[adegenet-commits] r702 - pkg pkg/R pkg/man www www/files

noreply at r-forge.r-project.org noreply at r-forge.r-project.org
Fri Oct 29 13:40:57 CEST 2010 

Author: jombart
Date: 2010-10-29 13:40:57 +0200 (Fri, 29 Oct 2010)
New Revision: 702

Added:
   www/files/adegenet_1.2-7.tar.gz
Modified:
   pkg/DESCRIPTION
   pkg/R/zzz.R
   pkg/man/adegenet.package.Rd
   www/download.html
   www/news.html
Log:
updates for the new release


Modified: pkg/DESCRIPTION
===================================================================
--- pkg/DESCRIPTION	2010-10-28 16:00:35 UTC (rev 701)
+++ pkg/DESCRIPTION	2010-10-29 11:40:57 UTC (rev 702)
@@ -1,5 +1,5 @@
 Package: adegenet
-Version: 1.2-7
+Version: 1.2-8
 Date: 2010/10/28
 Title: adegenet: a R package for the multivariate analysis of genetic markers.
 Author:  Thibaut Jombart <t.jombart at imperial.ac.uk>

Modified: pkg/R/zzz.R
===================================================================
--- pkg/R/zzz.R	2010-10-28 16:00:35 UTC (rev 701)
+++ pkg/R/zzz.R	2010-10-29 11:40:57 UTC (rev 702)
@@ -2,7 +2,7 @@
 #.initAdegenetClasses()
 #.initAdegenetUtils()
     library.dynam("adegenet", pkg, lib)
-    startup.txt <- "   ==========================\n    adegenet 1.2-7 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 1.2-8 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"
 
     packageStartupMessage(startup.txt)
 

Modified: pkg/man/adegenet.package.Rd
===================================================================
--- pkg/man/adegenet.package.Rd	2010-10-28 16:00:35 UTC (rev 701)
+++ pkg/man/adegenet.package.Rd	2010-10-29 11:40:57 UTC (rev 702)
@@ -165,8 +165,8 @@
   \tabular{ll}{
     Package: \tab adegenet\cr
     Type: \tab Package\cr
-    Version: \tab 1.2-7\cr
-    Date: \tab 2010-10-28 \cr
+    Version: \tab 1.2-8\cr
+    Date: \tab 2010-??-?? \cr
     License: \tab GPL (>=2)
   }  
 }

Modified: www/download.html
===================================================================
--- www/download.html	2010-10-28 16:00:35 UTC (rev 701)
+++ www/download.html	2010-10-29 11:40:57 UTC (rev 702)
@@ -18,15 +18,15 @@
 <img alt="" src="images/bullet.png" style="width: 10px; height: 10px;">
 The
 <span style="font-weight: bold;">current stable version</span>
-(adegenet_1.2-6)
+(adegenet_1.2-7)
 is available as:<br>
-- <a href="files/adegenet_1.2-6.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.2-6.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.2-6.zip">Windows binary</a><br>
+- <a href="files/adegenet_1.2-7.tar.gz">linux/unix sources</a><br>
+- MacOS X binary<br>
+- Windows binary<br>
 <br>
 <img alt="" src="images/bullet.png" style="width: 10px; height: 10px;">
 The
-<span style="font-weight: bold;">devel version</span> (adegenet_1.2-7)
+<span style="font-weight: bold;">devel version</span> (adegenet_1.2-8)
 is also available
 from <a href="https://r-forge.r-project.org/scm/?group_id=120"
  target="_top">R-Forge's
@@ -51,6 +51,11 @@
 <img alt="" src="images/bullet.png" style="width: 10px; height: 10px;">
 <span style="font-weight: bold;">Older
 versions</span>:<br>
+adegenet_1.2-6<br>
+- <a href="files/adegenet_1.2-6.tar.gz">linux/unix sources</a><br>
+- <a href="files/adegenet_1.2-6.tgz">MacOS X binary</a><br>
+- <a href="files/adegenet_1.2-6.zip">Windows binary</a><br>
+<br>
 adegenet_1.2-5<br>
 - <a href="files/adegenet_1.2-5.tar.gz">linux/unix sources</a><br>
 - <a href="files/adegenet_1.2-5.tgz">MacOS X binary</a><br>

Added: www/files/adegenet_1.2-7.tar.gz
===================================================================
(Binary files differ)


Property changes on: www/files/adegenet_1.2-7.tar.gz
___________________________________________________________________
Added: svn:mime-type
   + application/octet-stream

