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#1 2026-08-02 01:11:11

lexan
Member
Registered: 2011-06-15
Posts: 68

Flatpak: Warning: Error pulling from repo: While pulling runtime

I migrated my installation to a larger SSD and since then, I've been having trouble installing/updating some apps using KDE Discover/flatpak. Could this have anything to do with TLS/SSL certificates not being valid from the system migration?

$ flatpak repair --user
Working on the user installation at /home/billy/.local/share/flatpak
Checking remotes...
Pruning objects
$ flatpak update
Looking for updates…


        ID                                                  Branch              Op         Remote          Download
 1. [✗] org.freedesktop.Platform.Compat.i386                25.08               i          flathub           1.7 MB / 127.1 MB
 2. [✗] org.freedesktop.Platform.GL.default                 25.08               i          flathub           1.0 kB / 143.9 MB
 3. [✗] org.freedesktop.Platform.GL.default                 25.08-extra         u          flathub           4.1 MB / 144.0 MB
 4. [✗] org.freedesktop.Platform.GL32.default               25.08               u          flathub           5.7 MB / 153.7 MB
 5. [✗] org.freedesktop.Platform.GL32.default               25.08-extra         u          flathub           5.7 MB / 153.8 MB
 6. [✗] org.freedesktop.Platform.Locale                     25.08               u          flathub           2.0 MB / 379.4 MB
 7. [✗] org.freedesktop.Platform.VAAPI.Intel                25.08               u          flathub           4.3 kB / 14.0 MB
 8. [✗] org.freedesktop.Platform.codecs-extra               25.08-extra         u          flathub         418.3 kB / 14.4 MB
 9. [✗] org.freedesktop.Platform.codecs_extra.i386          25.08-extra         u          flathub         402.7 kB / 13.6 MB
10. [✓] org.gnome.Platform.Locale                           49                  u          flathub          36.6 MB / 386.2 MB
11. [✗] org.gnome.Platform                                  49                  u          flathub          28.5 MB / 409.2 MB
12. [✗] org.freedesktop.Platform                            25.08               u          flathub           3.6 MB / 253.4 MB
13. [✓] org.kde.Platform.Locale                             6.11                u          flathub           4.6 MB / 401.6 MB
14. [✗] org.kde.Platform                                    6.11                u          flathub           6.2 MB / 405.5 MB


Warning: Error pulling from repo: While pulling runtime/org.freedesktop.Platform.Compat.i386/x86_64/25.08 from remote flathub: Opening content object
Warning: Error pulling from repo: While pulling runtime/org.freedesktop.Platform.GL.default/x86_64/25.08-extra from remote flathub: Opening content object
Warning: Error pulling from repo: While pulling runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08 from remote flathub: Opening content object
....

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#2 2026-08-02 04:25:20

5hridhyan
Member
Registered: 2025-12-25
Posts: 1,113

Re: Flatpak: Warning: Error pulling from repo: While pulling runtime

system-level Flatpak runtimes are often where shared dependencies live...

sudo flatpak repair
flatpak repair --user

you can also use --verbose flag

If flatpak repair doesn't clear the issue, corrupt object files in the local OSTree repo might be blocking downloads? try finding those and delete zero-byte object files

find ~/.local/share/flatpak/repo/objects/ -type f -empty -delete
# find /var/lib/flatpak/repo/objects/ -type f -empty -delete

As a last resort, back up and recreate the local Flatpak repo

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#3 2026-08-02 19:13:07

lexan
Member
Registered: 2011-06-15
Posts: 68

Re: Flatpak: Warning: Error pulling from repo: While pulling runtime

`flatpak repair` and deleting zero-byte objects didn't clear the issue. Re-installing my flatpak apps worked for some apps, but not all; I'm still running into this issue.

