Linux - SecurityThis forum is for all security related questions.
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Maybe the Linux Encryption Howto is what you are looking for? If you want to encrypt a file and it's executable you could go for a executable protector ... like UPX ... just google
If you define "protect" as "hide", then it's possible to do so. Even the root user won't be able to find or handle 'em w/o reboot or other countermeasures. Look into the Grsecurity(.net) kernel patches and read the ACL docs.
*Another way would be to use a Linux Kernel Module (LKM) that does hiding of processes and files. Don't try this on a box you don't own (and even then) as it's obviously one of the most severe compromises of security.
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