I\'m hoping to encrypt a few files using ChaCha, so I wonder if it\'s appropriate to use Chacha20Poly1305. It seems that this class is designed for TLS, so does that mean it
You can simply use the ChaChaEngine class that is referenced by the Chacha20Poly1305 class. The Engine classes contain implementations of the various cipher classes.
Besides that, the JCA provides a higher level API to work with the various ciphers. So you can also use:
Security.addProvider(new BouncyCastleProvider());
Cipher c = Cipher.getInstance("ChaCha");
After which the normal Java CipherInputStream and CipherOutputStream will become available.
Note that using Poly1305 does provide additional authentication. This is often not a requirement for file encryption, but it does provide an additional layer of security. If you want to have authenticated encryption and you cannot work out how, then please ask a separate question.