APFS Partitions corrupted

apfsbootcampdisk-utilityhard drivepartition

I recently ran Boot Camp Assistant to remove the Windows partition from my 2017 MacBook Pro, but during the partitioning step I quit Boot Camp Assistant. After restarting the computer the next time, I got a flashing drive icon and macOS was no longer booting.

My only option at this point was Internet recovery. I tried running Disk Utility, unfortunately First Aid seems to be unable to fix the problem:

Looks like the APFS Container got corrupted.

diskutil apfs list

|
+-- Container ERROR -69808
|   ======================
|   APFS Container Reference:     disk1
|   Size (Capacity Ceiling):      ERROR -69620
|   Capacity In Use By Volumes:   ERROR -69620
|   Capacity Not Allocated:       ERROR -69620
|   |
|   +-< Physical Store disk0s2 2881B334-866B-4DC7-98F9-2DB0B583B353
|   |   -----------------------------------------------------------
|   |   APFS Physical Store Disk:   disk0s2
|   |   Size:                       451000901632 B (451.0 GB)
|   |
|   +-> No Volumes

Next, I tried diskutil repairVolume on the APFS Volume, but again, no luck:

diskutil repairVolume disk0s2
Started file system repair on disk0s2
Repairing storage system
Performing fsck_apfs -y -x /dev/disk0s2
warning: nx_block_count is 122061322, while device block count is 110107642
error: object (oid 0x1): o_cksum (0x50eca9de0b97f54e) is invalid for object
Checking the container superblock
Storage system check exit code is 8
Error: -69716: Storage system verify or repair failed
Underlying error: 8

GPT partitions:

Password:
     start       size  index  contents
         0          1         PMBR
         1          1         Pri GPT header
         2          4         Pri GPT table
         6      76800      1  GPT part - C12A7328-F81F-11D2-BA4B-00A0C93EC93B
     76806  110107642      2  GPT part - 7C3457EF-0000-11AA-AA11-00306543ECAC
 110184448   11953680         
 122138128          4         Sec GPT table
 122138132          1         Sec GPT header

Also, recovery tools like iBoysoft do see the APFS volumes and all the files after I provide the encryption password, so the volumes seems to be OK:

Is there any way I can re-build the partitions/APFS container so the disk will boot again? Any help would be much appreciated. Thanks!

Note: currently I am running a fresh install of Catalina on an external HDD.

Best Answer

Your best option is to use any recovery tools possible to mount the Volumes and get the files off the disk. If macOS Recovery can access it, then go to Disk Utility and simply make a disk image or something so that you have all your files. Then, remove the APFS Container Disk, and erase Apple SSD AP0512J... making sure that there is nothing left. Then, reinstall macOS from the reinstall macOS option in Recovery. This will allow your Mac to boot normally and you can later restore the files that you were able to previously recover.

Related Solutions

I think I messed up the Fusion Drive on the 1TB iMac (with BootCamp)

Theoretically everything is fine with your Fusion Drive. Fusion Drives look like this. Disk0 is your SSD with 121 GB and disk1 is your HDD with ~1 TB (~1.121 TB summed up).

The larger parts of your SSD (disk0s2) and your HDD (disk1s2) are pooled to a CoreStorage LVG (Fusion Drive: disk3) with a size of 967.8 GB. The rest is reserved for EFIs, a Recovery HD (alltogether ~1.3 GB) and your old Windows partition - now probably free space (~152 GB).

The logical volume 'Macintosh HD' (967.8 GB) spans disk0s2 and disk1s2. This is the first 'Macintosh HD' in picture 1. The volume 'Macintosh HD' - it's the one visible on the desktop - should ideally also have about 967.8 GB. This is the second 'Macintosh HD' in picture 1.
In fact it has only 852.67 GB (see picture 3).

In the second picture the logical volume 'Macintosh HD' is the first listed in black, the volume 'Macintosh HD' is the second listed in black, the other two 'Macintosh HD's listed in grey are the parts of your SSD and HDD dedicated to the logical volume 'Macintosh HD'.

In my opinion something went wrong after deleting various partitions with the Bootcamp Assistant/Disk Utility or in Windows.

