Score:0

"dpkg: warning: missing file from the list of files" Everything is missing

ua flag

I asked someone to install some basic stuff in an Ubuntu 20.04.3 server. I'm not an expert, but I know this is a fairly easy task to do, even for someone with little experience dealing with a server.

They successfully installed a couple of the programs needed, but then went back to me telling me that they had trouble installing Apache, which is odd given how straightforward this installation is.

Anyway, I looked into this and was greeted by the warning in the title no matter what I installed/removed.

A lot of the answers online pretty much say to either reinstall the 'missing' packages or to clean apt/dpkg. I tried the latter, since the list of missing package "seemed too long". A couple hours and tries later, I tried reinstalling one of the packages, and it stopped showing up in this warnings.

I settled in reinstalling what it asked me to, so a lot of grep later I ended up with a list of the missing packages.

It's pretty much the entire Operating System, including working programs such as mysql-server and openssh, all the way to login, apt and grub2-common, to desktop packages like nautilus and libre-office. Yes, this is a server. No, I didn't install those.

This tells me there is something very wrong here, but again, I'm fairly new to Linux/Unix altogether to draw this conclusion.

Should I just --reinstall everything in the list or should I try to get deeper into this? The installation is pretty new (It was done February 18th) so I can still just clean the disk and start over. I honestly don't think the person I asked to install stuff could do this. This seems... too deliberate, somehow.

EDIT:

I looked into the list. There are some non-programs in it too. They are /var/lib/dpkg/info/format-new and /var/lib/dpkg/status. I'll try to look for this one particulary in the logs.

Also, in the apt log, I don't see anything pointing me to the package that started this issue, nor a package with GUI. I now know that they tried to install a desktop environment, but don't know how (The basic/core gnome package is not installed, but I see a lot of gnome packages).

EDIT 2:

From /var/log/apt/term.log, I'm interested in every line like the following (original line and an approximate translation)

dpkg: atención: falta el fichero de lista de ficheros del paquete `login', se supondrá que el paquete no tiene ningún fichero actualmente instalado

(dpkg: warning: Missing file from the list of files `login', it will be supposed that the package currently has no installed files)

This is the list of files (some as and ms are missing).

