Docker does not find volume?

Support
1

NethServer Version: 7.9.2009 (final)
Module: nethserver-docker

Hi,
I installed nethserver-docker using the Software Center. Thereafter I followed the instructions shown here
https://docs.nethserver.org/en/v7/docker.html

but docker didn’t start.
The outputs are:

[root@nethserver ~]# systemctl status docker
● docker.service - Docker Application Container Engine
   Loaded: loaded (/usr/lib/systemd/system/docker.service; enabled; vendor preset: disabled)
  Drop-In: /etc/systemd/system/docker.service.d
           └─nethserver.conf
   Active: failed (Result: start-limit) since Sun 2021-11-14 12:17:53 CET; 34min ago
     Docs: https://docs.docker.com
  Process: 19909 ExecStart=/usr/bin/dockerd --config-file=/etc/docker/docker.conf (code=exited, status=1/FAILURE)
 Main PID: 19909 (code=exited, status=1/FAILURE)

Nov 14 12:17:51 nethserver systemd[1]: docker.service: main process exited, code=exited, status=1/FAILURE
Nov 14 12:17:51 nethserver systemd[1]: Failed to start Docker Application Container Engine.
Nov 14 12:17:51 nethserver systemd[1]: Unit docker.service entered failed state.
Nov 14 12:17:51 nethserver systemd[1]: docker.service failed.
Nov 14 12:17:53 nethserver systemd[1]: docker.service holdoff time over, scheduling restart.
Nov 14 12:17:53 nethserver systemd[1]: Stopped Docker Application Container Engine.
Nov 14 12:17:53 nethserver systemd[1]: start request repeated too quickly for docker.service
Nov 14 12:17:53 nethserver systemd[1]: Failed to start Docker Application Container Engine.
Nov 14 12:17:53 nethserver systemd[1]: Unit docker.service entered failed state.
Nov 14 12:17:53 nethserver systemd[1]: docker.service failed. 


[root@nethserver ~]# systemctl restart docker
Job for docker.service failed because the control process exited with error code. See "systemctl status docker.service" and "journalctl -xe" for details.


[root@nethserver ~]# docker ps
Cannot connect to the Docker daemon at unix:///var/run/docker.sock. Is the docker daemon running?

The /var/log/docker/docker.log says:

