2012-06-13  Faraz Hach  <fhach@cs.sfu.ca>
	* Phred offset is added.
	* DISCORDANT_CUT_OFF is added.
	* Bug related to MD is fixed.
	* Bug related to CIGAR is fixed.
	* Bug related to indexing is fixed.

2010-05-03  Faraz Hach  <fhach@cs.sfu.ca>
	* SAM field quality for fasta files is fixed.
	* Window size issues are fixed.
	* Path issues are fixed.
	* Comments in fastq/fasta files are ignored.

2010-02-08  Faraz Hach  <fhach@cs.sfu.ca>
	* SAM field flag is fixed.
	* Paths in discordant-vh mode is fixed.
	* --min and --max parameters are now defining template length (the
	distance between outer edges of the mapping).

2009-12-08  Faraz Hach  <fhach@cs.sfu.ca>
	* Cache oblivious algorithm is implemented (2x speed up)
	* Bugs related to PE mode are fixed.
	* Bisulfite support is dropped.
	* VariationHunter mode is added.

2009-09-11  Faraz Hach  <fhach@cs.sfu.ca>
	* Bug related to reporting same location multiple times is fixed.

2009-07-31  Faraz Hach  <fhach@cs.sfu.ca>
	* Bug #2828635 is fixed.
	* Bug #2828636 is fixed.
	* Serveral Bugs in PE mode is fixed.
	* SAM field TLEN is fixed.
	* --crop is added to command line options.

2009-06-17  Faraz Hach  <fhach@cs.sfu.ca>
	* Performance Improvement.

2009-06-04  Faraz Hach  <fhach@cs.sfu.ca> 
	* SAM fields CIGAR and MD are implemented.
	* Screen log output is modified.
	* Same mate pair names without identifiers (/1,/2) in two files are supported.

2009-06-01  Faraz Hach  <fhach@cs.sfu.ca>
	* Command line options are simplified.
	* Support for reading gzip files are added
	* Support for outputing in gzip format is added.
	* Support for SAM output is added.
	* Multiple bug fixes related to memory leackage during indexing is fixed.
	* Memory Usage is reported in the output.