ccountsservice
cl
cpi
cpi-support
user
wit-icon-thee
isleriot
ls-bse
ls-topology-conf
ls-uc-conf
ls-utils
-icrocoe
ncron
pche2
pche2-bin
pche2-t
pche2-utils
pg
ppror
pp-instll-t-prtner
pport
pport-gtk
pport-syptos
ppstre
pt
pt-config-icons
pt-config-icons-hipi
pteon
pteon-t
pturl
pturl-coon
pt-utils
spell
spell-en
t
t-spi2-core
ttr
vhi-utoip
vhi-eon
vhi-utils
bobb
bse-files
bse-pssw
bsh
bsh-copletion
bc
bcche-tools
bin9-nsutils
bin9-host
bin9-libs
bluez
bluez-cups
bluez-obex
bolt
brning-ubuntu
brltty
bsinutils
bsutils
btrfs-progs
bubblewrp
busybox-initrfs
busybox-sttic
byobu
bzip2
c-certifictes
c-certifictes-jv
cheese
cheese-coon
cifs-utils
clou-guest-utils
clou-init
clou-initrfs-copyos
clou-initrfs-yn-netconf
color
color-t
con-not-foun
console-setup
console-setup-linux
coreutils
cpio
cpp
cpp-9
crcklib-runtie
cr
cron
cryptsetup
cryptsetup-bin
cryptsetup-initrfs
cryptsetup-run
cups
cups-browse
cups-bs
cups-client
cups-coon
cups-core-rivers
cups-eon
cups-filters
cups-filters-core-rivers
cups-ipp-utils
cups-pk-helper
cups-ppc
cups-server-coon
curl
sh
bus
bus-user-session
bus-x11
c
conf-cli
conf-gsettings-bcken
conf-service
ebconf
ebconf-i18n
ebinutils
ej-up
esktop-file-utils
ictionries-coon
iffutils
irngr
istro-info
istro-info-t
event
iecoe
setup
z-cursor-thee
nssq-bse
ns-root-t
ocbook-xl
osfstools
pkg
uplicity
e2fsprogs
etyt
e
eject
ecsen-coon
enchnt-2
eog
espek-ng-t
ethtool
evince
evince-coon
evolution-t-server
evolution-t-server-coon
fisk
file
file-roller
finlr
finutils
firefox
fontconfig
fontconfig-config
fonts-beng
fonts-beng-extr
fonts-ejvu-core
fonts-ejvu-extr
fonts-ev
fonts-ev-extr
fonts-roi-fllbck
fonts-freefont-ttf
fonts-grgi
fonts-gubbi
fonts-gujr
fonts-gujr-extr
fonts-guru
fonts-guru-extr
fonts-inic
fonts-kcst
fonts-kcst-one
fonts-klpi
fonts-kheros-core
fonts-kn
fonts-lo
fonts-libertion
fonts-libertion2
fonts-lklug-sinhl
fonts-lohit-beng-ssese
fonts-lohit-beng-bengli
fonts-lohit-ev
fonts-lohit-gujr
fonts-lohit-guru
fonts-lohit-kn
fonts-lohit-ly
fonts-lohit-ory
fonts-lohit-tl
fonts-lohit-tl-clssicl
fonts-lohit-telu
fonts-ly
fonts-nkul
fonts-nvilu
fonts-noto-cjk
fonts-noto-color-eoji
fonts-noto-ono
fonts-opensybol
fonts-ory
fonts-ory-extr
fonts-pgul
fonts-shev
fonts-syk-ev
fonts-syk-gujr
fonts-syk-ly
fonts-syk-tl
fonts-sri
fonts-sil-byssinic
fonts-sil-puk
fonts-sc
fonts-sc-njliollipi
fonts-sc-chilnk
fonts-sc-yuthi
fonts-sc-gythri
fonts-sc-krubi
fonts-sc-kerleey
fonts-sc-njri
fonts-sc-eer
fonts-sc-rchn
fonts-sc-rghulylsns
fonts-sc-suru
fonts-sc-uroob
fonts-tl
fonts-telu
fonts-telu-extr
fonts-thi-tlwg
fonts-tibetn-chine
fonts-tlwg-gru
fonts-tlwg-gru-ttf
fonts-tlwg-kinnri
fonts-tlwg-kinnri-ttf
fonts-tlwg-lksn
fonts-tlwg-lksn-ttf
fonts-tlwg-lo
fonts-tlwg-lo-ttf
fonts-tlwg-ono
fonts-tlwg-ono-ttf
fonts-tlwg-norsi
fonts-tlwg-norsi-ttf
fonts-tlwg-puris
fonts-tlwg-puris-ttf
fonts-tlwg-swsee
fonts-tlwg-swsee-ttf
fonts-tlwg-typewriter
fonts-tlwg-typewriter-ttf
fonts-tlwg-typist
fonts-tlwg-typist-ttf
fonts-tlwg-typo
fonts-tlwg-typo-ttf
fonts-tlwg-upush
fonts-tlwg-upush-ttf
fonts-tlwg-wree
fonts-tlwg-wree-ttf
fonts-ubuntu
fonts-ubuntu-console
fonts-urw-bse35
fonts-yrs-rs
footic-b-copresse-pps
fprint
