Bug 1216226 - Flatpak fails to install correctly and launch (permission denied)
Summary: Flatpak fails to install correctly and launch (permission denied)
Status: RESOLVED FIXED
Alias: None
Product: openSUSE Kalpa
Classification: openSUSE
Component: Flatpak (show other bugs)
Version: Current
Hardware: x86-64 Other
: P4 - Low : Normal
Target Milestone: ---
Assignee: Natasha Ament
QA Contact: E-mail List
URL:
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Depends on:
Blocks:
 
Reported: 2023-10-13 19:19 UTC by ceruleanix
Modified: 2023-10-16 14:11 UTC (History)
2 users (show)

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Found By: ---
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Blocker: ---
Marketing QA Status: ---
IT Deployment: ---

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Description ceruleanix 2023-10-13 19:19:12 UTC 
Trying to run any application installed with flatpak, with:

"flatpak run org.app.name"

returns

"bwrap: execvp ldconfig: Permission denied
error: ldconfig failed, exit status 256"

I've tried this both on bare metal and in a VM, with and without SELinux.
In all cases, the error persists. Said error also appears when installing any application, but the apps install "correctly" anyway.
This appears to be a Kalpa-only issue.
Comment 1 ceruleanix 2023-10-13 19:26:33 UTC 
additional logs:

