Filesystem not clean

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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.

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.
Fscheck legacy.png

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.
Fscheck hal.png

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.
Qpkg off.png

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 the SafeShutdown QFix to your NAS.
This QFix is to make file system in safe/clean status when shutting down the system. Please be aware below information.
1. This QFix can be applied on the QTS version 4.2.0 or later version.
2. It is not necessary to apply this QFix after next official QTS firmware release. (after build20160114)   

After downloading it, please extract the file and then update this QFix  via the firmware update page. 

Download link:

Legacy Models CPU Type SafeShutdown QFix
x10 Series; all models ARM
x12 Series; all models ARM
x19 Series; all models ARM
x20 Series; all models ARM
x21 Series; all models ARM
TS-509 Pro Intel
TS-809/TS-809U Intel
x39 Series; all models Intel
x59 Series; all models Intel
Home/SOHO Models CPU Type SafeShutdown QFix
x28 Series; all models ARM
x31 Series (without + ) ARM
x31+ Series ARM
TAS-x68 Series; all models ARM
HS-251 Intel
TS-x51 Series; all models Intel
SMB Models CPU Type SafeShutdown QFix
x53 Series; all models Intel
x63 Series; all models AND
x69 Series; all models Intel
x70 Series; all models Intel
x71 Series; all models Intel
Enterprise Models CPU Type SafeShutdown QFix
x79 Series; all models Intel
x80 Series; all models Intel