frienly-recovery
ftp
fuse
fwup
fwup-signe
geoe
gwk
gcc-10-bse
gcc-9-bse
gcr
gb
gbserver
gisk
g3
geit
geit-coon
genisoige
geoclue-2.0
gettext-bse
ghostscript
ghostscript-x
gir1.2-ccountsservice-1.0
gir1.2-tk-1.0
gir1.2-tspi-2.0
gir1.2-clutter-1.0
gir1.2-clutter-gst-3.0
gir1.2-cogl-1.0
gir1.2-coglpngo-1.0
gir1.2-busenu-glib-0.
gir1.2-ee-1.0
gir1.2-freeesktop
gir1.2-gck-1
gir1.2-gcr-3
gir1.2-gesktopenus-3.0
gir1.2-gkpixbuf-2.0
gir1.2-g-1.0
gir1.2-geoclue-2.0
gir1.2-glib-2.0
gir1.2-genu-3.0
gir1.2-gnoebluetooth-1.0
gir1.2-gnoeesktop-3.0
gir1.2-go-1.0
gir1.2-grphene-1.0
gir1.2-gst-plugins-bse-1.0
gir1.2-gstreer-1.0
gir1.2-gtk-3.0
gir1.2-gtkclutter-1.0
gir1.2-gtksource-
gir1.2-guev-1.0
gir1.2-gwether-3.0
gir1.2-ibus-1.0
gir1.2-jvscriptcoregtk-.0
gir1.2-json-1.0
gir1.2-utter-
gir1.2-n-1.0
gir1.2-n-1.0
gir1.2-notify-0.7
gir1.2-pckgekitglib-1.0
gir1.2-pngo-1.0
gir1.2-pes-1.0
gir1.2-polkit-1.0
gir1.2-rb-3.0
gir1.2-rsvg-2.0
gir1.2-secret-1
gir1.2-snp-1
gir1.2-soup-2.
gir1.2-tote-1.0
gir1.2-toteplprser-1.0
gir1.2-uisks-2.0
gir1.2-unity-5.0
gir1.2-upowerglib-1.0
gir1.2-vte-2.91
gir1.2-webkit2-.0
gir1.2-wnck-3.0
git
git-n
gjs
gkb-cpplet
glib-networking
glib-networking-coon
glib-networking-services
gnoe-ccessibility-thees
gnoe-bluetooth
gnoe-clcultor
gnoe-clenr
gnoe-chrcters
gnoe-control-center
gnoe-control-center-t
gnoe-control-center-fces
gnoe-esktop3-t
gnoe-isk-utility
gnoe-font-viewer
gnoe-getting-strte-ocs
gnoe-initil-setup
gnoe-keyring
gnoe-keyring-pkcs11
gnoe-logs
gnoe-hjongg
gnoe-enus
gnoe-ines
gnoe-online-ccounts
gnoe-power-nger
gnoe-screenshot
gnoe-session-bin
gnoe-session-cnberr
gnoe-session-coon
gnoe-settings-eon
gnoe-settings-eon-coon
gnoe-shell
gnoe-shell-coon
gnoe-shell-extension-ppinictor
gnoe-shell-extension-esktop-icons
gnoe-shell-extension-ubuntu-ock
gnoe-strtup-pplictions
gnoe-suoku
gnoe-syste-onitor
gnoe-terinl
gnoe-terinl-t
gnoe-thees-extr
gnoe-thees-extr-t
gnoe-too
gnoe-too-coon
gnoe-user-ocs
gnoe-vieo-effects
gnupg
gnupg-l10n
gnupg-utils
gpg
gpg-gent
gpgconf
gpgs
gpgv
gpg-wks-client
gpg-wks-server
grep
grilo-plugins-0.3-bse
groff-bse
grub2-coon
grub-coon
grub-gfxpylo-lists
grub-pc
grub-pc-bin
gsettings-esktop-sches
gsettings-ubuntu-sches
gstreer1.0-ls
gstreer1.0-clutter-3.0
gstreer1.0-gl
gstreer1.0-gtk3
gstreer1.0-pckgekit
gstreer1.0-plugins-bse
gstreer1.0-plugins-bse-pps
gstreer1.0-plugins-goo
gstreer1.0-pulseuio
gstreer1.0-tools
gstreer1.0-x
gtk2-engines-urrine
gtk2-engines-pixbuf
gtk-upte-icon-cche
guile-2.2-libs
gvfs
gvfs-bckens
gvfs-bin
gvfs-coon
gvfs-eons
gvfs-fuse
gvfs-libs
gzip
hpr
hicolor-icon-thee
hostne
hplip
hplip-t
htop
hunity-icon-thee
hunspell-en-us
ibus
ibus-t
ibus-gtk3
ibus-gtk
ibus-tble
ibverbs-proviers
iio-sensor-proxy
i-config
info
init
initrfs-tools
initrfs-tools-bin
initrfs-tools-core
init-syste-helpers
inputttch
instll-info
intel-icrocoe
ippusbx
iproute2
iptbles
iputils-ping
iputils-trcepth
irqblnce
isc-hcp-client
isc-hcp-coon
iso-coes
iucoe-tool
iw
jv-coon
kb
kerneloops
keybor-configurtion
klibc-utils
ko
kprtx
krb5-locles
lnscpe-coon
lnguge-selector-coon
lnguge-selector-gnoe
lptop-etect
less
lib1
libbw-0.1-1
libccountsservice0
libcl1
libio1
libtk-5-0
libtk-5-coon
