism 2016-08-16 20:50 reporter ~0005628	I noticed the package is from the debian sid repository and has the same checksum

rhertzog 2016-08-17 07:33 administrator ~0005630	I doubt that gedit is the root cause of your problems. gedit alone can't affect the X server, it's rather some other underlying problem which results in breaking gedit and X! The error message still leads me to believe that we have some sort of file system problem... maybe related to encrypted persistence since that's what you're using and since the problem is not otherwise reproducible. Have you done some hardware checks to ensure you don't have a bad RAM module? Do you also have the problem if you only upgrade "gedit" on first boot? apt-get update apt-get install gedit

rhertzog 2016-08-17 07:35 administrator ~0005631	Also output of "ls -al /usr/share/bug/" before and after the failing upgrade would be interesting.

rhertzog 2016-08-17 10:22 administrator ~0005632	More interestingly, can you also reproduce the problem with a daily image that you can download here: http://archive.kali.org/kali-daily-images/ ?

harveyUK47 2016-08-17 10:30 reporter ~0005633	I have also reported the issue in 0003473. root@kali:~# apt-get update Hit:1 http://ftp.hands.com/kali kali-rolling InRelease Reading package lists... Done root@kali:~# apt-get install gedit Reading package lists... Done Building dependency tree Reading state information... Done The following packages were automatically installed and are no longer required: caribou-antler castxml creepy dff gccxml gir1.2-clutter-gst-2.0 gir1.2-gkbd-3.0 gir1.2-packagekitglib-1.0 gir1.2-xkl-1.0 gnome-icon-theme-symbolic gtk2-engines gucharmap inguma libapache2-mod-php5 libasn1-8-heimdal libavcodec-ffmpeg56 libavdevice-ffmpeg56 libavfilter-ffmpeg5 libavformat-ffmpeg56 libavresample-ffmpeg2 libavutil-ffmpeg54 libbasicusageenvironment0 libbind9-90 libboost-filesystem1.58.0 libboost-python1.58.0 libboost-python1.61.0 libboost-system1.58.0 libboost-thread1.58.0 libcamel-1.2-54 libclutter-gst-2.0-0 libcrypto++9v5 libdbus-1-dev libdns100 libexporter-tiny-perl libgdict-1.0-9 libgif4 libgrilo-0.2-1 libgroupsock1 libgssapi3-heimdal libgtkglext1 libgucharmap-2-90-7 libhcrypto4-heimdal libhdb9-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhunspell-1.3-0 libhx509-5-heimdal libical1a libilmbase6v5 libisc95 libisccc90 libisccfg90 libjansson4 libjasper1 libkdc2-heimdal libkrb5-26-heimdal liblist-moreutils-perl liblivemedia23 libllvm3.7 liblouis9 liblwres90 libntdb1 libonig2 libopenexr6v5 libopenjpeg5 libpff1 libpgm-5.1-0 libphonon4 libpng12-0 libpoppler57 libpostproc-ffmpeg53 libpth20 libpython3.4-minimal libpython3.4-stdlib libqdbm14 libqmi-glib1 libquvi-scripts libquvi7 libregfi0 libroken18-heimdal libsodium13 libswresample-ffmpeg1 libswscale-ffmpeg3 libtask-weaken-perl libtre5 libtrio2 libusageenvironment1 libusbmuxd2 libwebp5 libwebpdemux1 libwebpmux1 libwebrtc-audio-processing-0 libwind0-heimdal libx265-68 libyara3 libzip2 libzmq3 multiforcer phonon phonon-backend-vlc php5 php5-cli php5-common php5-json php5-mysql php5-readline python-apsw python-bluez python-characteristic python-ctypeslib python-dbus-dev python-distlib python-dominate python-ecdsa python-flickrapi python-googleapi python-instagram python-jwt python-lzma python-lzo python-magic python-ntdb python-oauth2client python-oauthlib python-opengl python-pyatspi python-pyexiv2 python-pyexiv2-doc python-pyqtgraph python-qt4-gl python-qt4-phonon python-requests-oauthlib python-requests-toolbelt python-rsa python-tidylib python-tweepy python-uritemplate python-yapsy python3.4 python3.4-minimal ratproxy ruby-rainbow ruby-rexec ruby2.2-dev system-config-printer Use 'apt autoremove' to remove them. Suggested packages: gedit-plugins The following packages will be upgraded: gedit 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 1673 not fully installed or removed. Need to get 0 B/414 kB of archives. After this operation, 106 kB of additional disk space will be used. Reading changelogs... Done (Reading database ... 318516 files and directories currently installed.) Preparing to unpack .../gedit_3.20.2-2_amd64.deb ... Unpacking gedit (3.20.2-2) over (3.18.2-1) ... dpkg: error processing archive /var/cache/apt/archives/gedit_3.20.2-2_amd64.deb (--unpack): unable to move aside './usr/share/bug/gedit' to install new version: Invalid cross-device link Errors were encountered while processing: /var/cache/apt/archives/gedit_3.20.2-2_amd64.deb E: Sub-process /usr/bin/dpkg returned an error code (1) root@kali:~#