Below, I raw sudo flatpak --verbose update:

$ sudo flatpak --verbose update
[sudo] password for billy:
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 /root/.local/share/flatpak
Looking for updates…
F: Fetching summary index file for remote ‘flathub’
F: Loading https://dl.flathub.org/repo/summary.idx using curl
F: Received 10001 bytes
F: Loaded indexed summary file e4374c20b49092ed4a43ba7b276440365ecc5ea7170b356acbb9d47cba52372a from cache for remote ‘flathub’
F: Transaction: update flathub:app/com.chatterino.chatterino/x86_64/stable[*]
F: Transaction: update flathub:app/com.seafile.Client/x86_64/stable[*]
F: Transaction: update flathub:app/com.spotify.Client/x86_64/stable[*]
F: Transaction: update flathub:app/com.usebottles.bottles/x86_64/stable[*]
F: Transaction: update flathub:app/org.fedoraproject.MediaWriter/x86_64/stable[*]
F: Transaction: update flathub:app/org.upscayl.Upscayl/x86_64/stable[*]
F: Transaction: update flathub:runtime/com.seafile.Client.Locale/x86_64/stable[*]
F: Transaction: update flathub:runtime/com.usebottles.bottles.Locale/x86_64/stable[*]
F: Transaction: update flathub:runtime/org.freedesktop.Platform.GL.nvidia-610-43-03/x86_64/1.4[*]
F: Transaction: update flathub:runtime/org.freedesktop.Platform.GL32.nvidia-610-43-03/x86_64/1.4[*]
F: Transaction: update flathub:runtime/org.freedesktop.Platform.Locale/x86_64/25.08[*]
F: Transaction: update flathub:runtime/org.freedesktop.Platform.VAAPI.Intel/x86_64/25.08[*]
F: Transaction: update flathub:runtime/org.freedesktop.Platform.VAAPI.nvidia/x86_64/25.08[*]
F: Transaction: update flathub:runtime/org.freedesktop.Platform.codecs-extra/x86_64/25.08-extra[*]
F: Transaction: update flathub:runtime/org.freedesktop.Platform.codecs_extra.i386/x86_64/25.08-extra[*]
F: Transaction: update flathub:runtime/org.freedesktop.Platform/x86_64/25.08[*]
F: Transaction: update flathub:runtime/org.gnome.Platform.Locale/x86_64/49[*]
F: Transaction: update flathub:runtime/org.gnome.Platform/x86_64/49[*]
F: Transaction: update flathub:runtime/org.gtk.Gtk3theme.Breeze/x86_64/3.22[*]
F: Transaction: update flathub:runtime/org.kde.Platform.Locale/x86_64/6.10[*]
F: Transaction: update flathub:runtime/org.kde.Platform.Locale/x86_64/6.11[*]
F: Transaction: update flathub:runtime/org.kde.Platform/x86_64/6.10[*]
F: Transaction: update flathub:runtime/org.kde.Platform/x86_64/6.11[*]
F: Transaction: update flathub:runtime/org.winehq.Wine.gecko/x86_64/stable-25.08[*]
F: Transaction: update flathub:runtime/org.winehq.Wine.mono/x86_64/stable-25.08[*]
F: Looking for remote metadata updates for flathub
F: marking op update:runtime/org.winehq.Wine.mono/x86_64/stable-25.08 resolved to 651be670c5d65edeb9f102fb00e2f216108bf87e6f6dec8f503a2d19fdab22ec
F: marking op update:runtime/org.winehq.Wine.gecko/x86_64/stable-25.08 resolved to e6a3e15950aa629808ae7739133bd6f26e17efca5fd345e81543ca90d73e809b
F: marking op update:runtime/org.kde.Platform/x86_64/6.11 resolved to 3adaa41de78d95076617f743099ec3851b5ae4fcdadbaaa8b7df1412c705c56c
F: marking op update:runtime/org.kde.Platform/x86_64/6.10 resolved to d0d8f7888350e93c0e6d009d79c5b143f6f6dde09de28ff93a7dc8a14a848c16
F: marking op update:runtime/org.kde.Platform.Locale/x86_64/6.11 resolved to fae88469c4c95a88fad8b0804ba401bc234173202753870e3654b584e97ca83d
F: marking op update:runtime/org.kde.Platform.Locale/x86_64/6.10 resolved to fd8f2b9352c2b87d2fda6a9e10b0659fc4f18ee3d287ace76fcad06df952f5e4
F: marking op update:runtime/org.gtk.Gtk3theme.Breeze/x86_64/3.22 resolved to 77495563abf1b523c653bf0b211c39fda1596cde833768baee4894f91b285c8c
