error: Removing extensions/rpmostree/private/commit: unlinkat(devices): Directory not empty

[Danik1601]

Describe the bug My version of Silverblue is already month old and there were no updates all this time. At some point I suspected that something is wrong and tried to check for updates with sudo rpm-ostree upgrade in terminal. The terminal shows this output: error: Removing extensions/rpmostree/private/commit: unlinkat(devices): Directory not empty. I immediately tried to fix this with sudo rpm-ostree cleanup using -bprm arguments but still no luck. Specifically, terminal outputting cleanup: GDBus.Error:org.projectatomic.rpmostreed.Error.Failed: syscore cleanup: cleaning tmp rootfs: Removing extensions/rpmostree/private/commit: unlinkat(devices): Directory not empty after running sudo rpm-ostree cleanup -b command.

To Reproduce

• Check for updates in Gnome Software OR
• Run sudo rpm-ostree upgrade in terminal

Expected behavior Upgrade check, list of available upgrades, upgrades installation

Screenshots

OS version:

State: idle
BootedDeployment:
● fedora:fedora/38/x86_64/silverblue
                  Version: 38.20230509.0 (2023-05-09T00:47:02Z)
               BaseCommit: fa62e262bd5d8afe7de1fda8f2865cee3a1734c62d299bab4e2e1d00f4c33f3e
             GPGSignature: Valid signature by 6A51BBABBA3D5467B6171221809A8D7CEB10B464
          LayeredPackages: langpacks-en

Additional context Fedora Silverblue 38 running in VirtualBox VM (EFI and Secure Boot enabled) VirtualBox 7.0.8 with Extension Pack 7.0.8 Windows 11 host with AMD CPU and AMD GPU

[travier]

Looks like an rpm-ostree issue. Please report it there.

[travier]

If you could find where the extensions/rpmostree/private/commit folder/files are that would help

[LorbusChris]

@Danik1601 this dirname has shown up before: https://github.com/coreos/rpm-ostree/issues/2325#issuecomment-728964210

[travier]

Closed upstream as likely due to filesystem corruption: https://github.com/coreos/rpm-ostree/issues/4457#issuecomment-1621059164