Re: server 12.04 goes to sleep/hibernates and I don't know why
The packages you mentioned are not exactly web services.
Unless you were infected by a rootkit in your mbr/grub, then you have simply deleted the rootkit but are still infected.
I'm not even sure if the Grub installation/upgrade procedure rebuilds the MBR of your disk/partition.
It's highly likely those packages did not solve your problem.
linux-git/fs/super.c: "Self-destruct in 5 seconds. Have a nice day...\n",