Oct 12 20:10:35 localhost.localdomain systemd[1206]: Starting flatpak document portal service...
Oct 12 20:10:35 localhost.localdomain systemd[1206]: Started flatpak document portal service.
Oct 12 18:11:14 localhost.localdomain systemd[1206]: Started app-flatpak-org.freedesktop.Platform.openh264-1912.scope.
Oct 12 18:12:14 localhost.localdomain flatpak[2161]: libostree pull from 'flathub' for runtime/org.freedesktop.Platform.openh264/x86_64/2.2.0 complete
Oct 12 18:12:15 localhost.localdomain flatpak[2161]: user: Pulled runtime/org.freedesktop.Platform.openh264/x86_64/2.2.0 from flathub
Oct 12 18:12:15 localhost.localdomain systemd[1206]: Started app-flatpak-org.freedesktop.Platform.openh264-2161.scope.
Oct 12 18:12:15 localhost.localdomain flatpak[2161]: libostree pull from 'flathub' for app/org.kde.ark/x86_64/stable complete
Oct 12 18:12:15 localhost.localdomain flatpak[2161]: user: Pulled app/org.kde.ark/x86_64/stable from flathub
Oct 12 18:12:16 localhost.localdomain flatpak[2161]: user: Updated app/org.kde.ark/x86_64/stable from flathub
Oct 12 18:12:27 localhost.localdomain systemd[1206]: app-flatpak-org.freedesktop.Platform.openh264-1912.scope: Consumed 1.987s CPU time.
Oct 12 18:13:53 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/net.lutris.Lutris.Locale/x86_64/stable complete
Oct 12 18:13:53 localhost.localdomain flatpak[2262]: user: Pulled runtime/net.lutris.Lutris.Locale/x86_64/stable from flathub
Oct 12 18:13:53 localhost.localdomain flatpak[2262]: user: Installed runtime/net.lutris.Lutris.Locale/x86_64/stable from flathub
Oct 12 18:13:55 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.freedesktop.Platform.GL.default/x86_64/23.08 complete
Oct 12 18:13:56 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.freedesktop.Platform.GL.default/x86_64/23.08 from flathub
Oct 12 18:13:56 localhost.localdomain flatpak[2262]: user: Installed runtime/org.freedesktop.Platform.GL.default/x86_64/23.08 from flathub
Oct 12 18:13:56 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.freedesktop.Platform.GL.default/x86_64/23.08-extra complete
Oct 12 18:13:56 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.freedesktop.Platform.GL.default/x86_64/23.08-extra from flathub
Oct 12 18:13:56 localhost.localdomain flatpak[2262]: user: Installed runtime/org.freedesktop.Platform.GL.default/x86_64/23.08-extra from flathub
Oct 12 18:13:58 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.freedesktop.Platform.GL32.default/x86_64/23.08 complete
Oct 12 18:13:59 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.freedesktop.Platform.GL32.default/x86_64/23.08 from flathub
Oct 12 18:13:59 localhost.localdomain flatpak[2262]: user: Installed runtime/org.freedesktop.Platform.GL32.default/x86_64/23.08 from flathub
Oct 12 18:13:59 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.freedesktop.Platform.ffmpeg-full/x86_64/23.08 complete
Oct 12 18:13:59 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.freedesktop.Platform.ffmpeg-full/x86_64/23.08 from flathub
Oct 12 18:13:59 localhost.localdomain flatpak[2262]: user: Installed runtime/org.freedesktop.Platform.ffmpeg-full/x86_64/23.08 from flathub
Oct 12 18:14:00 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.freedesktop.Platform.ffmpeg_full.i386/x86_64/23.08 complete
Oct 12 18:14:00 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.freedesktop.Platform.ffmpeg_full.i386/x86_64/23.08 from flathub
Oct 12 18:14:00 localhost.localdomain flatpak[2262]: user: Installed runtime/org.freedesktop.Platform.ffmpeg_full.i386/x86_64/23.08 from flathub
Oct 12 18:14:00 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.freedesktop.Platform.openh264/x86_64/2.2.0 complete
Oct 12 18:14:00 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.freedesktop.Platform.openh264/x86_64/2.2.0 from flathub
Oct 12 18:14:00 localhost.localdomain systemd[1206]: Started app-flatpak-org.freedesktop.Platform.openh264-2262.scope.
Oct 12 18:14:05 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.gnome.Platform.Compat.i386/x86_64/45 complete
Oct 12 18:14:07 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.gnome.Platform.Compat.i386/x86_64/45 from flathub
Oct 12 18:14:07 localhost.localdomain flatpak[2262]: user: Installed runtime/org.gnome.Platform.Compat.i386/x86_64/45 from flathub
Oct 12 18:14:07 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.gnome.Platform.Locale/x86_64/45 complete
Oct 12 18:14:07 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.gnome.Platform.Locale/x86_64/45 from flathub
Oct 12 18:14:07 localhost.localdomain flatpak[2262]: user: Installed runtime/org.gnome.Platform.Locale/x86_64/45 from flathub
Oct 12 18:14:15 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.gnome.Platform/x86_64/45 complete
Oct 12 18:14:18 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.gnome.Platform/x86_64/45 from flathub
