A method of automatically generating secure code includes: receiving source code and security constraints for the source code, the security constraints encoding, to what extend a variable in the source code is considered secure; and generating secure code from the source code and the security constraints by replacing non-secure operations in the source code, which operate on the variables considered as secure, with secure operations; wherein a secure operation is an operation, which, when applied to at least one encrypted variable, generates an encrypted result, which, when decrypted, is the result of the non-secure operation applied to the not encrypted variable.