2014-03-31  Faraz Hach  <fhach@sfu.ca>
	* Added with-sse4 option to Makefile
	* Bug reported by viktor in dc mode is fixed.

2014-01-14  Faraz Hach  <fhach@sfu.ca>
	* Bug related to calculation of q-grams with respect to last character
	of referencce genome is fiexed..
	* Code is ported to OS X Mavericks.
	* Code is compatible with clang.
	* Make file is modified to handle OS X help file generation.
	* New GUI is released for use of mrsfast-ultra.

2013-09-13  Faraz Hach  <fhach@cs.sfu.ca>
	* Bug fixes.

2013-07-23  Faraz Hach  <fhach@cs.sfu.ca>
	* Patch sent by J.K Teer is applied on Reads.c for gzip PE input.

2013-06-07  Faraz Hach  <fhach@cs.sfu.ca>
	* Bug fixes.

2013-01-16  Faraz Hach  <fhach@cs.sfu.ca>
	* First Release of mrsfast-ultra BETA. 
	* New High Performance mapper
	* SNP-aware mapping mode.

2012-11-14  Faraz Hach  <fhach@cs.sfu.ca>
	* Bug fix with respect to quality end null characters.

2012-08-18  Faraz Hach  <fhach@cs.sfu.ca>
	* DIVET output format is fixed. 

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.