libo
libo-coon
libppror1
libppinictor3-1
libppstre
libpr1
libprutil1
libprutil1-b-sqlite3
libprutil1-lp
libpt-pkg.0
librchive13
librgon2-1
libsn1-8-heil
libsoun2
libsoun2-t
libsoun2-plugins
libspell15
libssun0
libsyncns0
libtsrt
libtk1.0-0
libtk1.0-t
libtk-ptor
libtk-brige2.0-0
libtk-1.-1v5
libtk-wrpper-jv
libtk-wrpper-jv-jni
libt1
libtopology2
libtspi2.0-0
libttr1
libuit1
libuit-coon
libuthen-ssl-perl
libvhi-client3
libvhi-coon3
libvhi-coon-t
libvhi-core7
libvhi-glib1
libvhi-ui-gtk3-0
libvc139-0
libbbeltrce1
libblki1
libblockev2
libblockev-crypto2
libblockev-fs2
libblockev-loop2
libblockev-prt2
libblockev-prt-err2
libblockev-swp2
libblockev-utils2
libbluetooth3
libboost-te-tie1.71.0
libboost-filesyste1.71.0
libboost-iostres1.71.0
libboost-locle1.71.0
libboost-thre1.71.0
libbrlpi0.7
libbrotli1
libbs0
libbz2-1.0
libc
libc-bg
libcc0
libciro2
libciro-gobject2
libciro-gobject-perl
libciro-1.0-1v5
libciro-perl
libcel-1.2-2
libcnberr0
libcnberr-gtk3-0
libcnberr-gtk3-oule
libcnberr-pulse
libcp2
libcp2-bin
libcp-ng0
libc-bin
libcbor0.
libcc1-0
libcio18
libcio-c2
libcio-prnoi2
libcprnoi0
libcr-0.1-1
libcephfs2
libcgi-fst-perl
libcgi-p-perl
libcheese8
libcheese-gtk25
libclucene-contribs1v5
libclucene-core1v5
libclutter-1.0-0
libclutter-1.0-coon
libclutter-gst-3.0-0
libclutter-gtk-1.0-0
libcis-0.5-5v5
libcogl20
libcogl-coon
libcogl-pngo20
libcogl-pth20
libcol2
libcolor2
libcolor-gtk1
libcolorhug2
libco-err2
libcrck2
libcrypt1
libcryptsetup12
libcue2
libcups2
libcupsfilters1
libcupsige2
libcurl3-gnutls
libcurl
libeon0
libt-up-perl
libtrie1
libzzle-1.0-0
libb5.3
libbus-1-3
libbus-glib-1-2
libbusenu-glib
libbusenu-gtk3-
libconf1
libebconfclient0
libee-1.0-
libevpper1.02.1
libevpper-event1.02.1
libjvulibre21
libjvulibre-text
libpshring-3.0-2
libns-export1109
libotconf0
libpkg-perl
libr2
libr-gpu1
libr-coon
libr-intel1
libr-nouveu2
libr-reon1
libv
libw1
libetyt1
libebcken-1.2-10
libe-book-0.1-1
libebook-1.2-20
libebook-contcts-1.2-3
libecl-2.0-1
libet-book-1.2-2
libet-cl-2.0-1
libetserver-1.2-2
libetserverui-1.2-2
libeit2
libefiboot1
libefivr1
libegl1
libegl-es0
libelf1
libenchnt-2-2
libencoe-locle-perl
libeot0
libepoxy0
libepubgen-0.1-1
liberror-perl
libespek-ng1
libestr0
libetonyek-0.1-1
libevev2
libevocuent3-
libevent-2.1-7
libevent-core-2.1-7
libevent-pthres-2.1-7
libevview3-3
libexepi8
libexif12
libexiv2-27
libexpt1
libext2fs2
libexttextct-2.0-0
libexttextct-t
libextutils-epens-perl
libextutils-pkgconfig-perl
libfstjson
libfcgi-perl
libfisk1
libffi7
libfftw3-single3
libfio2-1
libfile-bseir-perl
libfile-esktopentry-perl
libfile-fcntllock-perl
libfile-listing-perl
libfile-ieinfo-perl
libfl2
libflc8
libfont-f-perl
libfontconfig1
libfontebe1
libfontenc1
libfprint-2-2
libfprint-2-to1
libfreehn-0.1-1
libfreerp2-2
libfreerp-client2-2
libfreetype
libfribii0
libfuse2
libfwup2
libfwupplugin1
libgil18
libgil-coon
libgeoe0
libgeoeuto0
libgb1
libgc1c2
libgcb-1.0-0
libgcc-s1
libgck-1-0
libgcr-bse-3-1
libgcr-ui-3-1
libgcrypt20
libg3
libgt22
libgt-coon
libgb
libgb-copt
libgk-pixbuf2.0-0
libgk-pixbuf2.0-bin
libgk-pixbuf2.0-coon
libg1
libgee-0.8-2
libgeoclue-2-0
libgeocoe-glib0
libgexiv2-2
libgif7
libgirepository-1.0-1