harveyUK47 2016-08-17 12:01 reporter ~0005634	Downloaded nightly build 17th Aug, issue not present, but maybe as apt-get dist-upgrade doesn't have anything to upgrade.

rhertzog 2016-08-17 13:04 administrator ~0005635	harveyUK47, with the nightly build, you can try "apt install --reinstall gedit" for example. With the problematic 2016.1 setup, can you show me the output of "ls -al /usr/share/bug/" and possibly also of the same directory in the persistence filesystem?

harveyUK47 2016-08-17 15:25 reporter ~0005636	Sorry had to rebuild my usb key with nightly build. On nightly build, running apt install --reinstall gedit presents no errors.

lostincynicism 2016-08-17 15:34 reporter ~0005637	Just got into the office. For the time being, I was able to avoid the issue by issuing 'apt-mark hold gedit' I have a spare usb stick here, ill try the steps you recommended and also run memtest to make sure it's not a bad dimm.

lostincynicism 2016-08-17 22:26 reporter ~0005642	So first set of results, the dimms are fine. After 10 iterations of testing with all 13 tests in memtest86 v7.1, there were 0 errors. Before upgrade ls -al /usr/share/bug/: root@kali:~# ls -al /usr/share/bug/ total 15 drwxr-xr-x 110 root root 2633 Jan 20 2016 . drwxr-xr-x 1 root root 4096 Jan 20 2016 .. drwxr-xr-x 2 root root 44 Jan 20 2016 apache2 drwxr-xr-x 2 root root 44 Jan 20 2016 apache2-bin drwxr-xr-x 2 root root 29 Jan 20 2016 apt drwxr-xr-x 2 root root 30 Jan 20 2016 bash-completion drwxr-xr-x 2 root root 30 Jan 20 2016 binutils drwxr-xr-x 2 root root 30 Jan 20 2016 console-setup drwxr-xr-x 2 root root 30 Jan 20 2016 console-setup-linux drwxr-xr-x 2 root root 44 Jan 20 2016 cron -rwxr-xr-x 1 root root 297 Apr 28 2015 cryptsetup drwxr-xr-x 2 root root 30 Jan 20 2016 dbus drwxr-xr-x 2 root root 30 Jan 20 2016 empathy drwxr-xr-x 2 root root 30 Jan 20 2016 evince drwxr-xr-x 2 root root 30 Jan 20 2016 evolution-data-server drwxr-xr-x 2 root root 29 Jan 20 2016 exim4-base drwxr-xr-x 2 root root 29 Jan 20 2016 exim4-config drwxr-xr-x 2 root root 29 Jan 20 2016 exim4-daemon-light drwxr-xr-x 2 root root 45 Jan 20 2016 file drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-amd-graphics drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-atheros drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-bnx2 drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-bnx2x drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-brcm80211 drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-cavium drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-intel-sound drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-intelwimax drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-ipw2x00 drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-ivtv drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-iwlwifi drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-libertas drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-linux drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-misc-nonfree drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-myricom drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-netxen drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-qlogic drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-realtek drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-samsung drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-siano drwxr-xr-x 2 root root 30 Jan 20 2016 firmware-ti-connectivity drwxr-xr-x 2 root root 44 Jan 20 2016 fonts-cantarell drwxr-xr-x 2 root root 44 Jan 20 2016 fonts-droid drwxr-xr-x 2 root root 44 Jan 20 2016 fonts-liberation drwxr-xr-x 2 root root 30 Jan 20 2016 fonts-wine -rwxr-xr-x 1 root root 118 Jun 30 2015 fping drwxr-xr-x 2 root root 29 Jan 20 2016 gedit drwxr-xr-x 2 root root 30 Jan 20 2016 gnome-core drwxr-xr-x 2 root root 30 Jan 20 2016 gnupg drwxr-xr-x 2 root root 59 Jan 20 2016 iceweasel drwxr-xr-x 2 root root 44 Jan 20 2016 imagemagick drwxr-xr-x 2 root root 29 Jan 20 2016 initramfs-tools