[Bioperl-guts-l] bioperl-live Changes,1.45,1.46

Jason Stajich jason at pub.open-bio.org
Tue Apr 26 13:18:58 EDT 2005


Update of /home/repository/bioperl/bioperl-live
In directory pub.open-bio.org:/tmp/cvs-serv1551

Modified Files:
	Changes 
Log Message:
changes since 1.5.0 (probably incomplete)


Index: Changes
===================================================================
RCS file: /home/repository/bioperl/bioperl-live/Changes,v
retrieving revision 1.45
retrieving revision 1.46
diff -C2 -d -r1.45 -r1.46
*** Changes	11 Nov 2004 20:14:17 -0000	1.45
--- Changes	26 Apr 2005 17:18:55 -0000	1.46
***************
*** 3,6 ****
--- 3,27 ----
  Revision history for Bioperl core modules
  
+     o Bio::Tools::Phylo::PAML - parsing RST (ancestral sequence
+       reconstruction) is now supported.  Parsing different models and 
+       branch specific parametes are now supported.
+ 
+     o Bio::Factory::FTLocationFactory - parse hierarchical locations 
+       (joins of joins)
+ 
+     o Bio::Matrix::DistanceMatrix returns arrayrefs instead of arrays
+       for getter/setter functions
+ 
+     o Bio::SearchIO
+       
+       blast bug #1739; match scientific notation in score 
+       and possible e+ values 
+ 
+       fix off-by-one error in psl parsing
+ 
+     o Bio::Tools::Hmmpfam 
+       make e-value default score displayed in gff, rather than raw score
+       allow parse of multiple records
+ 
  1.5 branch
  



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