[SOLVED] Proxmo VE upgrade 5 to 6 ZFS Unmet dependencies

[elvisgriping]

Hi All,
I just created testing cluster with two node with the latest Proxmox 5.4 and one ZFS storage. I followed the wiki with the upgrade to the version 6. Everything goes fine except the zfs.

he following packages have unmet dependencies:
 zfs-zed : Depends: zfsutils-linux (>= 0.8.1-pve2) but 0.7.13-pve1~bpo2 is installed
E: Unmet dependencies. Try 'apt --fix-broken install' with no packages (or specify a solution).

When I tried the apt --fix-broken install I get this issue-
Preparing to unpack .../zfsutils-linux_0.8.1-pve2_amd64.deb ...
Unpacking zfsutils-linux (0.8.1-pve2) over (0.7.13-pve1~bpo2) ...
dpkg: error processing archive /var/cache/apt/archives/zfsutils-linux_0.8.1-pve2_amd64.deb (--unpack):
trying to overwrite '/usr/share/man/man5/spl-module-parameters.5.gz', which is also in package spl-dkms 0.7.12-2
Errors were encountered while processing:
/var/cache/apt/archives/zfsutils-linux_0.8.1-pve2_amd64.deb
E: Sub-process /usr/bin/dpkg returned an error code (1)

Preparing to unpack .../zfsutils-linux_0.8.1-pve2_amd64.deb ...
Unpacking zfsutils-linux (0.8.1-pve2) over (0.7.13-pve1~bpo2) ...
dpkg: error processing archive /var/cache/apt/archives/zfsutils-linux_0.8.1-pve2_amd64.deb (--unpack):
 trying to overwrite '/usr/share/man/man5/spl-module-parameters.5.gz', which is also in package spl-dkms 0.7.12-2
Errors were encountered while processing:
 /var/cache/apt/archives/zfsutils-linux_0.8.1-pve2_amd64.deb
E: Sub-process /usr/bin/dpkg returned an error code (1)

Is there anyone who had similar issue?


Have a nice day and Best Regards

 

[Stoiko Ivanov]

Seems like a wrong repository configuration - compare your '/etc/apt/sources.list' and .list files in '/etc/apt/sources.list.d' to the reference documentation - https://pve.proxmox.com/pve-docs/pve-admin-guide.html#sysadmin_package_repositories

then run `apt update`, `apt full-upgrade`

I hope this helps!

 

[elvisgriping]

Thanks for your reply. But it isn't solution (please note for the testing purpose I use the pve-no-subscription repository

cat /etc/apt/sources.list

deb http://ftp.debian.org/debian buster main contrib
deb http://ftp.debian.org/debian buster-updates main contrib

# PVE pve-no-subscription repository provided by proxmox.com,
# NOT recommended for production use
deb http://download.proxmox.com/debian/pve buster pve-no-subscription

# security updates
deb http://security.debian.org buster/updates main contrib

apt full-upgrade

Reading package lists... Done
Building dependency tree       
Reading state information... Done
You might want to run 'apt --fix-broken install' to correct these.
The following packages have unmet dependencies:
 zfs-zed : Depends: zfsutils-linux (>= 0.8.1-pve2) but 0.7.13-pve1~bpo2 is installed
E: Unmet dependencies. Try 'apt --fix-broken install' with no packages (or specify a solution).


apt --fix-broken install

Reading package lists... Done
Building dependency tree       
Reading state information... Done
Correcting dependencies... Done
The following packages were automatically installed and are no longer required:
  dh-python guile-2.0-libs libapparmor-perl libbabeltrace-ctf1 libblas-common libboost-filesystem1.62.0
  libboost-iostreams1.62.0 libboost-program-options1.62.0 libboost-random1.62.0 libboost-regex1.62.0
  libboost-system1.62.0 libboost-thread1.62.0 libcephfs1 libcfg6 libevent-2.0-5 libfcgi-bin libfcgi0ldbl libfdt1
  libgfortran3 libicu57 libipset3 libjemalloc1 liblvm2app2.2 liblvm2cmd2.02 libperl5.24 libprotobuf10
  libpython3.5-minimal libpython3.5-stdlib librgw2 libtotem-pg5 liburcu4 pve-kernel-4.15 pve-kernel-4.15.18-20-pve
  python-pyasn1 python3-distutils python3-lib2to3 python3.5 python3.5-minimal rename sgml-base tcpd xml-core
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
  zfsutils-linux
Suggested packages:
  nfs-kernel-server zfs-initramfs
The following packages will be upgraded:
  zfsutils-linux
1 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
725 not fully installed or removed.
Need to get 0 B/353 kB of archives.
After this operation, 148 kB of additional disk space will be used.
Do you want to continue? [Y/n] Y
(Reading database ... 116631 files and directories currently installed.)
Preparing to unpack .../zfsutils-linux_0.8.1-pve2_amd64.deb ...
Unpacking zfsutils-linux (0.8.1-pve2) over (0.7.13-pve1~bpo2) ...
dpkg: error processing archive /var/cache/apt/archives/zfsutils-linux_0.8.1-pve2_amd64.deb (--unpack):
 trying to overwrite '/usr/share/man/man5/spl-module-parameters.5.gz', which is also in package spl-dkms 0.7.12-2
Errors were encountered while processing:
 /var/cache/apt/archives/zfsutils-linux_0.8.1-pve2_amd64.deb
E: Sub-process /usr/bin/dpkg returned an error code (1)

 

[Stoiko Ivanov]

That's an odd situation - since PVE 6. (all repositories) always had zfsutils-linux in version 0.8.1.
D

spl-dkms 0.7.12-2

seems like the zfs-packages from debian upstream are installed on the system (instead of the proxmox packages)

could you post the output of `pveversion -v` and `apt update` ?

also you could try to remove the 'spl-dkms', 'zfs-dkms' packages (PVE does not ship them)

I hope this helps!