drwxr-xr-x 2 root root 30 Jan 20 2016 keyboard-configuration drwxr-xr-x 2 root root 44 Jan 20 2016 libapache2-mod-php5 -rwxr-xr-x 1 root root 53 Aug 30 2015 libdvdnav4 -rwxr-xr-x 1 root root 57 Aug 29 2014 libdvdread4 drwxr-xr-x 2 root root 44 Jan 20 2016 libegl1-mesa drwxr-xr-x 2 root root 44 Jan 20 2016 libgbm1 drwxr-xr-x 2 root root 44 Jan 20 2016 libgl1-mesa-dri drwxr-xr-x 2 root root 44 Jan 20 2016 libgl1-mesa-glx drwxr-xr-x 2 root root 44 Jan 20 2016 libglapi-mesa drwxr-xr-x 2 root root 44 Jan 20 2016 libgles1-mesa drwxr-xr-x 2 root root 44 Jan 20 2016 libgles2-mesa drwxr-xr-x 2 root root 45 Jan 20 2016 libmagic1 -rwxr-xr-x 1 root root 553 Oct 28 2015 libvdpau1 lrwxrwxrwx 1 root root 11 Nov 2 2015 libvlc5 -> libvlccore8 drwxr-xr-x 2 root root 45 Jan 20 2016 libvlccore8 drwxr-xr-x 2 root root 44 Jan 20 2016 libwayland-egl1-mesa drwxr-xr-x 2 root root 30 Jan 20 2016 libwine drwxr-xr-x 2 root root 44 Jan 20 2016 libxatracker2 drwxr-xr-x 2 root root 291 Jan 20 2016 linux-image-4.3.0-kali1-amd64 drwxr-xr-x 2 root root 30 Jan 20 2016 linux-image-amd64 drwxr-xr-x 2 root root 44 Jan 20 2016 live-boot drwxr-xr-x 2 root root 30 Jan 20 2016 live-config drwxr-xr-x 2 root root 30 Jan 20 2016 live-tools drwxr-xr-x 2 root root 30 Jan 20 2016 locales drwxr-xr-x 2 root root 29 Jan 20 2016 logrotate -rwxr-xr-x 1 root root 604 May 27 2014 lsb-release drwxr-xr-x 2 root root 30 Jan 20 2016 man-db drwxr-xr-x 2 root root 30 Jan 20 2016 menu drwxr-xr-x 2 root root 44 Jan 20 2016 mesa-vdpau-drivers drwxr-xr-x 2 root root 30 Jan 20 2016 mime-support drwxr-xr-x 2 root root 44 Jan 20 2016 nfs-common drwxr-xr-x 2 root root 45 Jan 20 2016 nfs-utils drwxr-xr-x 2 root root 44 Jan 20 2016 php5 drwxr-xr-x 2 root root 44 Jan 20 2016 php5-cli drwxr-xr-x 2 root root 44 Jan 20 2016 php5-common drwxr-xr-x 2 root root 44 Jan 20 2016 php5-mysql drwxr-xr-x 2 root root 44 Jan 20 2016 php5-readline drwxr-xr-x 2 root root 30 Jan 20 2016 procps -rwxr-xr-x 1 root root 1249 Nov 6 2015 pulseaudio drwxr-xr-x 2 root root 59 Jan 20 2016 reportbug drwxr-xr-x 2 root root 44 Jan 20 2016 systemd drwxr-xr-x 2 root root 30 Jan 20 2016 tex-common drwxr-xr-x 2 root root 44 Jan 20 2016 texlive-base drwxr-xr-x 2 root root 44 Jan 20 2016 texlive-latex-base drwxr-xr-x 2 root root 44 Jan 20 2016 texlive-latex-base-doc drwxr-xr-x 2 root root 44 Jan 20 2016 udev drwxr-xr-x 2 root root 30 Jan 20 2016 usb-modeswitch-data -rwxr-xr-x 1 root root 553 Oct 28 2015 vdpau-driver-all drwxr-xr-x 2 root root 44 Jan 20 2016 vim drwxr-xr-x 2 root root 44 Jan 20 2016 vim-gtk drwxr-xr-x 2 root root 44 Jan 20 2016 vim-tiny lrwxrwxrwx 1 root root 7 Nov 2 2015 vlc -> vlc-nox lrwxrwxrwx 1 root root 11 Nov 2 2015 vlc-nox -> libvlccore8 lrwxrwxrwx 1 root root 7 Nov 2 2015 vlc-plugin-notify -> vlc-nox lrwxrwxrwx 1 root root 7 Nov 2 2015 vlc-plugin-samba -> vlc-nox drwxr-xr-x 2 root root 30 Jan 20 2016 wine drwxr-xr-x 2 root root 30 Jan 20 2016 wine64 drwxr-xr-x 2 root root 30 Jan 20 2016 xorg drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-core drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-input-evdev drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-input-mouse drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-input-synaptics drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-input-vmmouse drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-video-ati drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-video-fbdev drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-video-intel drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-video-nouveau drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-video-qxl drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-video-radeon drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-video-vesa drwxr-xr-x 2 root root 29 Jan 20 2016 xserver-xorg-video-vmware -rwxr-xr-x 1 root root 1783 Dec 2 2015 zsh -rwxr-xr-x 1 root root 1783 Dec 2 2015 zsh-common I'll add the output post upgrade once it finishes or fails.