F: marking op update:runtime/org.gnome.Platform/x86_64/49 resolved to 36de57bd50753bb1075ece8383408196b9b57bdad1e05a576d1e2de5a7f77f7f
F: marking op update:runtime/org.gnome.Platform.Locale/x86_64/49 resolved to c5908a7a68fd063fa79163a5dd5c3eb86f4a6f43a2d4ce88b6ff9aaae9dff580
F: marking op update:runtime/org.freedesktop.Platform/x86_64/25.08 resolved to 96b4841ce2b8c1acc3ede1d19a5cc802d633d21d56e95682bd7fd1b32fb0b506
F: marking op update:runtime/org.freedesktop.Platform.codecs_extra.i386/x86_64/25.08-extra resolved to 54e004bc96aa112623b8193bd1743c464a87d1787b06b1abe561010134e45803
F: marking op update:runtime/org.freedesktop.Platform.codecs-extra/x86_64/25.08-extra resolved to f9201dd9d78ad72de0b9ed951c1f859fb632a6eae8d96887e556d701f0a8a805
F: marking op update:runtime/org.freedesktop.Platform.VAAPI.nvidia/x86_64/25.08 resolved to 690fba952ed3961ac36011a6de36b338bcb67cdc8812e7464fd8dbb6ba46d259
F: marking op update:runtime/org.freedesktop.Platform.VAAPI.Intel/x86_64/25.08 resolved to e417c888751b3651696df5a810a8c28cfcaf1eb972fddc3eb3d5f9fb24b5d168
F: marking op update:runtime/org.freedesktop.Platform.Locale/x86_64/25.08 resolved to fd4c81ff798e41c0f4c65f57a37d1400d9b58be79bce70c2654afc987337664b
F: marking op update:runtime/org.freedesktop.Platform.GL32.nvidia-610-43-03/x86_64/1.4 resolved to fe53c37d41fd57d6a80802c4d74b6c8f0a1c7127192c7d847006894e6d3f36f5
F: marking op update:runtime/org.freedesktop.Platform.GL.nvidia-610-43-03/x86_64/1.4 resolved to 3ab2702914be8812628d7a11b832a21d2bfc0e0d226d8c4d103932594b955540
F: marking op update:runtime/com.usebottles.bottles.Locale/x86_64/stable resolved to 2d400b41664e3f60b2e0e7052e68d30ee87a5605ebde0b97e60865ac46a6b0f0
F: marking op update:runtime/com.seafile.Client.Locale/x86_64/stable resolved to b4cb2b7d7532649a1a01ce6a35fbf2e66a9047dd7a345d9865df61de36acc7a8
F: marking op update:app/org.upscayl.Upscayl/x86_64/stable resolved to e67f8eeb6a09c1ad6f04dee0477101be895519b63c1575e730f6ac89d5cbdc19
F: marking op update:app/org.fedoraproject.MediaWriter/x86_64/stable resolved to 0655f5154786cf6092440654a327ad911e2dd478b721b6ad65e7b82b1bbab440
F: marking op update:app/com.usebottles.bottles/x86_64/stable resolved to bf6246635cdc3ef2986c7cb6a5afc13cb31e30f0784e39ca69da06563855991d
F: marking op update:app/com.spotify.Client/x86_64/stable resolved to abf9251b20078af8b596fe0400afeda1adc7b029ee0cee30f5f3556a12059f94
F: marking op update:app/com.seafile.Client/x86_64/stable resolved to 2044502a3434d71da4d59c02f93f12d9ec0c075a15f437d51cb76a3dab670b48
F: marking op update:app/com.chatterino.chatterino/x86_64/stable resolved to 64af36c039c460f1290af95a90e4e5cfb8ef71d13c1b9e2ffa00bc054e5ae04f
F: Transaction: install/update flathub:runtime/org.kde.Platform.Locale/x86_64/6.11[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.default/x86_64/25.08[$old]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.default/x86_64/25.08-extra[$old]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.nvidia-610-43-03/x86_64/1.4[*]
F: Transaction: install/update flathub:runtime/org.gtk.Gtk3theme.Breeze/x86_64/3.22[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.VAAPI.Intel/x86_64/25.08[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.VAAPI.nvidia/x86_64/25.08[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.codecs-extra/x86_64/25.08-extra[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.default/x86_64/25.08[$old]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.default/x86_64/25.08-extra[$old]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.nvidia-610-43-03/x86_64/1.4[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.VAAPI.Intel/x86_64/25.08[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.VAAPI.nvidia/x86_64/25.08[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.codecs-extra/x86_64/25.08-extra[*]