Nov 14 12:57:58 nethserver dockerd: time="2021-11-14T12:57:58.494179756+01:00" level=info msg="ClientConn switching balancer to \"pick_first\"" module=grpc
Nov 14 12:57:58 nethserver dockerd: time="2021-11-14T12:57:58.497726753+01:00" level=info msg="parsed scheme: \"unix\"" module=grpc
Nov 14 12:57:58 nethserver dockerd: time="2021-11-14T12:57:58.497752083+01:00" level=info msg="scheme \"unix\" not registered, fallback to default scheme" module=grpc
Nov 14 12:57:58 nethserver dockerd: time="2021-11-14T12:57:58.497772953+01:00" level=info msg="ccResolverWrapper: sending update to cc: {[{unix:///run/containerd/containerd.sock
<nil> 0 <nil>}] <nil> <nil>}" module=grpc
Nov 14 12:57:58 nethserver dockerd: time="2021-11-14T12:57:58.497782444+01:00" level=info msg="ClientConn switching balancer to \"pick_first\"" module=grpc
Nov 14 12:57:58 nethserver dockerd: time="2021-11-14T12:57:58.499061636+01:00" level=warning msg="[graphdriver] WARNING: the devicemapper storage-driver is deprecated, and will b
e removed in a future release"
Nov 14 12:57:58 nethserver dockerd: time="2021-11-14T12:57:58.550668194+01:00" level=error msg="File descriptor 3 (socket:[43434]) leaked on pvdisplay invocation. Parent PID 2268
1: /usr/bin/dockerd\nFile descriptor 13 (/dev/mapper/control) leaked on pvdisplay invocation. Parent PID 22681: /usr/bin/dockerd\n  Failed to find physical volume \"/dev/sda\".\n
" error="exit status 5"
Nov 14 12:57:58 nethserver dockerd: failed to start daemon: error initializing graphdriver: File descriptor 3 (socket:[43434]) leaked on pvcreate invocation. Parent PID 22681: /u
sr/bin/dockerd
Nov 14 12:57:58 nethserver dockerd: File descriptor 13 (/dev/mapper/control) leaked on pvcreate invocation. Parent PID 22681: /usr/bin/dockerd
Nov 14 12:57:58 nethserver dockerd: Device /dev/sda excluded by a filter.
Nov 14 12:57:58 nethserver dockerd: : exit status 5
Nov 14 12:58:00 nethserver dockerd: time="2021-11-14T12:58:00.709553596+01:00" level=info msg="Starting up"
Nov 14 12:58:00 nethserver dockerd: time="2021-11-14T12:58:00.712810003+01:00" level=info msg="parsed scheme: \"unix\"" module=grpc
Nov 14 12:58:00 nethserver dockerd: time="2021-11-14T12:58:00.712835063+01:00" level=info msg="scheme \"unix\" not registered, fallback to default scheme" module=grpc
Nov 14 12:58:00 nethserver dockerd: time="2021-11-14T12:58:00.712859622+01:00" level=info msg="ccResolverWrapper: sending update to cc: {[{unix:///run/containerd/containerd.sock
<nil> 0 <nil>}] <nil> <nil>}" module=grpc
Nov 14 12:58:00 nethserver dockerd: time="2021-11-14T12:58:00.712873773+01:00" level=info msg="ClientConn switching balancer to \"pick_first\"" module=grpc
Nov 14 12:58:00 nethserver dockerd: time="2021-11-14T12:58:00.716769181+01:00" level=info msg="parsed scheme: \"unix\"" module=grpc
Nov 14 12:58:00 nethserver dockerd: time="2021-11-14T12:58:00.716788771+01:00" level=info msg="scheme \"unix\" not registered, fallback to default scheme" module=grpc
Nov 14 12:58:00 nethserver dockerd: time="2021-11-14T12:58:00.716805811+01:00" level=info msg="ccResolverWrapper: sending update to cc: {[{unix:///run/containerd/containerd.sock
<nil> 0 <nil>}] <nil> <nil>}" module=grpc
Nov 14 12:58:00 nethserver dockerd: time="2021-11-14T12:58:00.716815051+01:00" level=info msg="ClientConn switching balancer to \"pick_first\"" module=grpc
Nov 14 12:58:00 nethserver dockerd: time="2021-11-14T12:58:00.717538662+01:00" level=warning msg="[graphdriver] WARNING: the devicemapper storage-driver is deprecated, and will b
e removed in a future release"
Nov 14 12:58:00 nethserver dockerd: time="2021-11-14T12:58:00.772545627+01:00" level=error msg="File descriptor 3 (socket:[43434]) leaked on pvdisplay invocation. Parent PID 2269
8: /usr/bin/dockerd\nFile descriptor 13 (/dev/mapper/control) leaked on pvdisplay invocation. Parent PID 22698: /usr/bin/dockerd\n  Failed to find physical volume \"/dev/sda\".\n
" error="exit status 5"
Nov 14 12:58:00 nethserver dockerd: failed to start daemon: error initializing graphdriver: File descriptor 3 (socket:[43434]) leaked on pvcreate invocation. Parent PID 22698: /u
sr/bin/dockerd
Nov 14 12:58:00 nethserver dockerd: File descriptor 13 (/dev/mapper/control) leaked on pvcreate invocation. Parent PID 22698: /usr/bin/dockerd
Nov 14 12:58:00 nethserver dockerd: Device /dev/sda excluded by a filter.
Nov 14 12:58:00 nethserver dockerd: : exit status 5
Nov 14 12:58:02 nethserver dockerd: time="2021-11-14T12:58:02.957759508+01:00" level=info msg="Starting up"
Nov 14 12:58:02 nethserver dockerd: time="2021-11-14T12:58:02.959515742+01:00" level=info msg="parsed scheme: \"unix\"" module=grpc
Nov 14 12:58:02 nethserver dockerd: time="2021-11-14T12:58:02.959562302+01:00" level=info msg="scheme \"unix\" not registered, fallback to default scheme" module=grpc
Nov 14 12:58:02 nethserver dockerd: time="2021-11-14T12:58:02.959594623+01:00" level=info msg="ccResolverWrapper: sending update to cc: {[{unix:///run/containerd/containerd.sock
<nil> 0 <nil>}] <nil> <nil>}" module=grpc
Nov 14 12:58:02 nethserver dockerd: time="2021-11-14T12:58:02.959626212+01:00" level=info msg="ClientConn switching balancer to \"pick_first\"" module=grpc
Nov 14 12:58:02 nethserver dockerd: time="2021-11-14T12:58:02.963320210+01:00" level=info msg="parsed scheme: \"unix\"" module=grpc
Nov 14 12:58:02 nethserver dockerd: time="2021-11-14T12:58:02.963356220+01:00" level=info msg="scheme \"unix\" not registered, fallback to default scheme" module=grpc
Nov 14 12:58:02 nethserver dockerd: time="2021-11-14T12:58:02.963399820+01:00" level=info msg="ccResolverWrapper: sending update to cc: {[{unix:///run/containerd/containerd.sock
<nil> 0 <nil>}] <nil> <nil>}" module=grpc
Nov 14 12:58:02 nethserver dockerd: time="2021-11-14T12:58:02.963417410+01:00" level=info msg="ClientConn switching balancer to \"pick_first\"" module=grpc
Nov 14 12:58:02 nethserver dockerd: time="2021-11-14T12:58:02.969030202+01:00" level=warning msg="[graphdriver] WARNING: the devicemapper storage-driver is deprecated, and will b
e removed in a future release"
Nov 14 12:58:03 nethserver dockerd: time="2021-11-14T12:58:03.023517456+01:00" level=error msg="File descriptor 3 (socket:[43434]) leaked on pvdisplay invocation. Parent PID 2271
7: /usr/bin/dockerd\nFile descriptor 13 (/dev/mapper/control) leaked on pvdisplay invocation. Parent PID 22717: /usr/bin/dockerd\n  Failed to find physical volume \"/dev/sda\".\n
" error="exit status 5"
Nov 14 12:58:03 nethserver dockerd: failed to start daemon: error initializing graphdriver: File descriptor 3 (socket:[43434]) leaked on pvcreate invocation. Parent PID 22717: /u
sr/bin/dockerd
Nov 14 12:58:03 nethserver dockerd: File descriptor 13 (/dev/mapper/control) leaked on pvcreate invocation. Parent PID 22717: /usr/bin/dockerd
Nov 14 12:58:03 nethserver dockerd: Device /dev/sda excluded by a filter.
Nov 14 12:58:03 nethserver dockerd: : exit status 5