lostincynicism 2016-08-18 03:36 reporter ~0005643	Failed again: Errors were encountered while processing: /var/cache/apt/archives/gedit_3.20.2-2_amd64.deb E: Sub-process /usr/bin/dpkg returned an error code (1) root@kali:~/Downloads# apt-get dist-upgrade Reading package lists... Done Building dependency tree Reading state information... Done You might want to run 'apt-get -f install' to correct these. The following packages have unmet dependencies: gedit : Depends: gedit-common (< 3.19) but 3.20.2-2 is installed E: Unmet dependencies. Try using -f. root@kali:~/Downloads#

lostincynicism 2016-08-18 03:37 reporter ~0005644	root@kali:~/Downloads# apt-get -f dist-upgrade Reading package lists... Done Building dependency tree Reading state information... Done Correcting dependencies... Done Calculating upgrade... Done The following packages were automatically installed and are no longer required: caribou-antler castxml creepy dff gccxml gir1.2-clutter-gst-2.0 gir1.2-gkbd-3.0 gir1.2-packagekitglib-1.0 gir1.2-xkl-1.0 gnome-icon-theme-symbolic gtk2-engines gucharmap inguma libapache2-mod-php5 libasn1-8-heimdal libavcodec-ffmpeg56 libavdevice-ffmpeg56 libavfilter-ffmpeg5 libavformat-ffmpeg56 libavresample-ffmpeg2 libavutil-ffmpeg54 libbasicusageenvironment0 libbind9-90 libboost-filesystem1.58.0 libboost-python1.58.0 libboost-python1.61.0 libboost-system1.58.0 libboost-thread1.58.0 libcamel-1.2-54 libclutter-gst-2.0-0 libcrypto++9v5 libdbus-1-dev libdns100 libexporter-tiny-perl libgdict-1.0-9 libgif4 libgrilo-0.2-1 libgroupsock1 libgssapi3-heimdal libgtkglext1 libgucharmap-2-90-7 libhcrypto4-heimdal libhdb9-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhunspell-1.3-0 libhx509-5-heimdal libical1a libilmbase6v5 libisc95 libisccc90 libisccfg90 libjansson4 libjasper1 libkdc2-heimdal libkrb5-26-heimdal liblist-moreutils-perl liblivemedia23 libllvm3.7 liblouis9 liblwres90 libntdb1 libonig2 libopenexr6v5 libopenjpeg5 libpff1 libpgm-5.1-0 libphonon4 libpng12-0 libpoppler57 libpostproc-ffmpeg53 libpth20 libpython3.4-minimal libpython3.4-stdlib libqdbm14 libqmi-glib1 libquvi-scripts libquvi7 libregfi0 libroken18-heimdal libsodium13 libswresample-ffmpeg1 libswscale-ffmpeg3 libtask-weaken-perl libtre5 libtrio2 libusageenvironment1 libusbmuxd2 libwebp5 libwebpdemux1 libwebpmux1 libwebrtc-audio-processing-0 libwind0-heimdal libx265-68 libyara3 libzip2 libzmq3 multiforcer phonon phonon-backend-vlc php5 php5-cli php5-common php5-json php5-mysql php5-readline python-apsw python-bluez python-characteristic python-ctypeslib python-dbus-dev python-distlib python-dominate python-ecdsa python-flickrapi python-googleapi python-instagram python-jwt python-lzma python-lzo python-magic python-ntdb python-oauth2client python-oauthlib python-opengl python-pyatspi python-pyexiv2 python-pyexiv2-doc python-pyqtgraph python-qt4-gl python-qt4-phonon python-requests-oauthlib python-requests-toolbelt python-rsa python-tidylib python-tweepy python-uritemplate python-yapsy python3.4 python3.4-minimal ratproxy ruby-rainbow ruby-rexec ruby2.2-dev system-config-printer Use 'apt autoremove' to remove them. The following packages will be upgraded: gedit 1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 657 not fully installed or removed. Need to get 0 B/414 kB of archives. After this operation, 106 kB of additional disk space will be used. Do you want to continue? [Y/n] Reading changelogs... Done (Reading database ... 318520 files and directories currently installed.) Preparing to unpack .../gedit_3.20.2-2_amd64.deb ... Unpacking gedit (3.20.2-2) over (3.18.2-1) ... dpkg: error processing archive /var/cache/apt/archives/gedit_3.20.2-2_amd64.deb (--unpack): unable to move aside './usr/share/bug/gedit' to install new version: Invalid cross-device link Processing triggers for desktop-file-utils (0.23-1) ... Processing triggers for mime-support (3.60) ... Errors were encountered while processing: /var/cache/apt/archives/gedit_3.20.2-2_amd64.deb E: Sub-process /usr/bin/dpkg returned an error code (1) W: Operation was interrupted before it could finish root@kali:~/Downloads#

