Repartitioned HD and recovered Ubuntu. Now gparted error Overlapping Partitions

[abbyhageman]

I have dual boot Windows 10 and Ubuntu 15.10. Windows on primary drive. Ubuntu, Ubuntu swap, and windows data on secondary drive in 3 partitions. I ran out of room in Ubuntu. So I wanted to resize the secondary drive partitions to make room.

I don't know a lot about ubuntu or I probably would have known a better way to backup and recover ubuntu. So I used Acronis 2014 to backup my secondary drive partitions on a external drive. Then I deleted all partitions from the secondary drive and created new ones in different sizes. Then I copied back the partition backups (one ubuntu, one swap, one windows data) to the new partitions. I can boot into Windows 10 just fine, data on secondary is fine. I can boot into Ubuntu just fine. The problem is that when I opened gparted to check the partitions I got the error:
Libparted Bug Found!
Can't have overlapping partitions.
Cancel Ignore

I click ignore and select the secondary disk. It shows two duplicate partitions greyed out that shouldn't be there. I can't do anything with them. The other partitions are there, but squished in the middle of the two greyed out ones. I go into Windows 10 and look at the partitions and they look perfect.

I have a hunch that something broke from the move, but I have no idea what. I don't get it. Any ideas? Suggestions? Please talk to me like a newbie. Thank you in advance.

P.S. I still have the backups, and I haven't tried to boot with a live disk and reinstall, either. Just not sure what would be easiest, fastest fix.
266203266204266205

[oldfred]

Post these:
sudo parted /dev/sda unit s print

sudo parted /dev/sdb unit s print
sudo fdisk -lu

[abbyhageman]

Ok here it is :}


abby@Abby-Laptop-Ubuntu:~$ sudo parted /dev/sda unit s print
[sudo] password for abby:
Model: ATA Crucial_CT256MX1 (scsi)
Disk /dev/sda: 500118192s
Sector size (logical/physical): 512B/4096B
Partition Table: gpt
Disk Flags:

Number Start End Size File system Name Flags
1 2048s 923647s 921600s ntfs Basic data partition hidden, diag
2 923648s 1128447s 204800s fat32 EFI system partition boot, esp
3 1128448s 1161215s 32768s Microsoft reserved partition msftres
4 1161216s 500115455s 498954240s ntfs msftdata


abby@Abby-Laptop-Ubuntu:~$ sudo parted /dev/sdb unit s print
Error: Can't have overlapping partitions.
Ignore/Cancel? ignore
Model: ATA TOSHIBA MQ01ABD1 (scsi)
Disk /dev/sdb: 1953525168s
Sector size (logical/physical): 512B/512B
Partition Table: msdos
Disk Flags:

Number Start End Size Type File system Flags
1 440403968s 1953523711s 1513119744s primary ntfs
2 2048s 440403968s 440401921s extended
5 4096s 419432447s 419428352s logical ext4
6 419434496s 440403967s 20969472s logical linux-swap(v1)


abby@Abby-Laptop-Ubuntu:~$ sudo fdisk -lu
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/sda: 238.5 GiB, 256060514304 bytes, 500118192 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: gpt
Disk identifier: 5A4C1F99-35B6-44A1-ACFA-6BDE3072D447

Device Start End Sectors Size Type
/dev/sda1 2048 923647 921600 450M Windows recovery environment
/dev/sda2 923648 1128447 204800 100M EFI System
/dev/sda3 1128448 1161215 32768 16M Microsoft reserved
/dev/sda4 1161216 500115455 498954240 237.9G Microsoft basic data


Disk /dev/sdb: 931.5 GiB, 1000204886016 bytes, 1953525168 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: 0x9e2c082a

Device Boot Start End Sectors Size Id Type
/dev/sdb1 440403968 1953523711 1513119744 721.5G 7 HPFS/NTFS/exFAT
/dev/sdb2 2048 440403968 440401921 210G 5 Extended
/dev/sdb5 4096 419432447 419428352 200G 83 Linux
/dev/sdb6 419434496 440403967 20969472 10G 82 Linux swap / Solaris

Partition table entries are not in disk order.


Disk /dev/sdc: 3.7 TiB, 4000787025920 bytes, 976754645 sectors
Units: sectors of 1 * 4096 = 4096 bytes
Sector size (logical/physical): 4096 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 268431360 bytes
Disklabel type: dos
Disk identifier: 0x2275df8b

Device Boot Start End Sectors Size Id Type
/dev/sdc1 2048 976752639 976750592 3.7T 7 HPFS/NTFS/exFAT


Disk /dev/sdd: 2.7 TiB, 3000558944256 bytes, 732558336 sectors
Units: sectors of 1 * 4096 = 4096 bytes
Sector size (logical/physical): 4096 bytes / 4096 bytes
I/O size (minimum/optimal): 4096 bytes / 4096 bytes
Disklabel type: dos
Disk identifier: 0x000246c6

Device Boot Start End Sectors Size Id Type
/dev/sdd1 256 732558335 732558080 2.7T 7 HPFS/NTFS/exFAT

[oldfred]

I do not see overlap, but you do not have a one sector space between the end of sdb2 the extended partition and the start of sdb1. Do not know all of details of partition rules, but think there is a one sector requirement somewhere.

First backup partition table, use your drive for sdX or sda, sdb etc. copy to another device.
sudo sfdisk -d /dev/sdX > parts.txt
sudo sfdisk -d /dev/sdb > parts_sdb.txt

See if fixparts will rewrite partition table. Not sure it will as not normally for overlapping issues. But the one sector may be something it can change easily.

Fixparts - Repair broken partition tables (not overlapping issues) & delete Stray gpt data from MBR drives
http://ubuntuforums.org/showthread.php?t=1667614&p=10367957#post10367957
http://ubuntuforums.org/showthread.php?t=1705325
http://www.rodsbooks.com/fixparts/

Otherwise we may have to manually edit the parts_sdb.txt and reinstall it.

Since you now have an UEFI hardware system and gpt partitioning on sda, you should plan on using gpt for all new or all drives totally reformatted. Windows only boots from gpt partitioned drives with UEFI. I started converting drives to gpt years ago, kept XP on MBR(msdos) but had all other new drives as gpt.


GPT Advantages (older but still valid) see post#2 by srs5694:
http://ubuntuforums.org/showthread.php?t=1457901
https://wiki.archlinux.org/index.php/GUID_Partition_Table#Advantages_of_GPT

[abbyhageman]

I will give this a shot. Thank you so much for taking the time to help me. :)

[abbyhageman]

Success! Thank you so much! The error is gone!

I ended up using the fixparts program in Windows because for some reason I couldn't get it to install in Ubuntu.

When I ran it- it said there was some GPT info but it wasn't a GPT formatted disk, and asked me if I wanted to delete it. I typed yes. Then I didn't know exactly what else to do so I made the other two partitions primary rather than logical. Then I exited.

I then checked the partitions on that disk in Windows and decided to shrink the last partition by a smidge. Exited. Booted into Ubuntu and no problem with gparted. Yay! Again, thank you so much. :D

266206(Pic or it didn't happen)
P.S. I will format GPT in the future, thank you for the information.

[oldfred]

Glad you were able to fix it. :)