Deduplication breaks store item repair

Hi,

I’ve been having issues with the filesystem that holds /gnu/store

recently, causing corrupted/broken files. When trying to repair these

broken files with `guix gc --verify=repair,contents` it properly detects

that store items’ hashes do not match the ones recorded in the database

and redownloads/rebuilds them. However, the corrupted store items are

never actually repaired – not by `guix gc` and not by `guix build

--repair`. Attached is a testcase showing that deduplication is the

problem, because repairing will just hardlink the (broken) deduplicated

file instead of replacing it with the downloaded/built file. I tried the

daemon’s `--disable-deduplication` too with same results.

Cheers,

Lars

/gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10/bin/hello 0jxnp4f4rac2scvq9lhcvpr4n4w0zrx5wdhcqml4w7zfybbszswp

-r-xr-xr-x 2 root root 0 19. Aug 13:54 /gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10/bin/hello

reading the store...

checking path existence...

checking hashes...

path `/gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10' was modified! expected hash `9c61184c4b1af09639cee8148bc0c3d7aced4a671615a6e0a3e7ccb927848ffa', got `3330b928ba2d3cf6acfdb0ef3a359fb686eac7ee6e9d49a6515ef7b1701537cf'

fetching path `/gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10'...

Downloading https://ci.guix.gnu.org/nar/lzip/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10...

hello-2.10 51KiB 528KiB/s 00:00 [##################] 100.0%

-r-xr-xr-x 2 root root 0 1. Jan 1970 /gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10/bin/hello

path `/gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10' is corrupted or missing!

Substituiere /gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10 …

Lade von https://ci.guix.gnu.org/nar/lzip/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10herunter …

hello-2.10 51KiB 482KiB/s 00:00 [##################] 100.0%

/gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10

-r-xr-xr-x 2 root root 0 1. Jan 1970 /gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10/bin/hello

path `/gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10' is corrupted or missing!

Substituiere /gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10 …

Lade von https://ci.guix.gnu.org/nar/lzip/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10herunter …

hello-2.10 51KiB 455KiB/s 00:00 [##################] 100.0%

/gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10

-r-xr-xr-x 2 root root 37K 1. Jan 1970 /gnu/store/a462kby1q51ndvxdv3b6p0rsixxrgx1h-hello-2.10/bin/hello

severity 50121 important

quit