lostincynicism 2016-08-18 03:39 reporter ~0005645	ls -al after upgrade: root@kali:~/Downloads# ls -al /usr/share/bug/ total 492 drwxr-xr-x 1 root root 4096 Aug 18 03:36 . drwxr-xr-x 1 root root 12288 Aug 18 03:32 .. drwxr-xr-x 1 root root 4096 Aug 17 20:21 apache2 drwxr-xr-x 1 root root 4096 Aug 17 20:21 apache2-bin drwxr-xr-x 1 root root 4096 Aug 17 20:20 apt drwxr-xr-x 1 root root 4096 Aug 17 20:19 bash-completion drwxr-xr-x 1 root root 4096 Aug 17 20:12 binutils drwxr-xr-x 1 root root 4096 Aug 17 20:19 console-setup drwxr-xr-x 1 root root 4096 Aug 17 20:19 console-setup-linux drwxr-xr-x 2 root root 44 Jan 20 2016 cron -rwxr-xr-x 1 root root 763 Feb 9 2016 cryptsetup drwxr-xr-x 1 root root 4096 Aug 17 20:19 dbus drwxr-xr-x 1 root root 4096 Aug 18 02:41 empathy drwxr-xr-x 1 root root 4096 Aug 18 02:47 evince drwxr-xr-x 1 root root 4096 Aug 18 02:18 evolution-data-server drwxr-xr-x 1 root root 4096 Aug 18 02:52 exim4-base drwxr-xr-x 1 root root 4096 Aug 18 02:52 exim4-config drwxr-xr-x 1 root root 4096 Aug 18 02:52 exim4-daemon-light drwxr-xr-x 1 root root 4096 Aug 18 02:36 file drwxr-xr-x 2 root root 4096 Aug 18 02:53 firefox-esr drwxr-xr-x 1 root root 4096 Aug 17 20:23 firmware-amd-graphics drwxr-xr-x 1 root root 4096 Aug 17 20:37 firmware-atheros drwxr-xr-x 1 root root 4096 Aug 17 20:37 firmware-bnx2 drwxr-xr-x 1 root root 4096 Aug 17 20:37 firmware-bnx2x drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-brcm80211 drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-cavium drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-intel-sound drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-intelwimax drwxr-xr-x 1 root root 4096 Aug 17 20:23 firmware-ipw2x00 drwxr-xr-x 1 root root 4096 Aug 17 20:23 firmware-ivtv drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-iwlwifi drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-libertas drwxr-xr-x 1 root root 4096 Aug 17 20:23 firmware-linux drwxr-xr-x 1 root root 4096 Aug 17 20:23 firmware-misc-nonfree drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-myricom drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-netxen drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-qlogic drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-realtek drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-samsung drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-siano drwxr-xr-x 1 root root 4096 Aug 17 20:38 firmware-ti-connectivity drwxr-xr-x 1 root root 4096 Aug 17 20:39 fonts-cantarell drwxr-xr-x 2 root root 4096 Aug 18 02:28 fonts-droid-fallback drwxr-xr-x 2 root root 44 Jan 20 2016 fonts-liberation drwxr-xr-x 2 root root 4096 