Unexpected inconsistency; run fsck manually

[igorsrb]

Ubuntu 16 ( I update it religiously) not loading following problems with BIOS/visual signal every so often.

Got the following:



/dev/sda5 contains a file system with errors, check forced.
Inodes that were part of a corrupted orphan linked list found.

/dev/sda5: UNEXPECTED INCONSISTENCY; RUN fsck MANUALLY.
Fsck exited with a status code 4
The root filesystem on /dev/sda5 requires a manual fsck

BusyBox v1.22.1 (Ubuntu 1:1.22.0-15ubuntu1) built in shell (ash)

Any help is greatly appreciated.

Thanks

[TheFu]

Unmount the partition using it and run sudo fsck /dev/sda5 manually.
If it is the / partition, then you'll need to sudo touch /forcefsck and reboot. It will be checked after the reboot.

Or

You can boot from alternate media (optical or flash drive) and run it manually.

"16" isn't enough to tell us the correct version. 16.04 is an LTS and has 5 yrs of support. 16.10 is NOT an LTS and will be supported until June/July this year. Most people should stay on 16.04.x for the most support and greatest stability until 18.04 is released.

[Bashing-om]

igorsrb; Hello; Welcome to the forum.

The partition sda5 deserves a close inspection.
From a liveDVD(USB) booted in try ubuntu mode - terminal:
Post back the results - Between code tags - of terminal commands:


sudo parted -l
sudo fdisk -lu
sudo blkid

So we know what we are working with.
Then we do as the system advises and run a manual file system check from the live environment.
code tag tutorial:
http://ubuntuforums.org/showthread.php?t=2171721&p=12776168#post12776168



we can do that

[igorsrb]

Model: ATA ST1000LM024 HN-M (scsi)
Disk /dev/sda: 1000GB
Sector size (logical/physical): 512B/4096B
Partition Table: msdos
Disk Flags:

Number Start End Size Type File system Flags
1 1049kB 496GB 496GB primary fat32 boot, lba
2 496GB 986GB 490GB extended
5 496GB 982GB 486GB logical ext4
6 982GB 986GB 4192MB logical linux-swap(v1)
3 986GB 1000GB 14.5GB primary fat32 lba


Model: Verbatim STORE N GO (scsi)
Disk /dev/sdb: 15.6GB
Sector size (logical/physical): 512B/512B
Partition Table: msdos
Disk Flags:

Number Start End Size Type File system Flags
1 1049kB 15.6GB 15.6GB primary fat32 boot, lba


Disk /dev/ram0: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram1: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram2: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram3: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram4: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram5: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram6: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram7: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram8: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram9: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram10: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram11: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram12: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram13: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram14: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/ram15: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes


Disk /dev/loop0: 1.4 GiB, 1497772032 bytes, 2925336 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 /dev/sda: 931.5 GiB, 1000204886016 bytes, 1953525168 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes
Disklabel type: dos
Disk identifier: 0x2bfb4dc8

Device Boot Start End Sectors Size Id Type
/dev/sda1 * 2048 967784881 967782834 461.5G c W95 FAT32 (LBA)
/dev/sda2 967786494 1925206015 957419522 456.5G 5 Extended
/dev/sda3 1925206016 1953524079 28318064 13.5G c W95 FAT32 (LBA)
/dev/sda5 967786496 1917016063 949229568 452.6G 83 Linux
/dev/sda6 1917018112 1925206015 8187904 3.9G 82 Linux swap / Solaris

Partition 2 does not start on physical sector boundary.
Partition table entries are not in disk order.




Disk /dev/sdb: 14.6 GiB, 15640600576 bytes, 30548048 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
Disklabel type: dos
Disk identifier: 0x02b9d71a

Device Boot Start End Sectors Size Id Type
/dev/sdb1 * 2048 30548047 30546000 14.6G c W95 FAT32 (LBA)




/dev/sda1: LABEL="FD_BETA9SR2" UUID="3873-1AF8" TYPE="vfat" PARTUUID="2bfb4dc8-01"
/dev/sda3: UUID="B498-74ED" TYPE="vfat" PARTUUID="2bfb4dc8-03"
/dev/sda5: UUID="e76ac860-e581-46e6-ab26-933e2b6cc202" TYPE="ext4" PARTUUID="2bfb4dc8-05"
/dev/sdb1: LABEL="UBUNTU 16_0" UUID="1272-E8C8" TYPE="vfat" PARTUUID="02b9d71a-01"
/dev/loop0: TYPE="squashfs"
/dev/sda6: UUID="8fca17e0-decf-4a43-b073-2e96424e6fe8" TYPE="swap" PARTUUID="2bfb4dc8-06"

[yancek]

sda5 is your Ubuntu partition so the methods suggested in post # 2 above should work.