F: Transaction: install/update flathub:runtime/org.gtk.Gtk3theme.Breeze/x86_64/3.22[*]
F: Transaction: install/update flathub:runtime/org.kde.Platform.Locale/x86_64/6.10[*]
F: Transaction: install/update flathub:runtime/org.gnome.Platform.Locale/x86_64/49[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.default/x86_64/25.08[$old]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.default/x86_64/25.08-extra[$old]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.nvidia-610-43-03/x86_64/1.4[*]
F: Transaction: install/update flathub:runtime/org.gtk.Gtk3theme.Breeze/x86_64/3.22[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.VAAPI.Intel/x86_64/25.08[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.VAAPI.nvidia/x86_64/25.08[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.codecs-extra/x86_64/25.08-extra[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.default/x86_64/25.08[$old]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.default/x86_64/25.08-extra[$old]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL.nvidia-610-43-03/x86_64/1.4[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.Locale/x86_64/25.08[*]
F: Transaction: install/update flathub:runtime/org.gtk.Gtk3theme.Breeze/x86_64/3.22[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.VAAPI.Intel/x86_64/25.08[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.VAAPI.nvidia/x86_64/25.08[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.codecs-extra/x86_64/25.08-extra[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08[$old]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08-extra[$old]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.GL32.nvidia-610-43-03/x86_64/1.4[*]
F: Transaction: install/update flathub:runtime/org.winehq.Wine.gecko/x86_64/stable-25.08[*]
F: Transaction: install/update flathub:runtime/org.winehq.Wine.mono/x86_64/stable-25.08[*]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.Compat.i386/x86_64/25.08[$old]
F: Transaction: install/update flathub:runtime/org.freedesktop.Platform.codecs_extra.i386/x86_64/25.08-extra[*]
F: Transaction: install/update flathub:runtime/com.usebottles.bottles.Locale/x86_64/stable[*]
F: Transaction: install/update flathub:runtime/com.seafile.Client.Locale/x86_64/stable[*]
F: marking op install/update:runtime/org.freedesktop.Platform.Compat.i386/x86_64/25.08 resolved to 6922f16de321ff693eba8b78109ff3920cc3672b8b834e26c1bb401aed56f481
F: marking op install/update:runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08-extra resolved to e7b025d19bb6711e626aef080738f8625d0ee4a7cd6aac0b4e899d9da6c8607a
F: marking op install/update:runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08 resolved to 2ff99e2a6cea102e7193ce5136920592a1d6c1e15583aea35d80a910ed9020cb
F: marking op install/update:runtime/org.freedesktop.Platform.GL.default/x86_64/25.08-extra resolved to 99b0b3fa4f44d1ef00544da14b398ca156826abefc8b9220fef3338c09a54bf2
F: marking op install/update:runtime/org.freedesktop.Platform.GL.default/x86_64/25.08 resolved to 7518f10d5f8fa0ad277c4b39a610a5b0df3117e079aaf40be0c33e040081347f
F: Checking installation ‘system’ for EOL unused refs and autoprunes
F: Checking installation ‘system’ by checking for dependent refs in ‘user’


