[Vegan-commits] r1422 - in branches/1.17: . inst

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

Author: jarioksa
Date: 2010-12-14 15:32:13 +0100 (Tue, 14 Dec 2010)
New Revision: 1422

Modified:
   branches/1.17/DESCRIPTION
   branches/1.17/inst/ChangeLog
   branches/1.17/inst/NEWS
Log:
preparations for release 1.17-5 scheduled now for 17 Dec 2010 (mantel.correlog needs testing)

Modified: branches/1.17/DESCRIPTION
===================================================================
--- branches/1.17/DESCRIPTION	2010-12-14 07:09:53 UTC (rev 1421)
+++ branches/1.17/DESCRIPTION	2010-12-14 14:32:13 UTC (rev 1422)
@@ -1,7 +1,7 @@
 Package: vegan
 Title: Community Ecology Package
 Version: 1.17-5
-Date: November 17, 2010
+Date: December 15, 2010
 Author: Jari Oksanen, F. Guillaume Blanchet, Roeland Kindt, Pierre Legendre, 
    R. B. O'Hara, Gavin L. Simpson, Peter Solymos, M. Henry H. Stevens, 
    Helene Wagner  

Modified: branches/1.17/inst/ChangeLog
===================================================================
--- branches/1.17/inst/ChangeLog	2010-12-14 07:09:53 UTC (rev 1421)
+++ branches/1.17/inst/ChangeLog	2010-12-14 14:32:13 UTC (rev 1422)
@@ -2,7 +2,7 @@
 
 VEGAN RELEASE VERSIONS at http://cran.r-project.org/
 
-Version 1.17-5 (opened November 17, 2010)
+Version 1.17-5 (released December 15, 2010)
 
 	* based on development version 1.18-18 at
 	http://vegan.r-forge.r-project.org/ 
@@ -20,8 +20,8 @@
 
 	* merge r1278:1279: vegdist.Rd update.
 
-	* merge r1280: deviance.cca/rda return 0 in unconstrained
-	models.
+	* merge r1280: deviance.cca/rda return 0 in overparamerized models
+	with no unconstrained component.
 
 	* merge r1281: fix anova.ccanull df.
 

Modified: branches/1.17/inst/NEWS
===================================================================
--- branches/1.17/inst/NEWS	2010-12-14 07:09:53 UTC (rev 1421)
+++ branches/1.17/inst/NEWS	2010-12-14 14:32:13 UTC (rev 1422)
@@ -27,8 +27,8 @@
       Default plot() uses points if items have no name labels to be
       plotted.
 
-    - deviance.cca/rda: return 0 (instead of NA) for models with no
-      constrained component.
+    - deviance.cca/rda: return 0 (instead of NA) for over-paremetrized
+      models with no unconstrained component.
 
     - eigenvals: uses sum of absolute values of eigenvalues in models
       that may have negative eigenvalues (cmdscale, wcmdscale,
@@ -41,13 +41,10 @@
       correction was already done in mantel(). (The correction was not
       done in older version of mantel(), but the mantel.correlog() was
       not changed after fixing mantel()).
-
-    - metaMDS: metaMDSdist() is more verbose about connectivity and
-      handles NA values in dissimilarities.
    
     - nestednodf: Gustavo Carvalho's new version that also implements
       a new quantitative method of Almeida-Neto & Ulrich (Env Mod
-      Software, in press; 2010).
+      Software, 26, 173-178; 2011).
 
     - oecosimu: takes care that the statistic is evaluated with binary
       data when null models are binary (regression introduced in vegan
@@ -84,7 +81,7 @@
     - rda/capscale: the scores() can take two scaling constants
       ('const'). One is used for species, second for WA and LC scores
       of sites. This allows using scalings of prcomp(), princomp() or
-      Canoco like documented in the design decisions vignette.
+      Canoco (like documented in the design decisions vignette).
 
     - swan: disconnected data caused infinite loop. Now zeros are left
       to the result with disconnected data.