Added encryption to SQZ format (AES128 only at the moment)
Updated some comments
Updated encryption to support a password stored in a file
renamed AES128 to AES-128
Needed to take into account edge-case where entire read is trimmed
Updated BZip2 to use Commons-Compress, allowed fastq-sqz to use stdin
Doc update
Added ability to write offsets
Major SQZ update - refactored to streams, format update, added bzip2
support