 1.	   	org.freedesktop.Platform.Compat.i386	25.08	i	flathub	< 127.1 MB
 2.	   	org.freedesktop.Platform.GL.default	25.08	i	flathub	< 143.9 MB
 3.	   	org.freedesktop.Platform.GL.default	25.08-extra	i	flathub	< 144.0 MB
 4.	   	org.freedesktop.Platform.GL32.default	25.08	i	flathub	< 153.7 MB
 5.	   	org.freedesktop.Platform.GL32.default	25.08-extra	i	flathub	< 153.8 MB

Proceed with these changes to the system installation? [Y/n]:
Installing 1/5…
F: flatpak_dir_pull: Using commit 6922f16de321ff693eba8b78109ff3920cc3672b8b834e26c1bb401aed56f481 for pull of ref runtime/org.freedesktop.Platform.Compat.i386/x86_64/25.08 from remote flathub
Installing 1/5…                        0%  0 bytes/s
Installing 1/5… ████████████████████ 100%
F: No checksum specified, getting tip of runtime/org.freedesktop.Platform.Compat.i386/x86_64/25.08 from origin flathub
F: tip resolved to: 6922f16de321ff693eba8b78109ff3920cc3672b8b834e26c1bb401aed56f481
Warning: While trying to checkout 6922f16de321ff693eba8b78109ff3920cc3672b8b834e26c1bb401aed56f481 into /var/lib/flatpak/runtime/org.freedesktop.Platform.Compat.i386/x86_64/25.08/.6922f16de321ff693eba8b78109ff3920cc3672b8b834e26c1bb401aed56f481-2P5OYA: Opening content object 3d3f2a04fa1c28ed170b553e39a04df22ea7811dd6f8fbab40e67b7c0f40aead: Couldn't find file object '3d3f2a04fa1c28ed170b553e39a04df22ea7811dd6f8fbab40e67b7c0f40aead'
Installing 2/5…
F: flatpak_dir_pull: Using commit 7518f10d5f8fa0ad277c4b39a610a5b0df3117e079aaf40be0c33e040081347f for pull of ref runtime/org.freedesktop.Platform.GL.default/x86_64/25.08 from remote flathub
Installing 2/5…                        0%  0 bytes/s
Installing 2/5… ████████████████████ 100%
F: No checksum specified, getting tip of runtime/org.freedesktop.Platform.GL.default/x86_64/25.08 from origin flathub
F: tip resolved to: 7518f10d5f8fa0ad277c4b39a610a5b0df3117e079aaf40be0c33e040081347f
Warning: While trying to checkout 7518f10d5f8fa0ad277c4b39a610a5b0df3117e079aaf40be0c33e040081347f into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL.default/x86_64/25.08/.7518f10d5f8fa0ad277c4b39a610a5b0df3117e079aaf40be0c33e040081347f-zaV9ZA: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Installing 3/5…
F: flatpak_dir_pull: Using commit 99b0b3fa4f44d1ef00544da14b398ca156826abefc8b9220fef3338c09a54bf2 for pull of ref runtime/org.freedesktop.Platform.GL.default/x86_64/25.08-extra from remote flathub
Installing 3/5…                        0%  0 bytes/s
Installing 3/5… ████████████████████ 100%
F: No checksum specified, getting tip of runtime/org.freedesktop.Platform.GL.default/x86_64/25.08-extra from origin flathub
F: tip resolved to: 99b0b3fa4f44d1ef00544da14b398ca156826abefc8b9220fef3338c09a54bf2
Warning: While trying to checkout 99b0b3fa4f44d1ef00544da14b398ca156826abefc8b9220fef3338c09a54bf2 into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL.default/x86_64/25.08-extra/.99b0b3fa4f44d1ef00544da14b398ca156826abefc8b9220fef3338c09a54bf2-Z4CGEf: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Installing 4/5…
F: flatpak_dir_pull: Using commit 2ff99e2a6cea102e7193ce5136920592a1d6c1e15583aea35d80a910ed9020cb for pull of ref runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08 from remote flathub
Installing 4/5…                        0%  0 bytes/s
Installing 4/5… ████████████████████ 100%
F: No checksum specified, getting tip of runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08 from origin flathub
F: tip resolved to: 2ff99e2a6cea102e7193ce5136920592a1d6c1e15583aea35d80a910ed9020cb
Warning: While trying to checkout 2ff99e2a6cea102e7193ce5136920592a1d6c1e15583aea35d80a910ed9020cb into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08/.2ff99e2a6cea102e7193ce5136920592a1d6c1e15583aea35d80a910ed9020cb-xLL76g: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Installing 5/5…
F: flatpak_dir_pull: Using commit e7b025d19bb6711e626aef080738f8625d0ee4a7cd6aac0b4e899d9da6c8607a for pull of ref runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08-extra from remote flathub
Installing 5/5…                        0%  0 bytes/s
Installing 5/5… ████████████████████ 100%
F: No checksum specified, getting tip of runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08-extra from origin flathub
F: tip resolved to: e7b025d19bb6711e626aef080738f8625d0ee4a7cd6aac0b4e899d9da6c8607a
Warning: While trying to checkout e7b025d19bb6711e626aef080738f8625d0ee4a7cd6aac0b4e899d9da6c8607a into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08-extra/.e7b025d19bb6711e626aef080738f8625d0ee4a7cd6aac0b4e899d9da6c8607a-K9ffK0: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Installation complete.
F: flathub:x86_64 appstream age 716 is less than ttl 86400

