History.txt in egor-0.0.5 vs History.txt in egor-0.9.0

@@ -1,36 +1,38 @@
-== 0.0.5 2009-1-23
+== 0.9.0 13/2/2009
 
-* 4 major enhancement:
-  * Egor warns if your sigma value is too big for any amino acid count (minimum ratio of amino acid count to sigma value: 500.0)
-  * --augosigma option was added to avoid excessive influence of backgournd frequencies
-  * a bug in p2 probabilty calculation of the partial smoothing procedure was fixed
-  * a bug in total probability/log odds ratio calculation was fixed
+* Added --heatmap option for heat map generation from substitution tables
+* Added --heatmap-format option for heat map figure format (PNG, GIF, JPG, BMP, and PDF)
+* Added --heatmap-stem option to set a file name of total heat maps figure when --heatmap 1 or 2 is set
+* Added --heatmap-columns option to set the number of tables in a row when --heatmap 1 or 2 is set
+* Added --heatmap-values option to print values in the cells of heat maps
+* Renamed --noround option to --noroundoff
+* 'simple_memoize' RubyGem package is no longer required
 
-* 4 minor enhancement:
-  * --noround option was added to get original log odds ratios
-  * --p1smooth option was added to enable p1 probability smoothing when partial smoothing
-  * default verbosity has been changed from ERROR to WARN
-  * codes were refactored to be more human readable and DRY
+== 0.0.5 23/1/2009
 
-== 0.0.4 2008-12-15
+* Warns if your sigma value is too big for any amino acid count (minimum ratio of amino acid count to sigma value: 500.0)
+* Added --augosigma option to avoid excessive influence of background frequencies
+* Added --noround option was added to get original log odds ratios
+* Added --p1smooth option was added to enable p1 probability smoothing when partial smoothing
+* Fixed a bug in p2 probability calculation of the partial smoothing procedure
+* Fixed a bug in total probability/log odds ratio calculation
+* Changed default verbosity from ERROR to WARN
+* Refactored codes to be more human readable and DRY
 
-* 2 major enhancement:
-  * log-odds ratio matrices can be generated with --nosmooth option
-  * safe handling for zero observations or mutations of amino acids
+== 0.0.4 15/12/2008
 
-== 0.0.3 2008-12-09
+* Fixed a bug to generated log-odds ratio matrices with --nosmooth option
+* Copes with no observations or mutations
 
-* 2 major enhancement:
-  * An option '--cys (-j) 2' added not to distinguish J from C, so 'disulphide bond' environment feature is not prerequisite
-  * Masking works for target amino acid, too
+== 0.0.3 09/12/2008
 
-== 0.0.2 2008-11-13
+* Added --cys (-j) 2 not to distinguish J from C, so 'disulphide bond' environment feature is not prerequisite
+* Fixed a bug to make masking works for target amino acid, too
 
-* 2 major enhancement:
-  * Constrained environment features are properly handled
-  * Sane log-odds ratio matrices are produced
+== 0.0.2 13/11/2008
 
-== 0.0.1 2008-11-07
+* Supports user provided constrained environment features are properly handled
 
-* 1 major enhancement:
-  * Initial release
+== 0.0.1 07/11/2008
+
+* Initial release