Aug 18 02:53 fonts-noto-mono drwxr-xr-x 1 root root 4096 Aug 17 20:40 fonts-wine -rwxr-xr-x 1 root root 118 Jun 30 2015 fping drwxr-xr-x 2 root root 29 Jan 20 2016 gedit drwxr-xr-x 1 root root 4096 Aug 18 03:00 gnome-core drwxr-xr-x 1 root root 4096 Aug 17 20:27 gnupg drwxr-xr-x 1 root root 4096 Aug 17 21:04 imagemagick drwxr-xr-x 1 root root 4096 Aug 18 03:03 initramfs-tools drwxr-xr-x 2 root root 4096 Aug 17 20:09 init-system-helpers drwxr-xr-x 1 root root 4096 Aug 17 20:19 keyboard-configuration drwxr-xr-x 2 root root 44 Jan 20 2016 libapache2-mod-php5 drwxr-xr-x 2 root root 4096 Aug 18 03:05 libapache2-mod-php7.0 -rwxr-xr-x 1 root root 53 Aug 30 2015 libdvdnav4 -rwxr-xr-x 1 root root 57 Aug 29 2014 libdvdread4 drwxr-xr-x 1 root root 4096 Aug 17 20:32 libegl1-mesa drwxr-xr-x 1 root root 4096 Aug 17 20:32 libgbm1 drwxr-xr-x 1 root root 4096 Aug 18 02:28 libgl1-mesa-dri drwxr-xr-x 1 root root 4096 Aug 17 21:11 libgl1-mesa-glx drwxr-xr-x 1 root root 4096 Aug 17 21:11 libglapi-mesa drwxr-xr-x 1 root root 4096 Aug 17 21:11 libgles1-mesa drwxr-xr-x 1 root root 4096 Aug 17 21:11 libgles2-mesa drwxr-xr-x 1 root root 4096 Aug 18 02:36 libmagic1 drwxr-xr-x 2 root root 4096 Aug 18 03:16 libosmesa6 -rwxr-xr-x 1 root root 553 Oct 28 2015 libvdpau1 drwxr-xr-x 2 root root 4096 Aug 17 20:23 libvlc5 drwxr-xr-x 1 root root 4096 Aug 17 20:23 libvlccore8 drwxr-xr-x 1 root root 4096 Aug 17 20:32 libwayland-egl1-mesa drwxr-xr-x 1 root root 4096 Aug 18 03:22 libwine drwxr-xr-x 1 root root 4096 Aug 18 02:28 libxatracker2 drwxr-xr-x 2 root root 291 Jan 20 2016 linux-image-4.3.0-kali1-amd64 drwxr-xr-x 2 root root 4096 Aug 18 03:24 linux-image-4.6.0-kali1-amd64 drwxr-xr-x 1 root root 4096 Aug 18 03:24 linux-image-amd64 drwxr-xr-x 1 root root 4096 Aug 17 21:21 live-boot drwxr-xr-x 1 root root 4096 Aug 17 21:21 live-config drwxr-xr-x 1 root root 4096 Aug 17 21:22 live-tools drwxr-xr-x 1 root root 4096 Aug 17 20:09 locales drwxr-xr-x 2 root root 29 Jan 20 2016 logrotate -rwxr-xr-x 1 root root 604 May 27 2014 lsb-release drwxr-xr-x 2 root root 30 Jan 20 2016 man-db drwxr-xr-x 2 root root 30 Jan 20 2016 menu drwxr-xr-x 2 root root 4096 Aug 18 03:03 mesa-opencl-icd drwxr-xr-x 1 root root 4096 Aug 18 03:25 mesa-vdpau-drivers drwxr-xr-x 1 root root 4096 Aug 17 20:17 mime-support drwxr-xr-x 1 root root 4096 Aug 17 21:24 nfs-common drwxr-xr-x 1 root root 4096 Aug 17 21:24 nfs-utils drwxr-xr-x 2 root root 44 Jan 20 2016 php5 drwxr-xr-x 2 root root 44 Jan 20 2016 php5-cli drwxr-xr-x 2 root root 44 Jan 20 2016 php5-common drwxr-xr-x 2 root root 44 Jan 20 2016 php5-mysql drwxr-xr-x 2 root root 44 Jan 20 2016 php5-readline drwxr-xr-x 2 root