various bug fixes

[ape.git] / NEWS

diff --git a/NEWS b/NEWS
index 2ebf72e906fb998d185d1c717e7ef728a5766255..de2da102a4fb09c042fc641ee32726b0accbf29d 100644 (file)
--- a/NEWS
+++ b/NEWS
@@ -7,6 +7,26 @@ NEW FEATURES
       alignment and opens the result in a new window.
 
 
+BUG FIXES
+
+    o compute.brtime() did not completely randomized the order of the
+      branching times.
+
+    o write.nexus() did not work correctly with rooted trees (thanks
+      to Matt Johnson for the fix).
+
+    o mltt.plot(, backward = FALSE) did not set the x-axis correctly.
+
+    o A bug was introduced in prop.clades() with ape 3.0.
+
+    o mantel.test() printed a useless warning message.
+
+    o plot.phylo(, direction = "downward") ignored 'y.lim'.
+
+    o is.monophyletic() did not work correctly if 'tips' was not stored
+      as integers
+
+
 
                CHANGES IN APE VERSION 3.0-1
 
@@ -28,7 +48,7 @@ BUG FIXES
     o read.GenBank() has been updated to work with EFetch 2.0.
 
     o unroot() on trees in "pruningwise" order did not respect this
-      attribute
+      attribute.