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.

Because $(SOURCES) contains non-.cpp files, object files were being
built twice, once as .o and once (somewhat by luck!) as .h.

when the database (-b) file has many more intervals than the query file.
Thanks to Neil Kindlon (Quinlan Lab)."

sockaddr_in and sockaddr_in6 are defined in netinet/in.h, which may or may not be included by arpa/inet.h (per POSIX.1-2008). Explicitly include netinet/in.h to compilation on FreeBSD 9.0.