I think the issue shown in the logfile
Failed to find physical volume \"/dev/sda\"
is the cause of my problem to start docker, but to be honestly I dont know why?

    [root@nethserver ~]# fdisk -l /dev/sda
    Disk /dev/sda: 34.4 GB, 34359738368 bytes, 67108864 sectors
    Units = sectors of 1 * 512 = 512 bytes
    Sector size (logical/physical): 512 bytes / 512 bytes
    I/O size (minimum/optimal): 512 bytes / 512 bytes
    Disk label type: dos
    Disk identifier: 0x000e8405

       Device Boot      Start         End      Blocks   Id  System
    /dev/sda1            2048     2097151     1047552   83  Linux
    /dev/sda2   *     2097152     4194303     1048576   83  Linux
    /dev/sda3         4194304    27492351    11649024   83  Linux
    /dev/sda4        27492352    67108863    19808256    5  Extended
    /dev/sda5        27496448    35622911     4063232   82  Linux swap / Solaris

Does anybody know what’s wrong here?
Do I need a separate partition for docker?

Kind Regards
Pete

2

You may use an lvm device to increase performance but it’s not needed.

I guess you configured the lvm device but the disk needs to be free as the whole block device is used.

To remove the lvmdevice config:

config setprop docker DirectLvmDevice ''
signal-event nethserver-docker-update

3

Hi Markus,

You may use an lvm device to increase performance but it’s not needed.

That’s good to know, I thought I have to set a device cause it was mentioned in the DOC.
Just to confirm that I understood this one correctly. Either docker uses a separate logical volume, it has to be totally free and is used by docker exclusively or (without LVM) docker uses a place somewhere under the root (/ ) tree. In the last case I don’t have to set a device?

4

No, it works without setting a device too.

5

:+1: I didn’t know that.

You mentioned that the performance will be better with LVM. Does LVM increase the overall performance of the system or just the performance of docker?

6

The setting is just for docker to use a seperate block device.
LVM is used by default in NethServer.

7

When I installed nethserver on my machine couples of years ago I didn‘t use LVM at all, not to have another layer of complexity.
I want to change the FQDN of my nethserver ( using AD) and therefore I think it would be the best to make a new install of nethserver instead of changing everything manually. This would be a chance to change to LVM, I‘ll think about it.

8

In case using LVM, would it make sense to create a logical volume /var/lib/docker to use it as the ‘DirectLVM Device’ ?

9

No, you need a block device, see also docker docs.