[Bug]: Symlinks to home directories can still appear inside bottles

[jntesteves]

Describe the bug

This is a reissue of #572, which still happens under certain conditions. The fix substitutes symlinks with real directories on bottle creation, but Wine-based runners and Proton-based runners have different directories for the userdir, $USER and steamuser, respectively. So, when changing runner from one type to the other, a new user directory is created within the bottle and that directory still contain symlinks to the user's $HOME dir.

related to #572
related to #3042

To Reproduce

• Create a new bottle with a Wine-based runner, like sys-wine
• Change the runner of the bottle to a Proton-based runner, like Soda
• In the directory drive_c/users/steamuser there will be undesirable symlinks to $HOME

Package

Flatpak from Flathub

Distribution

Fedora 41

Debugging Information

Official Package: true
Version: '51.18'
DE/WM: gnome
Display:
    X.org: true
    X.org (port): :0
    Wayland: true
Graphics:
    vendors:
        amd:
            vendor: amd
            envs:
                DRI_PRIME: '1'
            icd: /usr/lib/x86_64-linux-gnu/GL/vulkan/icd.d/radeon_icd.x86_64.json:/usr/lib/i386-linux-gnu/GL/vulkan/icd.d/radeon_icd.i686.json
    prime:
        integrated: null
        discrete: null
Kernel:
    Type: Linux
    Version: 6.12.10-200.fc41.x86_64
Disk:
    Total: 8061935616
    Free: 8061763584
RAM:
    MemTotal: 15.0GiB
    MemAvailable: 8.1GiB
Bottles_envs: null

Troubleshooting Logs

Additional context

No response

[github-actions]

This issue has been automatically closed as part of a cleanup process to help the team manage issues more effectively.

If the problem still persists, feel free to comment and we will gladly reopen it.