FileTransfer::chmod in core/includes/filetransfer/filetransfer.inc

Changes the permissions of the specified $path (file or directory).

FileTransfer::copyDirectory in core/includes/filetransfer/filetransfer.inc

Copies a directory.

FileTransfer::copyFile in core/includes/filetransfer/filetransfer.inc

Copies a file.

FileTransfer::fixRemotePath in core/includes/filetransfer/filetransfer.inc

Returns a modified path suitable for passing to the server.