 

[elvisgriping]

Hello Stoiko,
sorry for my late reply,
here is the pveversion -v

proxmox-ve: 5.4-2 (running kernel: 4.15.18-20-pve)
pve-manager: 5.4-13 (running version: 5.4-13/aee6f0ec)
pve-kernel-4.15: 5.4-8
pve-kernel-4.15.18-20-pve: 4.15.18-46
pve-kernel-4.15.18-19-pve: 4.15.18-45
corosync: 2.4.4-pve1
criu: 2.11.1-1~bpo90
glusterfs-client: 3.8.8-1
ksm-control-daemon: not correctly installed
libjs-extjs: 6.0.1-2
libpve-access-control: 5.1-12
libpve-apiclient-perl: 2.0-5
libpve-common-perl: 5.0-54
libpve-guest-common-perl: 2.0-20
libpve-http-server-perl: 2.0-14
libpve-storage-perl: 5.0-44
libqb0: 1.0.3-1~bpo9
lvm2: 2.02.168-pve6
lxc-pve: 3.1.0-6
lxcfs: 3.0.3-pve1
novnc-pve: 1.0.0-3
proxmox-widget-toolkit: 1.0-28
pve-cluster: 5.0-38
pve-container: 2.0-40
pve-docs: 5.4-2
pve-edk2-firmware: 1.20190312-1
pve-firewall: 3.0-22
pve-firmware: 2.0-7
pve-ha-manager: 2.0-9
pve-i18n: 1.1-4
pve-libspice-server1: 0.14.1-2
pve-qemu-kvm: 3.0.1-4
pve-xtermjs: 3.12.0-1
qemu-server: 5.0-54
smartmontools: 6.5+svn4324-1
spiceterm: 3.0-5
vncterm: 1.5-3
zfsutils-linux: 0.7.13-pve1~bpo2

and apt update

Get:1 http://security.debian.org/debian-security stretch/updates InRelease [94.3 kB]
Hit:2 http://download.proxmox.com/debian/pve stretch InRelease     
Ign:3 http://ftp.cz.debian.org/debian stretch InRelease
Get:4 http://ftp.cz.debian.org/debian stretch-updates InRelease [91.0 kB]
Hit:5 http://ftp.cz.debian.org/debian stretch Release         
Get:6 http://security.debian.org/debian-security stretch/updates/main Sources [212 kB]
Get:7 http://security.debian.org/debian-security stretch/updates/main amd64 Packages [503 kB]
Get:8 http://security.debian.org/debian-security stretch/updates/main Translation-en [226 kB]
Fetched 1127 kB in 1s (1048 kB/s)                                                       
Reading package lists... Done
Building dependency tree       
Reading state information... Done
1 package can be upgraded. Run 'apt list --upgradable' to see it.

The 1 package for update is
libnghttp2-14/oldstable 1.18.1-1+deb9u1 amd64 [upgradable from: 1.18.1-1]


I will try remove 'spl-dkms', 'zfs-dkms' later today

 

[Stoiko Ivanov]

hm - that's a bit confusing?
In your posts before you had buster and pve 6.x repostories in your sources.list files - this output (pveversion and apt update) speak of stretch only?

but - removing 'spl-dkms' and 'zfs-dkms' sound like a good plan.

I hope this helps!

 

[elvisgriping]

Thanks all for cooperation's. This solved my issue-

apt-get install zfsutils zfs-initramfs

apt purge spl-dkms

I ave to apologize to Stoiko- I have installed it in virtual box with snap hosts- so I can easily revert back and check different approach.

But is it resolved now thanks for all your help

 

[Stoiko Ivanov]

I ave to apologize to Stoiko-

no need to - glad your issue is resolved! Please mark the thread as 'SOLVED' - it might help others!

Thanks!

 

[smallsomething]

I just dealt with this upgrading my box to 6.0. This thread was helpful, but ultimately it did not provide a full solution.

The full solution, for my case, looked more like this (roughly):

# remove packages to make apt stop complaining about conflicts
apt remove spl-dkms zfs-dkms zfs-initramfs zfs-zed
# for me at least, that command also resulted in the PVE upgrade continuing,
# with some caveats:

# zfs still needs to be upgraded
apt install zfsutils-linux

# now reinstall packages needed that we removed above
# at the very least, zfs-initramfs is required or your system won't boot
#
# these should all come from PVE repos
# you may wish to verify that with `apt show` or similar first
apt install zfs-initramfs zfs-zed


# update initramfs manually, update grub, etc - just make sure things are good :)
update-initramfs -u
update-grub
grub-install /dev/dsk/by-id/$your_disk

These commands are the refined version of the mess I went through. I removed the packages, upgraded zfsutils, rebooted, figured out that my initramfs was missing ZFS, booted to an old kernel, then corrected it.

You may also want to update/reinstall grub before rebooting just to be safe (I did).

 

[AlexanderR]

Thank you guys... that saved my life!

 

[M-Core-iX]

dpkg --purge zfs-dkms spl-dkms