Oct 12 18:14:19 localhost.localdomain flatpak[2262]: user: Installed runtime/org.gnome.Platform/x86_64/45 from flathub
Oct 12 18:14:19 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.winehq.Wine.DLLs.dxvk/x86_64/stable-23.08 complete
Oct 12 18:14:19 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.winehq.Wine.DLLs.dxvk/x86_64/stable-23.08 from flathub
Oct 12 18:14:19 localhost.localdomain flatpak[2262]: user: Installed runtime/org.winehq.Wine.DLLs.dxvk/x86_64/stable-23.08 from flathub
Oct 12 18:14:20 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.winehq.Wine.gecko/x86_64/stable-23.08 complete
Oct 12 18:14:20 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.winehq.Wine.gecko/x86_64/stable-23.08 from flathub
Oct 12 18:14:20 localhost.localdomain flatpak[2262]: user: Installed runtime/org.winehq.Wine.gecko/x86_64/stable-23.08 from flathub
Oct 12 18:14:22 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for runtime/org.winehq.Wine.mono/x86_64/stable-23.08 complete
Oct 12 18:14:24 localhost.localdomain flatpak[2262]: user: Pulled runtime/org.winehq.Wine.mono/x86_64/stable-23.08 from flathub
Oct 12 18:14:24 localhost.localdomain flatpak[2262]: user: Installed runtime/org.winehq.Wine.mono/x86_64/stable-23.08 from flathub
Oct 12 18:14:26 localhost.localdomain plasmashell[1487]: kf.config.core: Access to ' "/home/micro/.local/share/flatpak/exports/share/applications/org.mozilla.firefox.desktop" ' denied, not owned by root and executable flag not set.
Oct 12 18:14:32 localhost.localdomain flatpak[2262]: libostree pull from 'flathub' for app/net.lutris.Lutris/x86_64/stable complete
Oct 12 18:14:35 localhost.localdomain flatpak[2262]: user: Pulled app/net.lutris.Lutris/x86_64/stable from flathub
Oct 12 18:14:36 localhost.localdomain flatpak[2262]: user: Installed app/net.lutris.Lutris/x86_64/stable from flathub
Oct 12 18:14:36 localhost.localdomain systemd[1206]: app-flatpak-org.freedesktop.Platform.openh264-2262.scope: Consumed 32.263s CPU time.
Oct 12 18:16:13 localhost.localdomain sudo[2756]:    micro : TTY=pts/1 ; PWD=/home/micro ; USER=root ; COMMAND=/usr/bin/flatpak
Oct 12 18:16:17 localhost.localdomain sudo[2761]:    micro : TTY=pts/1 ; PWD=/home/micro ; USER=root ; COMMAND=/usr/bin/flatpak install lutris
Oct 12 18:16:21 localhost.localdomain sudo[2776]:    micro : TTY=pts/1 ; PWD=/home/micro ; USER=root ; COMMAND=/usr/bin/flatpak update
Oct 12 18:16:37 localhost.localdomain flatpak[2805]: libostree pull from 'flathub' for runtime/org.freedesktop.Platform.openh264/x86_64/2.2.0 complete
Oct 12 18:16:38 localhost.localdomain flatpak[2805]: user: Pulled runtime/org.freedesktop.Platform.openh264/x86_64/2.2.0 from flathub
Oct 12 18:16:38 localhost.localdomain systemd[1206]: Started app-flatpak-org.freedesktop.Platform.openh264-2805.scope.
Oct 12 18:17:25 localhost.localdomain sudo[2855]:    micro : TTY=pts/1 ; PWD=/home/micro ; USER=root ; COMMAND=/usr/sbin/transactional-update pkg remove flatpak
Oct 12 18:17:41 localhost.localdomain sudo[3124]:    micro : TTY=pts/1 ; PWD=/home/micro ; USER=root ; COMMAND=/usr/sbin/transactional-update pkg install flatpak
Oct 12 18:18:17 localhost.localdomain sudo[3465]:    micro : TTY=pts/1 ; PWD=/home/micro ; USER=root ; COMMAND=/usr/sbin/transactional-update pkg search flatpak
Oct 12 18:19:04 localhost.localdomain sudo[3523]:    micro : TTY=pts/1 ; PWD=/home/micro ; USER=root ; COMMAND=/usr/sbin/transactional-update pkg install flatpak flatpak-remote-flathub
Oct 12 18:19:17 localhost.localdomain flatpak[3976]: libostree pull from 'flathub' for runtime/org.freedesktop.Platform.openh264/x86_64/2.2.0 complete
Oct 12 18:19:18 localhost.localdomain flatpak[3976]: user: Pulled runtime/org.freedesktop.Platform.openh264/x86_64/2.2.0 from flathub
Oct 12 18:19:18 localhost.localdomain systemd[1206]: Started app-flatpak-org.freedesktop.Platform.openh264-3976.scope.
Oct 12 18:19:23 localhost.localdomain systemd[1206]: app-flatpak-org.freedesktop.Platform.openh264-3976.scope: Consumed 2.609s CPU time.
Oct 12 18:19:56 localhost.localdomain sudo[4088]:    micro : TTY=pts/1 ; PWD=/home/micro ; USER=root ; COMMAND=/usr/bin/flatpak repair
Comment 2 Shawn Dunn 2023-10-15 16:19:10 UTC 
I cannot reproduce this bug, on any of my kalpa installations, bare metal or vm.
Comment 3 Natasha Ament 2023-10-15 16:24:43 UTC 
Picking this up in agreement with sfalken
Comment 4 Natasha Ament 2023-10-15 16:27:38 UTC 
Hi, 

I unfortunately cannot reproduce this bug either (org.kde.kpat). Possibly something tainted flatpak. If you try to do a new VM install and retry you should get no errors and it just works.
Comment 5 Natasha Ament 2023-10-15 16:28:14 UTC 
Will set this to needinfo for now.
Comment 6 ceruleanix 2023-10-16 14:11:58 UTC 
(In reply to Natasha Ament from comment #5)
> Will set this to needinfo for now.

SOLVED: You were right, it was a tainted install: i had disabled SELinux because it broke things when i was on Tumbleweed, but apparently it's required by MOS.