Getting an error when updating NixOS

Help
1

I want the new kde plasma 6.3 so I tried to update my system with:

sudo nix-channel --update
sudo nix flake update
sudo nixos-rebuild switch --upgrade --flake .

After downloading everything I got this error:

kronix@nixos:~/nix/ > sudo nixos-rebuild switch --upgrade --flake .                                 
building the system configuration...
error: builder for '/nix/store/8ydhq7ddw4flml0n4rczw38q346wnr78-libiodbc-3.52.16.drv' failed with exit code 1;
       last 25 log lines:
       > cp ./iodbctest.c /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/share/libiodbc/samples/iodbctest.c
       > cp ./Makefile.sample /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/share/libiodbc/samples/Makefile
       > make[3]: Leaving directory '/build/libiodbc-3.52.16/samples'
       > make[2]: Nothing to be done for 'install-data-am'.
       > make[2]: Leaving directory '/build/libiodbc-3.52.16/samples'
       > make[1]: Leaving directory '/build/libiodbc-3.52.16/samples'
       > make[1]: Entering directory '/build/libiodbc-3.52.16'
       > make[2]: Entering directory '/build/libiodbc-3.52.16'
       > make[2]: Nothing to be done for 'install-exec-am'.
       > make[2]: Nothing to be done for 'install-data-am'.
       > make[2]: Leaving directory '/build/libiodbc-3.52.16'
       > make[1]: Leaving directory '/build/libiodbc-3.52.16'
       > Running phase: fixupPhase
       > shrinking RPATHs of ELF executables and libraries in /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16
       > shrinking /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/lib/libiodbcinst.so.2.1.31
       > shrinking /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/lib/libiodbc.so.2.1.31
       > shrinking /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/bin/iodbctest
       > shrinking /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/bin/iodbctestw
       > checking for references to /build/ in /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16...
       > gzipping man pages under /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/share/man/
       > patching script interpreter paths in /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16
       > /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/bin/iodbc-config: interpreter directive changed from "#!/bin/sh" to "/nix/store/fd118hwh7d1ncib4mdw56ylv3g9k0iyj-bash-5.2p37/bin/sh"
       > stripping (with command strip and flags -S -p) in  /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/lib /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/bin
       > ERROR: noBrokenSymlinks: the symlink /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/lib/libodbc.a points to a missing target /nix/store/da9crr71ixxz7fsc1m92shjfsxfyfw65-libiodbc-3.52.16/lib/libiodbc.a
       > ERROR: noBrokenSymlinks: found 1 dangling symlinks and 0 reflexive symlinks
       For full logs, run 'nix log /nix/store/8ydhq7ddw4flml0n4rczw38q346wnr78-libiodbc-3.52.16.drv'.
error: 1 dependencies of derivation '/nix/store/fg76g34cbzcxgqz5xrc53s06924f0jhb-mysql-workbench-8.0.41.drv' failed to build
error: 1 dependencies of derivation '/nix/store/68dqf2ykvf24qy1c8363zv7ddwdiph0i-system-path.drv' failed to build
error: 1 dependencies of derivation '/nix/store/b8968y3sdv4bagxi215iwbx6jcixv2m6-nixos-system-nixos-25.05.20250216.d74a233.drv' failed to build
kronix@nixos:~/nix/ >
kronix@nixos:~/nix/ > nix log /nix/store/8ydhq7ddw4flml0n4rczw38q346wnr78-libiodbc-3.52.16.drv | head
Running phase: unpackPhase
@nix { "action": "setPhase", "phase": "unpackPhase" }
unpacking source archive /nix/store/kciy2lbxs0pncfq7wqqk24l4xp3kjpv9-libiodbc-3.52.16.tar.gz
source root is libiodbc-3.52.16
setting SOURCE_DATE_EPOCH to timestamp 1683026464 of file "libiodbc-3.52.16/include/config.h.in"
Running phase: patchPhase
@nix { "action": "setPhase", "phase": "patchPhase" }
Running phase: updateAutotoolsGnuConfigScriptsPhase
@nix { "action": "setPhase", "phase": "updateAutotoolsGnuConfigScriptsPhase" }
Updating Autotools / GNU config script to a newer upstream version: ./admin/config.sub
error: writing to file: Broken pipe
kronix@nixos:~/nix/ >

Can anyone help me?

Thanks in advance!

2

So this issue got mentioned on github:

The fix was however merged yesterday to master.

1 Like
3

Thanks for linking the issue. If is already merged why do I still get the error?

4

Wait until it reaches nixos-unstable:

https://nixpkgs-tracker.ocfox.me/?pr=381767

Also this command does nothing useful for you when using flakes.

2 Likes
5

That’s because it is only merged to master yet. Unstable may take a while.

6

Is it because the sudo nix flake update updates the channel the flake uses?
Thanks for letting me know btw!

7

Yes, and unless the files in the flake are owned by root for some reason, you don’t need sudo to update the flake inputs either

1 Like
8

Flakes don’t use channels. They are an alternative approach for managing the version of nixpkgs and other nix-related git repos on your system. All that version information gets recorded in your flake.lock file.