root 4096 Aug 18 03:05 php7.0 drwxr-xr-x 2 root root 4096 Aug 18 03:04 php7.0-cli drwxr-xr-x 2 root root 4096 Aug 18 03:04 php7.0-common drwxr-xr-x 2 root root 4096 Aug 18 03:04 php7.0-json drwxr-xr-x 2 root root 4096 Aug 18 03:05 php7.0-mysql drwxr-xr-x 2 root root 4096 Aug 18 03:04 php7.0-opcache drwxr-xr-x 2 root root 4096 Aug 18 03:04 php7.0-readline drwxr-xr-x 1 root root 4096 Aug 18 02:07 procps -rwxr-xr-x 1 root root 1249 Jul 3 16:00 pulseaudio drwxr-xr-x 2 root root 59 Jan 20 2016 reportbug drwxr-xr-x 1 root root 4096 Aug 17 20:15 systemd drwxr-xr-x 1 root root 4096 Aug 17 20:39 tex-common drwxr-xr-x 1 root root 4096 Aug 18 02:51 texlive-base drwxr-xr-x 2 root root 4096 Aug 18 02:51 texlive-latex-base drwxr-xr-x 1 root root 4096 Aug 18 02:50 texlive-latex-base-doc drwxr-xr-x 1 root root 4096 Aug 17 20:14 udev drwxr-xr-x 1 root root 4096 Aug 17 21:58 usb-modeswitch-data -rwxr-xr-x 1 root root 553 Oct 28 2015 vdpau-driver-all drwxr-xr-x 1 root root 4096 Aug 18 02:34 vim drwxr-xr-x 1 root root 4096 Aug 18 02:33 vim-gtk drwxr-xr-x 1 root root 4096 Aug 18 02:34 vim-tiny drwxr-xr-x 2 root root 4096 Aug 18 02:30 vlc drwxr-xr-x 2 root root 4096 Aug 17 20:24 vlc-data lrwxrwxrwx 1 root root 7 Nov 2 2015 vlc.dpkg-backup -> vlc-nox drwxr-xr-x 2 root root 4096 Aug 18 02:30 vlc-nox lrwxrwxrwx 1 root root 11 Nov 2 2015 vlc-nox.dpkg-backup -> libvlccore8 drwxr-xr-x 2 root root 4096 Aug 17 20:26 vlc-plugin-notify drwxr-xr-x 2 root root 4096 Aug 17 20:26 vlc-plugin-samba drwxr-xr-x 1 root root 4096 Aug 18 03:19 wine drwxr-xr-x 1 root root 4096 Aug 18 03:19 wine64 drwxr-xr-x 1 root root 4096 Aug 17 21:37 xorg drwxr-xr-x 1 root root 4096 Aug 17 21:37 xserver-xorg drwxr-xr-x 1 root root 4096 Aug 18 02:27 xserver-xorg-core drwxr-xr-x 1 root root 4096 Aug 18 02:27 xserver-xorg-input-evdev drwxr-xr-x 2 root root 4096 Aug 18 02:28 xserver-xorg-input-libinput drwxr-xr-x 1 root root 4096 Aug 18 02:27 xserver-xorg-input-mouse drwxr-xr-x 2 root root 4096 Aug 18 03:32 xserver-xorg-video-amdgpu drwxr-xr-x 1 root root 4096 Aug 18 02:26 xserver-xorg-video-ati drwxr-xr-x 1 root root 4096 Aug 18 02:26 xserver-xorg-video-fbdev drwxr-xr-x 1 root root 4096 Aug 18 02:27 xserver-xorg-video-intel drwxr-xr-x 1 root root 4096 Aug 18 02:26 xserver-xorg-video-nouveau drwxr-xr-x 1 root root 4096 Aug 18 02:26 xserver-xorg-video-qxl drwxr-xr-x 1 root root 4096 Aug 18 02:26 xserver-xorg-video-radeon drwxr-xr-x 1 root root 4096 Aug 18 02:26 xserver-xorg-video-vesa drwxr-xr-x 1 root root 4096 Aug 18 02:26 xserver-xorg-video-vmware -rwxr-xr-x 1 root root 1815 May 6 17:40 zsh -rwxr-xr-x 1 root root 1815 May 6 17:40 zsh-common root@kali:~/Downloads#