libgjs0g
libgl1
libgl1-es-ri
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libglpi-es
libgles2
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libglib-2.-1v5
libglib-object-introspection-perl
libglib-perl
libglu1-es
libglvn0
libglx0
libglx-es0
libgp10
libgnoe-utor-0-0
libgnoe-bluetooth13
libgnoe-esktop-3-19
libgnoe-ges-support-1-3
libgnoe-ges-support-coon
libgnoekb8
libgnoekb-coon
libgnoe-enu-3-0
libgnoe-too
libgnutls30
libgo-1.0-0b
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libgo-bcken-1.0-1
libgo-1.0-0
libgop1
libgpg-error0
libgpge11
libgpgepp
libgphoto2-
libgphoto2-l10n
libgphoto2-port12
libgp2
libgpo
libgpo-coon
libgrphene-1.0-0
libgrphite2-3
libgrilo-0.3-0
libgs9
libgs9-coon
libgsf-1-11
libgsf-1-coon
libgsoun0
libgspell-1-2
libgspell-1-coon
libgsspi3-heil
libgsspi-krb5-2
libgssp-1.2-0
libgstreer1.0-0
libgstreer-gl1.0-0
libgstreer-plugins-bse1.0-0
libgstreer-plugins-goo1.0-0
libgtk2.0-0
libgtk2.0-bin
libgtk2.0-coon
libgtk-3-0
libgtk-3-bin
libgtk-3-coon
libgtk3-perl
libgtk-3.0-1v5
libgtksourceview--0
libgtksourceview--coon
libgtop-2.0-11
libgtop2-coon
libguev-1.0-0
libgupnp-1.2-0
libgupnp-v-1.0-2
libgupnp-ln-2.0-3
libgusb2
libgwether-3-1
libgwether-coon
libgxps2
libhny-0.0-0
libhrfbuzz0b
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libhcrypto-heil
libheibse1-heil
libheintl0-heil
libhogwee5
libhpu0
libhtl-fort-perl
libhtl-for-perl
libhtl-prser-perl
libhtl-tgset-perl
libhtl-teplte-perl
libhtl-tree-perl
libhttp-cookies-perl
libhttp-eon-perl
libhttp-te-perl
libhttp-essge-perl
libhttp-negotite-perl
libhunspell-1.7-0
libhx509-5-heil
libhyphen0
libibus-1.0-5
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libin11
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libiec1883-0
libieee128-3
libijs-0.35
libigequnt0
libiobileevice
libinput10
libinput-bin
libio-htl-perl
libio-socket-ssl-perl
libio-stringy-perl
libiptc2
libiptc2
libipc-syste-siple-perl
libisc-export1105
libisl22
libisns0
libiw30
libjck-jck2-0
libjnsson
libjvscriptcoregtk-.0-18
libjbig0
libjbig2ec0
libjct1
libjpeg8
libjpeg-turbo8
libjson-c
libjson-glib-1.0-0
libjson-glib-1.0-coon
libjuh-jv
libjurt-jv
libk5crypto3
libkeyutils1
libklibc
libko2
libkpthse
libkrb5-2-heil
libkrb5-3
libkrb5support0
libksb8
liblngtg1
liblngtg-coon
liblcs2-2
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liblp-2.-2
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libllv12
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liblb0
liblocle-gettext-perl
liblouis20
liblouis-t
liblouisutl9
liblouisutl-bin
liblouisutl-t
libltl7
liblu5.2-0
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liblv2c2.03
liblwp-eitypes-perl
liblwp-protocol-https-perl
liblz-1
liblz5
liblzo2-2
libgic1
libgic-gc
libiltools-perl
libxinb0
libbi-glib
libbi-proxy
libecb2
libeirt-2.0-0
libessging-enu0
libhsh2
libiniupnpc17
lib-glib0
libnl0
libount1
libozjs-8-0
libp3le0
libpc3
libpec2
libpfr
libpg123-0
libspck0
libspub-0.1-1
libtev1
libtp9
libtp-coon
libtp-runtie
libutter--0
libww-0.3-3
libysqlclient21
libythes-1.2-0
libntpp1
libnutilus-extension1
libncurses
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I got it by piping the following commands:

