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You can encypt directories and files, but not a partition.
When using EFS, there are some things to remember.
First, Create a folder and then encrypt.
Second, export your key, just in case your system crashes and you need to retrieve the file.
Third, all files that are meant to be encypted are first created inside the folder. Do not move files into the folder or save files into the folder. Always create a new file first. Then open it in inside the encry folder.
Encrypting a partition will create alot of overhead on the OS, and when the system is booting it, if it is the /boot partition, will not be able to load up if it is encrypted.