Preparation:

Detach any external drive (especially your external Time Machine backup drive)
Restart to Internet Recovery Mode by pressing alt cmd R at startup.
The prerequisites are the latest firmware update installed, either ethernet or WLAN (WPA/WPA2) and a router with DHCP activated.
On a 50 Mbps-line it takes about 4 min (presenting a small animated globe) to boot into a recovery netboot image which usually is loaded from an apple/akamai server.

I recommend ethernet because it's more reliable. If you are restricted to WIFI and the boot process fails, just restart your Mac until you succeed booting.

Alternatively you may start from a bootable installer thumb drive (preferably Mavericks or Yosemite) or a thumb drive containing a full system (preferably Mavericks or Yosemite).

Now you may either repair CoreStorage or rebuild your Fusion Drive:

'Repair CoreStorage' (not recommended):

First i would try to check the volume 'Macintosh HD' with Disk Utility. If the volume is corrupted consider a reinstall of Mac OS X.
If the volume is ok quit Disk Utility
Open Terminal and enter diskutil unmountDisk /dev/LVIdentifier and both diskutil unmountDisk /dev/DiskContainingApple_CoreStorageIdentifier
In your case: first diskutil unmountDisk /dev/disk3 then diskutil unmountDisk /dev/disk0 and diskutil unmountDisk /dev/disk1
remove the EFI NO NAME partition with gpt remove -i IndexNumberOfEFINoName DiskIdentifier:
gpt remove -i 4 disk1
Remount the CoreStorage disks and then the Logical Volume:
In your case: first diskutil mountDisk /dev/disk0 and diskutil mountDisk /dev/disk1 and then diskutil mount /dev/disk3.

enter gpt -r -vvv show /dev/diskIdentfierOfApple_CoreStorage to get infos of your HDD CoreStorage disk.
In your case: gpt -r -vvv show /dev/disk1
It should look like this:

-bash-3.2# gpt -r -vvv show /dev/disk1
gpt show: /dev/disk1: mediasize=1000204886016; sectorsize=512;         blocks=1953525168
gpt show: /dev/disk1: PMBR at sector 0
gpt show: /dev/disk1: Pri GPT at sector 1
gpt show: /dev/disk1: GPT partition: type=C12A7328-F81F-11D2-BA4B-00A0C93EC93B, start=40, size=409600
gpt show: /dev/disk1: GPT partition: type=53746F72-6167-11AA-AA11-00306543ECAC, start=409640, size=1671210848
gpt show: /dev/disk1: GPT partition: type=426F6F74-0000-11AA-AA11-00306543ECAC, start=1671620488, size=1269760
gpt show: /dev/disk1: Sec GPT at sector 1953525167                               
     start          size  index contents                                        
         0             1        PMBR                                            
         1             1        Pri GPT header                                  
         2            32        Pri GPT table                                   
        34             6
        40        409600      1 GPT part - C12A7328-F81F-11D2-BA4B-00A0C93EC93B
    409640    1671210848      2 GPT part - 53746F72-6167-11AA-AA11-00306543ECAC
1671620488       1269760      3 GPT part - 426F6F74-0000-11AA-AA11-00306543ECAC
1672890248     280634887
1953525135            32        Sec GPT table
1953525167             1        Sec GPT header

The free space on your HDD has 280634887 blocks. Please calculate the biggest block number dividable through 8. That's 280634880 blocks (á 512 bytes) which equals 143685058560 B or ~143.7 GB. Add the size of your HDD CoreStorage Physical Volume (852666400768 B) The result is 143685058560 B + 852666400768 B = 996351459328 B
Resize your HDD CoreStorage physical volume with diskutil cs resizeDisk HDDPVUUID newsize
In your case: diskutil cs resizeDisk 93892BE8-2B7F-4ABD-A4C3-984495DCD98D 996351459328b
Calculate the maximal size of your CoreStorage Logical Volume in diskutil cs list: (size disk0s2) + (size disk1s2) In your case that's 120988852224 B + 996351459328 B = 1117340311552 B. That should be the size of your refreshed Logical Volume Group.
Resize your Logical Volume with diskutil cs resizeVolume LVUUID LVGSize-128 MB In your case that's diskutil cs resizeVolume D237FFDC-7DA4-41D7-AC13-4CC7E5E8C0A0 1117212311552b. If you get an error (There is not enough free space...) choose a smaller size like 1117148311552b.
Quit Terminal and open Disk Utility.
Check your expanded CoreStorage Volume for errors.
Quit Disk Utility, choose your CS volume as startup disk and restart your Mac

