various corrections

[ape.git] / ChangeLog

diff --git a/ChangeLog b/ChangeLog
index f59984ba0a79b20bbd2693075d1c0422eaa1aaf5..1088c13f58648f2cd2259838c48cb4f5d0d496d1 100644 (file)
--- a/ChangeLog
+++ b/ChangeLog
@@ -5,8 +5,14 @@ NEW FEATURES
 
     o The new function stree generates trees with regular shapes.
 
 
     o The new function stree generates trees with regular shapes.
 

-    o drop.tip(), extract.clade(), and root() now have an 'interactive'
-      option to make the operation on a plotted tree.
+    o It is now possible to bind two trees with x + y (see ?bind.tree for
+      details).
+
+    o drop.tip(), extract.clade(), root(), and bind.tree() now have an
+      'interactive' option to make the operation on a plotted tree.
+
+    o cophyloplot() gains two new arguments 'lwd' and 'lty' for the
+      association links; they are recycled like 'col' (which wasn't before).

 
 
 BUG FIXES
 
 
 BUG FIXES


@@ -18,6 +24,25 @@ BUG FIXES
       with NA values. Nothing is drawn now like with 'text' or 'pch'.
       The same bug occurred with the 'pie' option.
 
       with NA values. Nothing is drawn now like with 'text' or 'pch'.
       The same bug occurred with the 'pie' option.
 

+    o A bug was fixed in compar.ou() and the help page was clarified.
+
+    o bind.tree() has been rewritten fixing several bugs and making it
+      more efficient.
+
+    o plot.phylo(type = "p") sometimes failed to colour correctly the
+      vertical lines representing the nodes.
+
+    o plot.phylo(direction = "l", x.lim = 30) failed to plot the branches
+      in the correct direction though the tip labels were displayed
+      correctly.
+
+
+OTHER CHANGES
+
+    o The c, cbind, and rbind methods for "DNAbin" objetcs now check that
+      the sequences are correctly stored (in a list for c, in a matrix
+      for the two other functions).
+

 
 
        CHANGES IN APE VERSION 2.5
 
 
        CHANGES IN APE VERSION 2.5