[igorsrb]

so pretty much the same problem came back a few months later


Model: ATA ST1000LM024 HN-M (scsi)
Disk /dev/sda: 1000GB
Sector size (logical/physical): 512B/4096B
Partition Table: msdos
Disk Flags:


Number Start End Size Type File system Flags
1 1049kB 496GB 496GB primary fat32 boot, lba
2 496GB 986GB 490GB extended
5 496GB 982GB 486GB logical ext4
6 982GB 986GB 4192MB logical linux-swap(v1)
3 986GB 1000GB 14.5GB primary fat32 lba




Model: Verbatim STORE N GO (scsi)
Disk /dev/sdb: 15.6GB
Sector size (logical/physical): 512B/512B
Partition Table: msdos
Disk Flags:



Number Start End Size Type File system Flags
1 1049kB 15.6GB 15.6GB primary fat32 boot, lba






Disk /dev/ram0: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes

I/O size (minimum/optimal): 4096 bytes / 4096 bytes





Disk /dev/ram1: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram2: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram3: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram4: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram5: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram6: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram7: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram8: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram9: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram10: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram11: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram12: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram13: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram14: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/ram15: 64 MiB, 67108864 bytes, 131072 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes




Disk /dev/loop0: 1.4 GiB, 1497772032 bytes, 2925336 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 /dev/sda: 931.5 GiB, 1000204886016 bytes, 1953525168 sectors
Units: sectors of 1 * 512 = 512 bytes
Sector size (logical/physical): 512 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes
Disklabel type: dos
Disk identifier: 0x2bfb4dc8


Device Boot Start End Sectors Size Id Type

/dev/sda1 * 2048 967784881 967782834 461.5G c W95 FAT32 (LBA)
/dev/sda2 967786494 1925206015 957419522 456.5G 5 Extended
/dev/sda3 1925206016 1953524079 28318064 13.5G c W95 FAT32 (LBA)
/dev/sda5 967786496 1917016063 949229568 452.6G 83 Linux
/dev/sda6 1917018112 1925206015 8187904 3.9G 82 Linux swap / Solaris


Partition 2 does not start on physical sector boundary.

Partition table entries are not in disk order.








Disk /dev/sdb: 14.6 GiB, 15640600576 bytes, 30548048 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
Disklabel type: dos
Disk identifier: 0x02b9d71a


Device Boot Start End Sectors Size Id Type

/dev/sdb1 * 2048 30548047 30546000 14.6G c W95 FAT32 (LBA)










/dev/sda1: LABEL="FD_BETA9SR2" UUID="3873-1AF8" TYPE="vfat" PARTUUID="2bfb4dc8-01"
/dev/sda3: UUID="B498-74ED" TYPE="vfat" PARTUUID="2bfb4dc8-03"

/dev/sda5: UUID="e76ac860-e581-46e6-ab26-933e2b6cc202" TYPE="ext4" PARTUUID="2bfb4dc8-05"

/dev/sdb1: LABEL="UBUNTU 16_0" UUID="1272-E8C8" TYPE="vfat" PARTUUID="02b9d71a-01"

/dev/loop0: TYPE="squashfs"

/dev/sda6: UUID="8fca17e0-decf-4a43-b073-2e96424e6fe8" TYPE="swap" PARTUUID="2bfb4dc8-06"

[Bashing-om]

igorsrb; Hello once again.

Boot to grub -> 'e' key for edit mode -> boot parameter screen.
Here arrow down to the line starting with linux and just before $vt_handoff add fsck.mode=force .
ctl+x to continue the boot process ( remove quiet splash if you want to see the boot messages) .
See:
https://www.freedesktop.org/software/systemd/man/systemd

This will check every filesystem you have on the machine.



my bit to try and help

[igorsrb]

igorsrb; Hello once again.

Boot to grub -> 'e' key for edit mode -> boot parameter screen.
Here arrow down to the line starting with linux and just before $vt_handoff add fsck.mode=force .
ctl+x to continue the boot process ( remove quiet splash if you want to see the boot messages) .
See:
https://www.freedesktop.org/software/systemd/man/systemd

This will check every filesystem you have on the machine.


my bit to try and help




what exactly do you mean by $vt_handoff? the /casper/vmlinuz.efi?

the line reads

linux /casper/vmlinuz.efi file=/cdrom/preseed/ubuntu.seed boot=casper_quiet \ splash ---

[Bashing-om]

igorsrb;

My referral is in regards to the actual installed system.
With the addition of fsck.mode=force as a boot parameter, the check runs before the file system is mounted .



clear as mud ?

