Added sample sub-program with needed changes to main, Makefiles, Context, FileRecordMgr, and RecordOutputMgr.

New unit tests for sort order enforcement, non-existant file. Also added performance test for file input and compression types.

Added 12 new tests to print header for files with large header from uncompressed files, gzip, and bgzip as file, redirect, pipe and fifo.

Added more unit tests for bed, gzip, and bgzipped files with large headers from file, redirect, pipe and fifo.

Fixed a bug in BamRecord::printUnmapped, added a unit test with with data file for unmapped Bam reads.

Moved short circuit for BAM unmapped reads to Record::sameChromIntersect for when query record isn't BAM but DB record is.

Shortened output buffer, corrected Chromsweep errors with some print options due to early termination.

add missing include to prevent compilation error

Update slop.rst

Update quick-start.rst

Fixed typo

Update quick-start.rst

-v on 3rd example too