dependency checks added
document dependency on htslib
Preprocessor macro HAVE_HTSLIB
removed blank line
moved htslib checks
first push at hacking away old samrecord-based code
the PAR/DIV/UL are working
added missing prefix
got the right number of things now for U/M pairs
tentatively fully-featured version of process_readmappings
check for empty
working on mapping distances now
Reproduces previous insert size distribution
MAXPAIRS added
documentation, usage, cleanup
updated script
fixed extraneous dollar sign
cleanup your mess
fixed output format
will over-write now.  Checks for EOF of input.  Read name search removed