[igorsrb]

bear with me now and explain to me like I am a 5 year-old

so I add the fsck.mode=force before the linux line



set gfxpayload=keep
fsck.mode=force
linux /casper/vmlinuz.efi file=/cdrom/preseed/ubuntu.seed boot=casper_quiet \ splash ---

[Bashing-om]

igorsrb; K;

In small steps . you are to boot the installed hard drive system to grub,
Now, if it is a EFI system as soon as the firmware screen clears, spam the escape key - there is but a 3 second window of opportunity for grub to see the escape key.
IF it is a legacy system then it is a shift key that grub recognizes . As soon as the bios screen clears depress and hold a shift key.

Advise when you are at the installed system's grub boot menu .



longest journey, even



small steps

[igorsrb]

I booted to grub already, got to edit mode with the e key, found the line starting with linux. It's the next step I wasn't clear about.

Do I insert the code "fsck.mode=force" and where and what exactly is " $vt_handoff " is what I am not clear.

[Bashing-om]

igorsrb;

nope;
In the installed boot parameter's screen is the line similar:


linux /boot/vmlinuz-3.13.0-24-generic root=UUID=217ed9a7-e11a-4e32-8c05-992e8c8932b6 ro quiet splash $vt_handoff




small steps

[igorsrb]

not in mine, this is all I got


set gfxpayload=keep
linux /casper/vmlinuz.efi file=/cdrom/preseed/ubuntu.seed boot=casper_quiet \ splash ---
initrd /casper/initrd.lz

[Bashing-om]

igorsrb;

That ^ is the live environment .

I say again you want to boot into the install on your hard drive .



we can do this

[igorsrb]

okay, got it,

so I type the "fsck.mode=force" as a separate line before the

linux /boot/vmlinuz-4.4.0-92-generic root=UUID=e76ac860-e\581-46e6/ab26-933e2b6cc202 ro quiet splash $vt_handoff

and then I boot it with ctrl-x or F10

[Bashing-om]

Agoigorsrb; progress made :)

But, no - not on a separate line.
Make it so:


linux /boot/vmlinuz-4.4.0-92-generic root=UUID=e76ac860-e\581-46e6/ab26-933e2b6cc202 ro quiet splash fsck.mode=force $vt_handoff

such that the term fsck.mode=force is inserted in the present line before $vt_handoff.

Now if you desire to see what the system is doing as it boots up , then delete the quiet splash terms .



no step for a stepper

[igorsrb]

got it, I'll try it without the quiet splash just to watch it do its thing

thanks for bearing with me

[igorsrb]

Inodes that were part of a corrupted orphan linked list found.

/dev/sda5: UNEXPECTED INCONSISTENCY; RUN fsck MANUALLY.
[ 5.385041] random: nonblocking pool is initalized
Fsck exited with a status code 4
done.
Failure: File system check of the root filesystem failed
The root filesystem on /dev/sda5 requires a manual fsck
[5.471021] hidraw: raw HDID events driver (C) Jiri Kosina
[5.478717] usbcore: registered new interface driver usbhid
[5.481547] usbhid: USB HID core driver

[Bashing-om]

igorsrb; YuK .

OK, we take the directive and run a more in depth check/repair.

Now we MUST boot up from the liveDVD(USB).

Once booted up from this live environment post back:


sudo parted -l

So that I know that the target for the file system check remains as "sda5 " .
Then I will provide the command to run the repair from this live environment.



ain't nothing but a thing

[igorsrb]

Model: ATA ST1000LM024 HN-M (scsi)
Disk /dev/sda: 1000GB
Sector size (logical/physical): 512B/4096B
Partition Table: msdos
Disk Flags:

Number Start End Size Type File system Flags
1 1049kB 496GB 496GB primary fat32 boot, lba
2 496GB 986GB 490GB extended
5 496GB 982GB 486GB logical ext4
6 982GB 986GB 4192MB logical linux-swap(v1)
3 986GB 1000GB 14.5GB primary fat32 lba


Model: Verbatim STORE N GO (scsi)
Disk /dev/sdb: 15.6GB
Sector size (logical/physical): 512B/512B
Partition Table: msdos
Disk Flags:

Number Start End Size Type File system Flags
1 1049kB 15.6GB 15.6GB primary fat32 boot, lba

[Bashing-om]

igorsrb; Great .

Target ID remains as "sda5"
Run from the liveDVD(USB):


sudo e2fsck -f -y -v /dev/sda5

Where fsck will try and auto fix the errors.



maybe Yes



could be not so yes

[igorsrb]

fixed a tonload of orphaned inodes, deleted one, I think it worked, thanks a million

[Bashing-om]

igorsrb; Great !

Fingers crossed.
Reboot into the install and see what you have now .



could be all rosy