Some of my previously-working flatpak programs (for example Spotify and telegram-desktop) fail to launch after the latest system update done via the GNOME software utility.
When run from the command line, it seems like they’re trying to access the root directory (?)
igor@fedora:~$ flatpak run com.spotify.Client
error: opendir(/): Permission denied
igor@fedora:~$ flatpak run org.telegram.desktop
error: opendir(/): Permission denied
igor@fedora:~$
Why would they need to access the root directory, and why did all of this happen so suddenly? I’ve tried updating, rebooting.
Thanks for any suggestions
The verbose logs of both programs don’t really show anything meaningful. Leaving them in just in case.
igor@fedora:~$ flatpak run -vv org.telegram.desktop
F: No installations directory in /etc/flatpak/installations.d. Skipping
F: Opening system flatpak installation at path /var/lib/flatpak
F: Opening user flatpak installation at path /home/igor/.local/share/flatpak
F: Opening user flatpak installation at path /home/igor/.local/share/flatpak
F: Opening system flatpak installation at path /var/lib/flatpak
F: Opening user flatpak installation at path /home/igor/.local/share/flatpak
F: Opening system flatpak installation at path /var/lib/flatpak
F: /var/lib/flatpak/runtime/org.freedesktop.Platform/x86_64/23.08/8d036b0bd06ae893ffab1149b2fa036b8d0a6c3947906de00e6859f681bd16b0/files/lib32 does not exist
F: Cleaning up unused container id 713180484
F: Cleaning up per-app-ID state for org.telegram.desktop
F: Allocated instance id 4172416647
F: Add defaults in dir /org/telegram/desktop/
F: Add locks in dir /org/telegram/desktop/
F: Trying to export read/write: /run/user/1000/pipewire-0
F: /run is not a symlink
F: /run/user is not a symlink
F: /run/user/1000 is not a symlink
F: /run/user/1000/pipewire-0 is not a symlink
F: Will export read/write: /run/user/1000/pipewire-0
F: Trying to replace with tmpfs: /home/igor/.var/app
F: /home is not a symlink
F: /home/igor is not a symlink
F: /home/igor/.var is not a symlink
F: /home/igor/.var/app is not a symlink
F: Will replace with tmpfs: /home/igor/.var/app
F: Trying to export read/write: /home/igor/.var/app/org.telegram.desktop
F: /home is not a symlink
F: /home/igor is not a symlink
F: /home/igor/.var is not a symlink
F: /home/igor/.var/app is not a symlink
F: /home/igor/.var/app/org.telegram.desktop is not a symlink
F: Will export read/write: /home/igor/.var/app/org.telegram.desktop
F: Trying to replace with tmpfs: /home/igor/.local/share/flatpak
F: /home is not a symlink
F: /home/igor is not a symlink
F: /home/igor/.local is not a symlink
F: /home/igor/.local/share is not a symlink
F: /home/igor/.local/share/flatpak is not a symlink
F: Will replace with tmpfs: /home/igor/.local/share/flatpak
F: Trying to ensure existence of directory: /home/igor
F: /home is not a symlink
F: /home/igor is not a symlink
F: Will ensure existence of directory: /home/igor
F: Converting FlatpakExports to bwrap arguments...