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#4 2026-08-03 14:03:43

seth
Member
From: Won't reply 2 private help req
Registered: 2012-09-03
Posts: 78,500

Re: Flatpak: Warning: Error pulling from repo: While pulling runtime

for some apps, but not all; I'm still running into this issue.

Specifically? Stale/dated/cruft?

flatpak uninstall --unused
flatpak repair

?

How to upload text · How to boot w/o GUI · Disable Windows Fast-Start! · Fix your xinitrc

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#5 2026-08-05 23:03:21

lexan
Member
Registered: 2011-06-15
Posts: 68

Re: Flatpak: Warning: Error pulling from repo: While pulling runtime

These specifically. I don't know if these are stale or not.

$  flatpak update
Looking for updates…


        ID                                                Branch                 Op            Remote             Download
 1. [✗] org.freedesktop.Platform.Compat.i386              25.08                  i             flathub            1.1 kB / 127.1 MB
 2. [✗] org.freedesktop.Platform.GL.default               25.08                  i             flathub            1.0 kB / 143.9 MB
 3. [✗] org.freedesktop.Platform.GL.default               25.08-extra            i             flathub            1.0 kB / 144.0 MB
 4. [✗] org.freedesktop.Platform.GL32.default             25.08                  i             flathub            1.0 kB / 153.7 MB
 5. [✗] org.freedesktop.Platform.GL32.default             25.08-extra            i             flathub            1.0 kB / 153.8 MB