Modified: www/news.html
===================================================================
--- www/news.html	2010-10-28 16:00:35 UTC (rev 701)
+++ www/news.html	2010-10-29 11:40:57 UTC (rev 702)
@@ -18,18 +18,41 @@
  style="font-weight: bold;"></span><br>
 <span style="font-weight: bold;"></span>Current
 stable version of <span style="color: rgb(255, 0, 0);">adegenet is
-1.2-6 </span>for R.2.11.1.<br>
+1.2-7 </span>for R.2.12.0.<br>
 You can install the devel version from <a
  href="https://r-forge.r-project.org/scm/?group_id=120">R-Forge</a>.<br>
 See the current <a
  href="http://cran.r-project.org/web/packages/adegenet/ChangeLog">ChangeLog</a>
 for a list of
 all modifications.<br>
-Next major release will be 1.3-0, and will include the stable versions
-of SeqTrack algorithm, DAPC, and new simulation tools.<br>
 <br>
-<span style="font-weight: bold;">22/09/2010 <img
- style="width: 80px; height: 37px;" alt="" src="images/new.png"></span><span
+<br>
+<span style="font-weight: bold;">29/10/2010 </span><span
+ style="font-weight: bold;"></span><img
+ style="width: 80px; height: 37px;" alt="" src="images/new.png"><br>
+<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.2-7</span>)
+has
+been
+released
+for
+R-2.12.0!</big><span style="color: rgb(255, 0, 0);"><span
+ style="color: rgb(0, 0, 0);">
+This release includes the stable implementation of the <span
+ style="font-style: italic;">Discriminant Analysis of Principal
+Components</span> (<span style="font-style: italic;">DAPC</span>, <span
+ style="color: rgb(255, 0, 0); font-family: monospace;">?dapc</span>, <span
+ style="color: rgb(255, 0, 0); font-family: monospace;">?find.clusters</span>)</span></span><span
+ style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">,
+and fixes a bug from the ape package which impacted adegenet and
+prevented windows binaries to be generated with R-2.12.0. See the </span></span><span
+ style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);"></span></span><a
+ href="http://cran.r-project.org/web/packages/adegenet/ChangeLog">ChangeLog</a><span
+ style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);"></span></span><span
+ style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">
+file for more information.</span></span><br>
+<br>
+<br>
+<span style="font-weight: bold;">22/09/2010 </span><span
  style="font-weight: bold;"></span><br>
 <big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.2-6</span>)
 has
@@ -167,7 +190,9 @@
 tutorial
 has
 been
-updated at the same time as the package
+updated
+at
+the same time as the package
 release!<br>
 <br>
 <br>
@@ -186,7 +211,9 @@
 release
 implements
 many
-new things and corrects a few bugs
+new
+things
+and corrects a few bugs
 (see </span></span><a href="files/ChangeLog">ChangeLog</a><span
  style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">
 file). Amongst the biggest news, <span style="font-weight: bold;">several
@@ -201,14 +228,18 @@
 represent
 genetic
 diversity
-using RGB scale, and a <span
+using
+RGB
+scale, and a <span
  style="font-family: monospace; color: rgb(255, 0, 0);">loadingplot</span>,
 which
 can
 be
 used
 to
-assess the most structuring alleles and loci in an
+assess
+the
+most structuring alleles and loci in an
 analysis.&nbsp; A new georeferenced genetic dataset is also available
 (dataset <span style="color: rgb(255, 0, 0); font-family: monospace;">rupica</span>).
 And...
@@ -230,8 +261,9 @@
 corrects
 a
 few
-bugs arising in version 1.2-0 (see </span></span><a
- href="files/ChangeLog">ChangeLog</a><span
+bugs
+arising
+in version 1.2-0 (see </span></span><a href="files/ChangeLog">ChangeLog</a><span
  style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">
 file), especially an issue with the detection of NAs. Documentation was
 also improved (have a look at <span
@@ -253,7 +285,9 @@
 implements
 various
 levels
-of ploidy and adds some new
+of
+ploidy
+and adds some new
 features (see </span></span><a href="files/ChangeLog">ChangeLog</a><span
  style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">
 file):<br>
@@ -292,7 +326,9 @@
 a
 few
 bugs
-and adds some new features (see </span></span><a href="files/ChangeLog">ChangeLog</a><span
+and
+adds
+some new features (see </span></span><a href="files/ChangeLog">ChangeLog</a><span
  style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">
 file):<br>
 &nbsp;&nbsp;&nbsp; - </span><span style="font-family: monospace;">genind2df</span></span>
@@ -326,8 +362,11 @@
 from
 the
 devel
-version of adegenet. It computes the <span
- style="color: rgb(255, 0, 0);">proportion of shared alleles</span>
+version
+of
+adegenet. It computes the <span style="color: rgb(255, 0, 0);">proportion
+of
+shared alleles</span>
 among a set of genotypes.<br>
 <br>
 <br>
@@ -346,7 +385,9 @@
 a
 few
 bugs
-and adds some new features:<br>
+and
+adds
+some new features:<br>
 &nbsp;&nbsp;&nbsp; - <span style="font-family: monospace;"></span></span></span><span
  style="text-decoration: underline;">I/O:</span> <span
  style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);"><span

More information about the adegenet-commits mailing list