$ touch base
$ touch clean
$ sudo cat /var/log/apt/term.log > base
$ grep dpkg: base | grep -Po "[^'\n ]+'" | tr -d '`' | tr -d "'" | tr -d ":amd64" | sort -u > clean

EDIT 3:

I've been purging a lot of packages after finding out that someone did try to install a DE. While a found a lot of head-scracthers checking packages, I finally understand that the errors source come from the fact that there are a lot of missing files in the /var/lib/dpkg/info directory. Every file reported in the logs I fetched are not in said directory, and those that I reinstalled while purging the GUI packages have list and .md5sums files (At least). I guess that now the real question is how to "rebuild" this directory, given that the server is working as expected so far.

user535733 avatar
cn flag
Don't summarize or describe the input and output. Show us actual input and output. The detail that you are summarizing away is the detail we need to see.
Jetto Martínez avatar
ua flag
I'm sorry, if you refer to the list of files/packages, I didn't add it because it has 1700+ lines. I'm not sure what's the best way to post a file that long. I will just paste it.
David avatar
cn flag
Time to re install from scratch. With the things you have been doing, the little described you have quite a mess.
Jetto Martínez avatar
ua flag
I actually managed to "save" it. I will post the answer to this particular problem (Since that solution led me to another whole topic that took half day to solve), but I will re install if there is any weird behavior again.
Score:0
ua flag

tl;dr: Reinstall whatever packages throw a warning. For an "automated" way to do things, see commands below.

I managed to fix the issue about the warnings. This resulted in a number of different problems like missing libraries and failures to install other packages like grub and python. I believe this is due to my particular circumstances about removing all I could that is related to a GUI, but is important to mention it.

The source of the warnings is the missing files under /var/lib/dpkg/info. I confirmed this by reinstalling something and checking whether or not any file related to the package appeared in this directory. Files were created and the warnings now didn't include the reinstalled package, so that's the solution for the warnings.

I ran the following to fetch a list of the packages reported in the logs:

$ touch base
$ touch clean
$ sudo cat /var/log/apt/term.log > base
$ cat base | grep "dpkg: <<message of the problem in the SO's language>>" | grep -Po "[^'\n ]+'" | tr -d '`' | tr -d "'" | cut -f1 -d":" | sort -u > clean

Because I wanted to check more things in the log, I kept base. If you have no use to a copy of the log, pipe directly from /var/log/apt/term.log/.

Also, I recommend checking the list in clean and deleting any package you know you don't have (ie, you uninstalled that package anyway, so the warning is meaningless now). I did this as well since packages from gnome where included in this list and I didn't want installed again.

To reinstall the packages, I used this small script

for package in $(cat $1) ; do
    apt install --reinstall $package
done

calling it like sudo ./script.sh clean. This can be optimized a lot, but it is as good as I can do right now.

This will take time since it's doing the apt install one by one (For the machine where this happened, it took over 3 hours). After it's done, different problems might arise.

Also, I would only recommend this if the number of packages is small. In my case, I cleaned over 300 packages from the list, but still had to install a lot. I also only attempted to "fix" this since I have no information in this machine and I have no problems reinstalling the whole SO again. If you run this in a machine with important information, back it up.

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