'Rebuild Fusion Drive' (recommended if you have a Time Machine backup)

Booted to Internet Recovery Mode open Utilities → Terminal in the menubar and enter:
diskutil cs list to get the CoreStorage listing.
Copy the Logical Volume UUID, it's the fifth listed.
Now delete the Logical Volume with diskutil cs deleteVolume LVUUID.
In your case: diskutil cs deleteVolume D237FFDC-7DA4-41D7-AC13-4CC7E5E8C0A0.
Copy the Logical Volume Group UUID, it's the first listed in the listing of diskutil cs list.
Then delete the Logical Volume Group with diskutil cs delete LVGUUID.
In your case: diskutil cs delete 1EFE58BC-3613-44C4-86EE-D816F3B66E3E
Enter exit and quit 'Terminal'
Open 'Disk Utility'. Enter 'Ignore' if you are asked to fix the drives.
Choose your SSD and partition it: 1 Partition Mac OS X Extended (Journaled), hit the Options button and choose GUID Partiton table and hit OK and Apply.
Please check that the size is ~121 GB

Example:
Choose your HDD and partition it: 1 Partition Mac OS X Extended (Journaled), hit the Options button and choose GUID Partiton table and hit OK and Apply.
Please check that the size is ~1 TB

Example:
Quit Disk Utility and open Terminal
Enter diskutil list

Example (your disk identifiers and sizes are different of course: Your volume SSD probably has the Identifier disk0s2 and the size 121 GB and your volume HDD probably has the Identifier disk1s2 and the size 1.0 TB):
Enter diskutil cs create "Name" IdentifierSSD IdentifierHDD
In your case probably diskutil cs create "Macintosh HD" disk0s2 disk1s2.

Copy the resulting LVGUUID

Example:
Enter diskutil cs CreateVolume LVGUUID jhfs+ "Macintosh HD" 100%.

Example:
Enter diskutil cs list
Check the size of your Logical Volume. It should have the size ~1.121 TB

Example:
Quit Terminal
Open 'Disk Utility' and check your newly created volume for errors
Quit 'Disk Utility'
Attach your external Time Machine backup drive or check this answer if you use NAS or another network share.
Open 'Restore from Time Machine Backup'
Choose the appropriate Time Machine backup and restore your system
Reboot to your restored system.
Unmount and detach your Time Machine backup drive
Open 'Terminal' and enter 'diskutil list'
Check if your 'Recovery HD' is listed.
If your 'Recovery HD' is missing, usually reinstalling your current system with the latest available system installer (e.g. 'Install OS X Mavericks (10.9.5)' if Mavericks is currently installed) will recreate it without loosing any data. AFAIK Recovery Partition Creator 3.8 will NOT create a Recovery HD on CoreStorage volumes.
After reinstalling the system with the latest available system installer open App Store and install the latest security fixes.

APFS container over multiple physical disks

There is no official documented way to add another physical storage to an existing APFS container.

I tried several possibly "undocumented" apfsVerbs like addPhysical, addPhysicalStorage or addStorage without success.

The feature may still be implemented later, since creating APFS FusionLCs is possible already:

diskutil ap createContainer [-main] device [-secondary] [device]

Example:

$ diskutil ap createContainer disk1s2 disk2s2    
Creating container with disk1s2 disk2s2
Started APFS operation on disk1s2 Data
Creating a new empty APFS Container
Unmounting Volumes
Switching disk1s2 to APFS
Switching disk2s2 to APFS
Creating APFS Container
FusionLC autodetect: LC Fusion
Created new APFS Container disk4
Disk from APFS operation: disk4
Finished APFS operation on disk1s2 Data

$ diskutil ap addVolume disk4 APFS Data
Exporting new unencrypted APFS Volume "Data" from APFS Container Reference disk4
Started APFS operation on disk4
Preparing to add APFS Volume to APFS Container disk4
Creating APFS Volume
Created new APFS Volume disk4s1
Mounting APFS Volume
Setting volume permissions
Disk from APFS operation: disk4s1
Finished APFS operation on disk4

Best Answer

Related Solutions

I think I messed up the Fusion Drive on the 1TB iMac (with BootCamp)

APFS container over multiple physical disks

Related Question