add release notes
multithreading leads to dropped reads
update the release notes too
Merge pull request #682 from ged-lab/doc/681

add release notes and document known issue
add the seqan headers
Fix mismatched include guards, remove deprecated register specification, switch from unnamed to named POSIX semaphore, as unnamed semaphores are deprecated and unsupported on OS X
Add necessary semaphore/fcntl includes to system_sema.h.  Add c++98/c++11 checking to auto/unique ptrs in gff_stream.h
first pass seqan impl
streaming of plain and gzipped FAST[AQ]
restore header order
don't mmap plain FAST[AQ] files
remove extra line from ChangeLog
typo
restore header orde
remove dropped reads known issue