On F37, with 3 installed flatpak applications (one of which in multiple versions) all of a sudden all three apps fails with messages like bwrap: Can’t mkdir /usr/lib/x86_64-linux-gnu/GL: Read-only file system. The actual file system it fails on varies between apps.
All are installed using --user. Tried to remove one of them (telegram) and reinstall without --user. Same result.
It’s a pretty old link, so I don’t even know if this behavior would be caused by the same underlying issue anymore, but any chance that you have a symlink in your root directory that points to the root directory itself?
Looks sound to me. If I had done such a weird thing I would probably have remembered it.
do you know if you used sudo to originally install those apps?
Obviously no, since I was using --user. Looking at the installation directories under for example ~/.var/app/org.telegram.desktop looks sound i. e., I own them and have write permissions.
OTOH, the test I did was to uninstall my --user telegram and reinstall without --user, then of course using sudo. However, no difference, same results
EDIT: Actually, I had two broken links in /. After removing them, still same results. New status report:
Sorry, I don’t know much overall about the topic, but just thinking out loud - with a relatively lower number of flatpak apps installed, would it be feasible to uninstall the three existing ones, then reinstall flatpak and its associated packages themselves?