Warning: Error deploying: While trying to checkout 6922f16de321ff693eba8b78109ff3920cc3672b8b834e26c1bb401aed56f481 into /var/lib/flatpak/runtime/org.freedesktop.Platform.Compat.i386/x86_64/25.08/.6922f16de321ff693eba8b78109ff3920cc3672b8b834e26c1bb401aed56f481-slz4Ee: Opening content object 3d3f2a04fa1c28ed170b553e39a04df22ea7811dd6f8fbab40e67b7c0f40aead: Couldn't find file object '3d3f2a04fa1c28ed170b553e39a04df22ea7811dd6f8fbab40e67b7c0f40aead'
Warning: Error deploying: While trying to checkout 7518f10d5f8fa0ad277c4b39a610a5b0df3117e079aaf40be0c33e040081347f into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL.default/x86_64/25.08/.7518f10d5f8fa0ad277c4b39a610a5b0df3117e079aaf40be0c33e040081347f-qQxgg8: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Warning: Error deploying: While trying to checkout 99b0b3fa4f44d1ef00544da14b398ca156826abefc8b9220fef3338c09a54bf2 into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL.default/x86_64/25.08-extra/.99b0b3fa4f44d1ef00544da14b398ca156826abefc8b9220fef3338c09a54bf2-b7Mvih: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Warning: Error deploying: While trying to checkout 2ff99e2a6cea102e7193ce5136920592a1d6c1e15583aea35d80a910ed9020cb into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08/.2ff99e2a6cea102e7193ce5136920592a1d6c1e15583aea35d80a910ed9020cb-rW8Xkc: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Warning: Error deploying: While trying to checkout e7b025d19bb6711e626aef080738f8625d0ee4a7cd6aac0b4e899d9da6c8607a into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08-extra/.e7b025d19bb6711e626aef080738f8625d0ee4a7cd6aac0b4e899d9da6c8607a-Lw204m: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Installation complete.

Output of repair and uninstall:

$ flatpak uninstall --unused
Nothing unused to uninstall
$ sudo flatpak uninstall --unused
Nothing unused to uninstall
$ flatpak repair
Working on the system installation at /var/lib/flatpak
[12/61] Verifying flathub:runtime/org.kde.Platform.Locale/x86_64/6.11…
[18/61] Verifying flathub:runtime/org.kde.Platform/x86_64/6.10…
[51/61] Verifying flathub:runtime/org.freedesktop.Platform.VAAPI.Intel/x86_64/25.08…
[53/61] Verifying flathub:runtime/org.gtk.Gtk3theme.Breeze/x86_64/3.22…
[59/61] Verifying flathub:app/com.chatterino.chatterino/x86_64/stable…
[61/61] Verifying flathub:runtime/org.gnome.Platform/x86_64/49…
Checking remotes...
$ sudo flatpak repair
[sudo] password for billy: 
[12/61] Verifying flathub:runtime/org.kde.Platform.Locale/x86_64/6.11…
[18/61] Verifying flathub:runtime/org.kde.Platform/x86_64/6.10…
[51/61] Verifying flathub:runtime/org.freedesktop.Platform.VAAPI.Intel/x86_64/25.08…
[53/61] Verifying flathub:runtime/org.gtk.Gtk3theme.Breeze/x86_64/3.22…
[59/61] Verifying flathub:app/com.chatterino.chatterino/x86_64/stable…
[61/61] Verifying flathub:runtime/org.gnome.Platform/x86_64/49…
Checking remotes...
Pruning objects
Erasing .removed
$ sudo flatpak update
Looking for updates…


        ID                                                Branch                 Op            Remote             Download
 1. [✗] org.freedesktop.Platform.Compat.i386              25.08                  i             flathub            1.7 MB / 127.1 MB
 2. [✗] org.freedesktop.Platform.GL.default               25.08                  i             flathub            5.0 MB / 143.9 MB
 3. [✗] org.freedesktop.Platform.GL.default               25.08-extra            i             flathub            4.1 MB / 144.0 MB
 4. [✗] org.freedesktop.Platform.GL32.default             25.08                  i             flathub            5.7 MB / 153.7 MB
 5. [✗] org.freedesktop.Platform.GL32.default             25.08-extra            i             flathub            4.0 MB / 153.8 MB

