change nlm to nlminb in ace() + new makeNodeLabel + fixed drop.tip

[ape.git] / ChangeLog

diff --git a/ChangeLog b/ChangeLog
index b6bffe8687b5bf9a7dc248c22ae7d5b7ed99725f..d659113a7cd989de0357b1303000d0a47674b66b 100644 (file)
--- a/ChangeLog
+++ b/ChangeLog
@@ -10,13 +10,22 @@ NEW FEATURES
     o The new function yule.time fits a user-defined time-dependent
       Yule model by maximum likelihood.
 
+    o The new function makeNodeLabel creates and/or modifies node
+      labels in a flexible way.
+
 
 BUG FIXES
 
     o drop.tip() shuffled tip labels in some cases.
 
+    o drop.tip() did not handle node.label correctly.
+
     o is.ultrametric() now checks the ordering of the edge matrix.
 
+    o ace() sometimes returned negative values of likelihoods of
+      ancestral states (thanks to Dan Rabosky for solving this long
+      lasting bug).
+
 
 OTHER CHANGES