[adegenet-commits] r705 - in pkg: . R man

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

Author: jombart
Date: 2010-11-04 18:23:07 +0100 (Thu, 04 Nov 2010)
New Revision: 705

Modified:
   pkg/ChangeLog
   pkg/DESCRIPTION
   pkg/R/zzz.R
   pkg/man/adegenet.package.Rd
   pkg/man/find.clusters.Rd
Log:
swtiching devel to 1.2-9


Modified: pkg/ChangeLog
===================================================================
--- pkg/ChangeLog	2010-11-03 14:22:42 UTC (rev 704)
+++ pkg/ChangeLog	2010-11-04 17:23:07 UTC (rev 705)
@@ -1,6 +1,18 @@
-		CHANGES IN ADEGENET VERSION 1.2-7
+			CHANGES IN ADEGENET VERSION 1.2-8
 
 
+
+BUG FIXES
+
+	o fixed a major issue in the conversion of genind objects to
+	hierfstat data format. In some cases, this issue biased the
+	results of the wrapper function "fstat".
+
+
+
+			CHANGES IN ADEGENET VERSION 1.2-7
+
+
 NEW FEATURES
 
 	o dapc and find.clusters are now stable versions for the published methods.

Modified: pkg/DESCRIPTION
===================================================================
--- pkg/DESCRIPTION	2010-11-03 14:22:42 UTC (rev 704)
+++ pkg/DESCRIPTION	2010-11-04 17:23:07 UTC (rev 705)
@@ -1,6 +1,6 @@
 Package: adegenet
-Version: 1.2-8
-Date: 2010/10/28
+Version: 1.2-9
+Date: 2010/11/05
 Title: adegenet: a R package for the multivariate analysis of genetic markers.
 Author:  Thibaut Jombart <t.jombart at imperial.ac.uk>
   with contributions of: Peter Solymos, Francois Balloux

Modified: pkg/R/zzz.R
===================================================================
--- pkg/R/zzz.R	2010-11-03 14:22:42 UTC (rev 704)
+++ pkg/R/zzz.R	2010-11-04 17:23:07 UTC (rev 705)
@@ -2,7 +2,7 @@
 #.initAdegenetClasses()
 #.initAdegenetUtils()
     library.dynam("adegenet", pkg, lib)
-    startup.txt <- "   ==========================\n    adegenet 1.2-8 is loaded\n   ==========================\n\n - to start, type '?adegenet'\n - to browse adegenet website, type 'adegenetWeb()'\n - to post questions/comments: adegenet-forum at lists.r-forge.r-project.org\n\n"
+    startup.txt <- "   ==========================\n    adegenet 1.2-9 is loaded\n   ==========================\n\n - to start, type '?adegenet'\n - to browse adegenet website, type 'adegenetWeb()'\n - to post questions/comments: adegenet-forum at lists.r-forge.r-project.org\n\n"
 
     packageStartupMessage(startup.txt)
 

Modified: pkg/man/adegenet.package.Rd
===================================================================
--- pkg/man/adegenet.package.Rd	2010-11-03 14:22:42 UTC (rev 704)
+++ pkg/man/adegenet.package.Rd	2010-11-04 17:23:07 UTC (rev 705)
@@ -165,7 +165,7 @@
   \tabular{ll}{
     Package: \tab adegenet\cr
     Type: \tab Package\cr
-    Version: \tab 1.2-8\cr
+    Version: \tab 1.2-9\cr
     Date: \tab 2010-??-?? \cr
     License: \tab GPL (>=2)
   }  

Modified: pkg/man/find.clusters.Rd
===================================================================
--- pkg/man/find.clusters.Rd	2010-11-03 14:22:42 UTC (rev 704)
+++ pkg/man/find.clusters.Rd	2010-11-04 17:23:07 UTC (rev 705)
@@ -19,9 +19,6 @@
   clustering of individuals (argument \code{clust}). In such case, clusters will
   be sought within each prior group.
 
-  \code{.find.sub.clusters} is a hidden function called in some instances of
-  \code{find.clusters}, and should not be called directly by the user.
-
   The K-means procedure used in \code{find.clusters} is \code{\link[stats]{kmeans}} function
   from the \code{stats} package. The PCA function is \code{\link[ade4]{dudi.pca}} from the
   \code{ade4} package.