Filesystem not clean

This message, "The file system is not clean, please..." is to notice the user to do the file system check to make sure the data integrity. Generally, it happens when the data volume is not un-mounted properly. It could be:

1. The abnormal shutdown or force power off the NAS.
2. Some services are not stopped properly during the shutdown.
3. Other unexpected cases cause the data volume is not un-mounted properly.

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There are two series of NAS, legacy and HAL models and there are some differences in the web GUI of the storage management. You can refer to below screenshots to find the proper one for you.
Legacy Models

Bay Number	Model Name
1-Bay	TS-110, TS-112, TS-112P, TS-119, TS-119P+, TS-119P II, TS-120, TS-121
2-Bay	TS-210, TS-212, TS-212-E, TS-212P, TS-219, TS-219P, TS-219P+, TS-219P II, TS-220, TS-221, TS-239 Pro, TS-239 Pro II, TS-239 Pro II+, TS-259 Pro, TS-259 Pro+, HS-210, TS-269H
4-Bay	TS-410, TS-410U, TS-412, TS-412U, TS-419P, TS-419P+, TS-419P II, TS-419U, TS-419U+, TS-419U II, TS-420, TS-420U, TS-421, TS-421U, TS-439 Pro, TS-439 Pro II, TS-439 Pro II+, TS-439U-RP/SP, TS-459 Pro, TS-459 Pro II, TS-459 Pro+,    TS-459U-RP/SP, TS-459U-RP+/SP+
5-Bay	TS-509 Pro, TS-559 Pro, TS-559 Pro+, TS-559 Pro II
6-Bay	TS-639 Pro, TS-659 Pro, TS-659 Pro+, TS-659 Pro II
8-Bay	TS-809 Pro, TS-809U-RP, TS-859 Pro, TS-859U-RP+, TS-859 Pro+, TS-859U-RP, SS-439 Pro, SS-839 Pro

Please login QTS web page and go to Control Panel --> System Settings --> Storage Management --> Volume Management. Click on [Check File System] button to start the file system check.
<img src="/mediawiki/images/f/fe/Fscheck_legacy.png" _fck_mw_filename="Fscheck legacy.png" width="858" height="313" _fck_mw_origimgwidth="983" _fck_mw_origimgheight="376" alt="Fscheck legacy.png" title="Fscheck legacy.png" style="vertical-align:middle;" />

HAL Models

Bay Number	Model Name
1-Bay	TS-131, TS-128
2-Bay	TS-231, TS-231+, TS-251, TS-251+, HS-251, HS-251+, TS-253A, TS-253 Pro, TS-251C, TS-269L, TS-269 Pro, TS-228
4-Bay	TS-431, TS-431U, TS-431+, TS-451, TS-451+, TS-451S, TS-451U, TS-453A, TS-453S Pro, TS-453 Pro, TS-463U, TS-463U-RP, TS-469 Pro, TS-469L, TS-469U-RP, TS-469U-SP, TS-470, TS-470U-RP, TS-470U-SP, TS-470 Pro, TVS-463, TVS-471,        TVS-471U, TVS-471U-RP, TS-453U, TS-453U-RP, TS-453mini, IS-453S
5-Bay	TS-569 Pro, TS-569L, TS-563
6-Bay	TS-651, TS-653A, TS-653 Pro, TS-669 Pro, TS-669L, TS-670 Pro, TS-670, TVS-663, TVS-671
8-Bay	TS-851, TS-853A , TS-853 Pro, TS-853S Pro, TS-853U, TS-853U-RP, TS-863U, TS-863U-RP, TS-869 Pro, TS-869L,               TS-869U-RP, TS-870 Pro, TS-870, TS-870U-RP, TS-879 Pro, TS-879U-RP, TVS-EC880, TVS-871, TVS-871U-RP, TVS-863, TVS-863+, TS-EC880U-RP, TS-EC880 Pro, TS-EC879U-RP
10-Bay	TS-1079 Pro, TVS-EC1080+, TVS-EC1080, TS-EC1080 Pro
12-Bay	TS-1253U, TS-1253U-RP, TS-1263U, TS-1263U-RP, TS-1269U-RP, TS-1270U-RP, TVS-1271U-RP, TS-1279U-RP,                TS-EC1279U-RP, TS-EC1279U-SAS-RP, SS-EC1279U-SAS-RP, TS-EC1280U-RP, TVS-EC1280U-SAS-RP
15-Bay	TVS-EC1580U-SAS-RP
16-Bay	TS-1679U-RP, TS-EC1679U-RP, TS-EC1679U-SAS-RP, TS-EC1680U-RP, TVS-EC1680U-SAS-RP
18-Bay	SS-EC1879U-SAS-RP
24-Bay	SS-EC2479U-SAS-RP, TS-EC2480U-RP, TVS-EC2480U-SAS-RP

Please login QTS web page and go to Control Panel --> System Settings --> Storage Management --> Storage Space. At the right panel, please click on the storage pool to expand it. Select on the data volume and click [Manage] button. It will popup the data volume management dialog. Click [Actions] button and select Check File System to start the file system check.
<img src="/mediawiki/images/0/0f/Fscheck_hal.png" _fck_mw_filename="Fscheck hal.png" width="849" height="397" _fck_mw_origimgwidth="942" _fck_mw_origimgheight="426" alt="Fscheck hal.png" title="Fscheck hal.png" style="vertical-align:middle;" />

If you encountered problems to run the filesystem check, like failed to umount volume, you may try to stop all qpkg services in AppCenter like below.
<img src="/mediawiki/images/b/b3/Qpkg_off.png" _fck_mw_filename="Qpkg off.png" width="851" height="369" _fck_mw_origimgwidth="1360" _fck_mw_origimgheight="667" alt="Qpkg off.png" title="Qpkg off.png" style="vertical-align:middle;" />

And reboot the NAS. Then run the filesystem check again.

If you still have the same issue after the file system check and reboot properly, you can download and apply hot fix to your NAS.

Download link:

x86 models   : <a href="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_x86.zip" alt="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_x86.zip" title="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_x86.zip">http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_x86.zip</a>

TS-x31          : <a href="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_ms.zip" alt="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_ms.zip" title="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_ms.zip">http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_ms.zip</a>

TS-x31+        : <a href="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_al.zip" alt="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_al.zip" title="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_al.zip">http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_al.zip</a>

Marvell ARM : <a href="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_kw.zip" alt="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_kw.zip" title="http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_kw.zip">http://download.qnap.com/Storage/tsd/qfix/SafeShutdown_0.3_arm_kw.zip</a>

Please extract the downloaded file and then do the firmware update.