lostincynicism 2016-08-18 03:42 reporter ~0005646	I looked at the live partition versus the persistence partition, but the directory hierarchy isn't the same. While the persistence partition has directories such as /usr or /var or /etc, the live partition has the BOOT, EFI, and LIVE directory which containts things like initrd, some c files, and some other images. But they don't have that same directory structure. I could open up those images to look, if you like.

rhertzog 2016-09-02 09:59 administrator ~0005733	Ok, I finally figured out the root problem... it's this bug: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=836211 So it's an annoying limitation of "overlay" (the layering filesystem we use for persistence). There's no clear solution though... the problem will happen every time that a newer package replaces a directory with a file.

rhertzog 2016-09-02 13:16 administrator ~0005737	I have uploade dpkg 1.18.10kali1 with a work-around for this problem. We will keep that dpkg patch until the underlying overlayfs bug is fixed...

Date Modified	Username	Field	Change
2016-08-16 20:17	lostincynicism	New Issue
2016-08-16 20:18	lostincynicism	Note Added: 0005627
2016-08-16 20:50	lostincynicism	Note Added: 0005628
2016-08-17 07:33	rhertzog	Note Added: 0005630
2016-08-17 07:33	rhertzog	Assigned To	=> rhertzog
2016-08-17 07:33	rhertzog	Status	new => feedback
2016-08-17 07:35	rhertzog	Note Added: 0005631
2016-08-17 10:22	rhertzog	Note Added: 0005632
2016-08-17 10:30	harveyUK47	Note Added: 0005633
2016-08-17 12:01	harveyUK47	Note Added: 0005634
2016-08-17 13:04	rhertzog	Note Added: 0005635
2016-08-17 15:25	harveyUK47	Note Added: 0005636
2016-08-17 15:34	lostincynicism	Note Added: 0005637
2016-08-17 15:34	lostincynicism	Status	feedback => assigned
2016-08-17 22:26	lostincynicism	Note Added: 0005642
2016-08-18 03:36	lostincynicism	Note Added: 0005643
2016-08-18 03:37	lostincynicism	Note Added: 0005644
2016-08-18 03:39	lostincynicism	Note Added: 0005645
2016-08-18 03:42	lostincynicism	Note Added: 0005646
2016-09-02 09:59	rhertzog	Note Added: 0005733
2016-09-02 10:00	rhertzog	Status	assigned => confirmed
2016-09-02 10:03	rhertzog	Priority	normal => high
2016-09-02 10:03	rhertzog	Product Version	2016.1 => 2016.2
2016-09-02 10:03	rhertzog	Summary	Gedit binary in gedit package 3.20.2-2_amd64 is corrupt, which causes x to crash => unable to move aside './usr/share/bug/gedit' to install new version: Invalid cross-device link
2016-09-02 10:03	rhertzog	Description Updated
2016-09-02 13:16	rhertzog	Note Added: 0005737
2016-09-02 13:16	rhertzog	Status	confirmed => resolved
2016-09-02 13:16	rhertzog	Fixed in Version	=> 2017.1
2016-09-02 13:16	rhertzog	Resolution	open => fixed
2020-12-01 10:48	g0tmi1k	Priority	high => normal

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