F: "/home/igor" is meant to be a directory
F: Ensuring "/home/igor" is created as a directory
F: "/home/igor/.local/share/flatpak" is meant to be a tmpfs or empty directory
F: Parent of "/home/igor/.local/share/flatpak" is not mapped, creating empty directory
F: "/home/igor/.var/app" is meant to be a tmpfs or empty directory
F: Parent of "/home/igor/.var/app" is not mapped, creating empty directory
F: "/home/igor/.var/app/org.telegram.desktop" is meant to be shared (ro or rw) with the container
F: "/run/user/1000/pipewire-0" is meant to be shared (ro or rw) with the container
F: Allowing wayland access
F: Allowing pulseaudio access
error: opendir(/): Permission denied
igor@fedora:~$ flatpak run -vv com.spotify.Client
F: No installations directory in /etc/flatpak/installations.d. Skipping
F: Opening system flatpak installation at path /var/lib/flatpak
F: Opening user flatpak installation at path /home/igor/.local/share/flatpak
F: Opening user flatpak installation at path /home/igor/.local/share/flatpak
F: Opening system flatpak installation at path /var/lib/flatpak
F: Opening user flatpak installation at path /home/igor/.local/share/flatpak
F: Opening system flatpak installation at path /var/lib/flatpak
F: /var/lib/flatpak/runtime/org.freedesktop.Platform/x86_64/23.08/8d036b0bd06ae893ffab1149b2fa036b8d0a6c3947906de00e6859f681bd16b0/files/lib32 does not exist
F: Cleaning up unused container id 4172416647
F: Cleaning up per-app-ID state for org.telegram.desktop
F: Allocated instance id 2897078083
F: Add defaults in dir /com/spotify/Client/
F: Add locks in dir /com/spotify/Client/
F: Allowing dri access
F: Trying to export read-only: /home/igor/Pictures
F: /home is not a symlink
F: /home/igor is not a symlink
F: /home/igor/Pictures is not a symlink
F: Will export read-only: /home/igor/Pictures
F: Trying to export read-only: /home/igor/Music
F: /home is not a symlink
F: /home/igor is not a symlink
F: /home/igor/Music is not a symlink
F: Will export read-only: /home/igor/Music
F: Trying to replace with tmpfs: /home/igor/.var/app
F: /home is not a symlink
F: /home/igor is not a symlink
F: /home/igor/.var is not a symlink
F: /home/igor/.var/app is not a symlink
F: Will replace with tmpfs: /home/igor/.var/app
F: Trying to export read/write: /home/igor/.var/app/com.spotify.Client
F: /home is not a symlink
F: /home/igor is not a symlink
F: /home/igor/.var is not a symlink
F: /home/igor/.var/app is not a symlink
F: /home/igor/.var/app/com.spotify.Client is not a symlink
F: Will export read/write: /home/igor/.var/app/com.spotify.Client
F: Trying to replace with tmpfs: /home/igor/.local/share/flatpak
F: /home is not a symlink
F: /home/igor is not a symlink
F: /home/igor/.local is not a symlink
F: /home/igor/.local/share is not a symlink
F: /home/igor/.local/share/flatpak is not a symlink
F: Will replace with tmpfs: /home/igor/.local/share/flatpak
F: Trying to ensure existence of directory: /home/igor
F: /home is not a symlink
F: /home/igor is not a symlink
F: Will ensure existence of directory: /home/igor
F: Converting FlatpakExports to bwrap arguments...
F: "/home/igor" is meant to be a directory
F: Ensuring "/home/igor" is created as a directory
F: "/home/igor/.local/share/flatpak" is meant to be a tmpfs or empty directory
F: Parent of "/home/igor/.local/share/flatpak" is not mapped, creating empty directory
F: "/home/igor/.var/app" is meant to be a tmpfs or empty directory
F: Parent of "/home/igor/.var/app" is not mapped, creating empty directory
F: "/home/igor/.var/app/com.spotify.Client" is meant to be shared (ro or rw) with the container
F: "/home/igor/Music" is meant to be shared (ro or rw) with the container
F: "/home/igor/Pictures" is meant to be shared (ro or rw) with the container
F: Allowing x11 access
F: Allowing pulseaudio access
error: opendir(/): Permission denied
igor@fedora:~$
Was the flatpak installed as a user or using sudo?
The flatpaks were installed as a user (myself). I did not run any flatpak-related commands as root, except for sudo flatpak repair trying to fix this mess.
The issue seems to have spread to all of my flatpak apps after a reboot. I cannot launch well, anything now. Every flatpak exhibits the same behavior.
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