Synology Nas: Run Fsck To Check and Repair a Linux File System

by on October 3, 2012 · 12 comments· LAST UPDATED October 3, 2012

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I own a Linux powered Synology dedicated Network Attached Storage (NAS) server for my home office use. How do I run fsck on Synology DiskStation that offers RAID storage using Linux command line options over an ssh session?

This server is powered by Linux operating system and comes with the e2fsck program that can be used to check the ext3/ext4 family of file systems.

Tutorial details
DifficultyIntermediate (rss)
Root privilegesYes
RequirementsSynology server
Estimated completion timeN/A

First, you need to login using ssh interface. The syntax is as follows:

ssh root@nas01
ssh root@nas-server-ip-here

Once logged in you need to stop running services such as smb/nfs/pgsql and so. To see current volumes or mount point type the following command:
df
Sample outputs:

Filesystem           1K-blocks      Used Available Use% Mounted on
rootfs                 2451064    437412   1911252  19% /
/dev/root              2451064    437412   1911252  19% /
/tmp                    255700       272    255428   1% /tmp
/dev/vg1/volume_1    2879621632 176443652 2703075580   7% /volume1
/dev/vg1/volume_1    2879621632 176443652 2703075580   7% /opt

To see current services accessing the /volume1/ and /opt/, run:
lsof /opt/
lsof /volume1/

Sample outputs:

COMMAND   PID  USER   FD   TYPE DEVICE SIZE/OFF    NODE NAME
postgres 5052 admin  cwd    DIR  253,0     4096      18 /volume1/@database/pgsql
postgres 5057 admin  cwd    DIR  253,0     4096      18 /volume1/@database/pgsql
postgres 5057 admin   17u   REG  253,0 16777216 3539006 /volume1/@database/pgsql/pg_xlog/000000010000000000000006
postgres 5058 admin  cwd    DIR  253,0     4096      18 /volume1/@database/pgsql
lsof     8284  root  txt    REG  253,0   125544 4068473 /opt/sbin/lsof
lsof     8285  root  txt    REG  253,0   125544 4068473 /opt/sbin/lsof

You need to stop pgsql service, enter:
/usr/syno/etc/rc.d/S20pgsql.sh stop
Sample outputs:
Stopping PostgreSQL...
In short, you need to stop services that are running and accessing data shares such as SMB,NFS,pgsql,mysql and so on. You can use web interface to stop these services too. cd to /usr/syno/etc/rc.d/ and stop all file sharing services. Finally, unmount volumes as follows:
umount /volume1/
umount /opt

Verify that /opt and /volume1/ are unmounted:
df
Sample outputs:

Filesystem           1K-blocks      Used Available Use% Mounted on
/dev/md0               2451064    437408   1911256  19% /
/tmp                    255700       264    255436   0% /tmp

Run fsck on ext4 file system:
fsck.ext4 -v /dev/vg1/volume_1
OR
e2fsck -p -y -f -v /dev/vg1/volume_1
Sample outputs:

e2fsck 1.41.12 (17-May-2010)
1.41.12-2198: is cleanly umounted, 474816/182845440 files, 55587266/731381760 blocks
 (check after next mount)

Reboot the server:
reboot

Check out related media

This tutorial is also available in a quick video format:

(Video.01: Synology nas complete fsck using fsck.ext4 command)

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{ 12 comments… read them below or add one }

1 Jorge October 5, 2012 at 11:32 am

Good article!

But I have a problem when I’ve tried to check the file system. The problem is the command “lsof” that isn’t supported in my synology. I have the DSM 4.1

How can I use the “lsof” command or other to check for services which have any open file?

Thanks

Jorge

Reply

2 nixCraft October 5, 2012 at 12:03 pm

I’m also using DSM 4.1. The lsof command is not part of DSM and you need to install it. I will cover it up in another article soon.

Reply

3 Jorge October 5, 2012 at 1:00 pm

Ok, thanks

I’ll wait for your article

Reply

4 Tom January 9, 2013 at 4:26 pm

Hi Vivek – is the article available yet?

Reply

5 Mike February 27, 2013 at 7:33 am

Good article – Thanks!
I’m trying to run the check myself… here’s what I’ve found:
the lsof command is part of the ipkg package which you need to install yoursef.
instructions here:
http://www.peppercrew.nl/index.php/2012/04/how-to-install-ipkg-on-synology-nas-ds212/

make sure you stop all the services!
“/usr/syno/etc/rc.d/S25download.sh stop”, “/usr/syno/etc/rc.d/S20pgsql.sh stop”, “/usr/syno/etc/rc.d/S80Samba.sh stop”, “/usr/syno/etc/rc.d/S83nfsd.sh stop”.
from here:
http://forum.synology.com/wiki/index.php/How_to_give_your_disks_and_files_a_health_check_and_repair_basic_faults

I didn’t know, but realized that the /dev/vg1/volume_1 is the original mount point for /volume1/ which was confusing… something I had to take note of before running umount.

you may want to type ‘mount’ to find out which file system you’re using if you don’t already know

after the unmount my NAS beeps every 3 seconds. it’s annoying and loud. seems to be the last hurdle.

Reply

6 Daniel M March 6, 2013 at 11:03 pm

Thanks for the article! But, unfortunately we don’t have the lsof command on our Synology NAS neither, and the whole article is based on that :(

Reply

7 Daniel M March 6, 2013 at 11:32 pm

Easier way to do it would be this:

syno_poweroff_task
umount /volume1
fsck.ext4 -pvf /dev/md2

At least that’s how it worked for me.

Reply

8 sdfdf August 27, 2013 at 10:20 pm

Didn’t need to umount volume1 after the poweroff task – was already unmounted.

Reply

9 Jens September 24, 2013 at 8:51 pm

syno_poweroff_task kills my ssh and/or telnet session (Connection closed by foreign host.) and the web interface, still responds to ping however…

Reply

10 Jens November 22, 2013 at 1:03 pm

I had introduced some problems by using ipkg appareantly, after reinstalling the os this worked.

Reply

11 themadmax November 22, 2013 at 11:52 am

Great work for me, did not kill ssh connection !

Reply

12 Mike March 22, 2013 at 6:04 pm

I ran into an issue running the e2fsck command – it seems that the p and y flag conflict.

from the docs:
-y
Assume an answer of ‘yes’ to all questions; allows e2fsck to be used non-interactively. This option may not be specified at the same time as the -n or -p options.

I just stick with p.

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