Warning: While trying to checkout 6922f16de321ff693eba8b78109ff3920cc3672b8b834e26c1bb401aed56f481 into /var/lib/flatpak/runtime/org.freedesktop.Platform.Compat.i386/x86_64/25.08/.6922f16de321ff693eba8b78109ff3920cc3672b8b834e26c1bb401aed56f481-WaU1ws: Opening content object 3d3f2a04fa1c28ed170b553e39a04df22ea7811dd6f8fbab40e67b7c0f40aead: Couldn't find file object '3d3f2a04fa1c28ed170b553e39a04df22ea7811dd6f8fbab40e67b7c0f40aead'
Warning: While trying to checkout 7518f10d5f8fa0ad277c4b39a610a5b0df3117e079aaf40be0c33e040081347f into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL.default/x86_64/25.08/.7518f10d5f8fa0ad277c4b39a610a5b0df3117e079aaf40be0c33e040081347f-VeYQWv: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Warning: While trying to checkout 99b0b3fa4f44d1ef00544da14b398ca156826abefc8b9220fef3338c09a54bf2 into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL.default/x86_64/25.08-extra/.99b0b3fa4f44d1ef00544da14b398ca156826abefc8b9220fef3338c09a54bf2-zqciJE: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Warning: While trying to checkout 2ff99e2a6cea102e7193ce5136920592a1d6c1e15583aea35d80a910ed9020cb into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08/.2ff99e2a6cea102e7193ce5136920592a1d6c1e15583aea35d80a910ed9020cb-K99Uoc: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Warning: While trying to checkout e7b025d19bb6711e626aef080738f8625d0ee4a7cd6aac0b4e899d9da6c8607a into /var/lib/flatpak/runtime/org.freedesktop.Platform.GL32.default/x86_64/25.08-extra/.e7b025d19bb6711e626aef080738f8625d0ee4a7cd6aac0b4e899d9da6c8607a-GQlHPs: Opening content object cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c: Couldn't find file object 'cfa7e6eedfedd6183918fce533a94ec2d996ee89db21139a2f0da0dd92f2927c'
Installation complete.

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#6 2026-08-06 06:45:00

seth
Member
From: Won't reply 2 private help req
Registered: 2012-09-03
Posts: 78,500

Re: Flatpak: Warning: Error pulling from repo: While pulling runtime

ls -lR ~/.local/share/flatpak/runtime/org.freedesktop.Platform* /var/lib/flatpak/runtime/org.freedesktop.Platform*

How to upload text · How to boot w/o GUI · Disable Windows Fast-Start! · Fix your xinitrc

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#7 2026-08-10 10:57:21

lexan
Member
Registered: 2011-06-15
Posts: 68

Re: Flatpak: Warning: Error pulling from repo: While pulling runtime

seth wrote:
ls -lR ~/.local/share/flatpak/runtime/org.freedesktop.Platform* /var/lib/flatpak/runtime/org.freedesktop.Platform*
$ ls -lR ~/.local/share/flatpak/runtime/org.freedesktop.Platform*
ls: cannot access '/home/billy/.local/share/flatpak/runtime/org.freedesktop.Platform*': No such file or directory

Directory of /var/lib/flatpak/runtime/org.freedesktop.Platform* too long for forums and pasted here: https://paste.c-net.org/BusesPolicy

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#8 2026-08-10 12:22:58

seth
Member
From: Won't reply 2 private help req
Registered: 2012-09-03
Posts: 78,500

Re: Flatpak: Warning: Error pulling from repo: While pulling runtime

Nothing suspicious there (except the empty directories)
The same error w/ the same hash shows up in 2023, https://github.com/flatpak/flatpak/issues/4095
The thread was closed as "we don't care"…

https://github.com/flatpak/flatpak/issu … 2176200879 took a nuclear option, but for https://github.com/flatpak/flatpak/issu … 2094130324 it was apparently caused by some stale gnome flatschpaks, so possibly some dated flatschpak draws in those inexistent versions (and the nuclear option erased those implicitly)

How to upload text · How to boot w/o GUI · Disable Windows Fast-Start! · Fix your xinitrc

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