[Vegan-commits] r1116 - in branches/1.17: . inst

[noreply at r-forge.r-project.org]

Author: jarioksa
Date: 2010-01-11 16:01:01 +0100 (Mon, 11 Jan 2010)
New Revision: 1116

Modified:
   branches/1.17/DESCRIPTION
   branches/1.17/inst/ChangeLog
   branches/1.17/inst/NEWS
Log:
wrapping up for the CRAN release 1.17-0

Modified: branches/1.17/DESCRIPTION
===================================================================
--- branches/1.17/DESCRIPTION	2010-01-11 14:47:30 UTC (rev 1115)
+++ branches/1.17/DESCRIPTION	2010-01-11 15:01:01 UTC (rev 1116)
@@ -1,7 +1,7 @@
 Package: vegan
 Title: Community Ecology Package
 Version: 1.17-0
-Date: January 7, 2010
+Date: January 11, 2010
 Author: Jari Oksanen, F. Guillaume Blanchet, Roeland Kindt, Pierre Legendre, 
    R. G. O'Hara, Gavin L. Simpson, Peter Solymos, M. Henry H. Stevens, 
    Helene Wagner  

Modified: branches/1.17/inst/ChangeLog
===================================================================
--- branches/1.17/inst/ChangeLog	2010-01-11 14:47:30 UTC (rev 1115)
+++ branches/1.17/inst/ChangeLog	2010-01-11 15:01:01 UTC (rev 1116)
@@ -2,7 +2,7 @@
 
 VEGAN RELEASE VERSIONS at http://cran.r-project.org/
 
-Version 1.17-0 (opened January 2, 2010)
+Version 1.17-0 (released January 11, 2010)
 
 	* Copied from vegan/pkg/vegan version 1.16-34 (rev1087).
 

Modified: branches/1.17/inst/NEWS
===================================================================
--- branches/1.17/inst/NEWS	2010-01-11 14:47:30 UTC (rev 1115)
+++ branches/1.17/inst/NEWS	2010-01-11 15:01:01 UTC (rev 1116)
@@ -54,19 +54,22 @@
     - pcnm: new function to find weighted principal coordinates of
       neighbour matrix (PCNM) from distances between points. These are
       typically used for spatial filtering in constrained
-      ordination. The function does weighted analysis and can
+      ordination. The function uses weighted analysis and can
       therefore produce PCNM for correspondence analysis in addition
       to PCA and RDA.
 
-    - betadisper: can use spatial medians which are the recommended
-      method. 
+    - betadisper: can use spatial medians which are now the default
+      method. Preliminary tests indicate that spatial medians correct
+      the anti-conservative Type I errors reported by Stewart
+      Schultz. 
 
     - decostand & vegdist: new transformation 'log' which implements
       Marti Anderson's scaling log(x) + 1 for x>0 (which is not at all
       the same as log(x+1)), and vegdist has alternative Gower
-      function that skips double zeros. Together these implement
-      the "modified Gower" distance of Anderson et al. (Ecology
-      Letters 9, 683-693; 2006).
+      function that skips double zeros. Together these implement the
+      "modified Gower" distance of Anderson et al. (Ecology Letters 9,
+      683-693; 2006).  Feature request #473 by Etienne Laliberte in
+      vegan.r-forge.r-project.org.
 
     - model.matrix.cca & model.frame.cca: new functions to reconstruct
       the model frame and model matrix (model matrices in partial
@@ -80,18 +83,20 @@
       residuals and adds these to fitted values. 
 
     - spandepth: a new function to find the depth of each node in the
-      minimum spanning tree produced by spantree(). 
+      minimum spanning tree produced by spantree(). Feature request by
+      W. E. Sharp. 
 
     - alias.cca: gained argument names.only.
 
     - metaMDSrotate: a new function to rotate metaMDS so that first
-      axis is parallel to an environmental variable. (KEEP or DROP?)
+      axis is parallel to an environmental variable. 
 
     - msoplot: uses standard legend. 
 
     - nesteddisc: new method that tries to find the smallest possible
       value of the statistic in tied data. Slow, but fixes the
-      problems of the published method.
+      problems of the published method. The problem with tied values
+      in nesteddisc was found with Carsten Dormann. 
 
     - contribdiv: gained a plot method.