[Vegan-commits] r2249 - in pkg/vegan/inst: . doc

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

Author: jarioksa
Date: 2012-08-15 09:39:32 +0200 (Wed, 15 Aug 2012)
New Revision: 2249

Modified:
   pkg/vegan/inst/ChangeLog
   pkg/vegan/inst/doc/diversity-vegan.Rnw
   pkg/vegan/inst/doc/intro-vegan.Rnw
Log:
fix failure to build vignettes with TeXLive 2012

Modified: pkg/vegan/inst/ChangeLog
===================================================================
--- pkg/vegan/inst/ChangeLog	2012-08-15 07:14:51 UTC (rev 2248)
+++ pkg/vegan/inst/ChangeLog	2012-08-15 07:39:32 UTC (rev 2249)
@@ -9,7 +9,7 @@
 	unloaded packages "cclust". count() was never called in the
 	current cIndexKM() and was removed together with the following
 	currently unused functions: withinss(), varwithinss(),
-	maxmindist(), vargss(). These deletions should have absolutelty no
+	maxmindist(), vargss(). These deletions should have absolutely no
 	visible effects.
 
 	* envfit: the plot() method gained argument 'labels' to change the
@@ -17,17 +17,13 @@
 	labels() function.
 
 	* vignettes: building vignettes failed in CRAN and R-Forge. These
-	sites use TeXLive 2012 distribution which is not available in our
-	platforms so that we cannot reproduce these failures. It seems
-	that these errors come from our use of jss.cls class file with our
-	own amendments, and therefore we go back to more standard LaTeX
-	styles to avoid problems. In effect, the changes revert r1703. We
-	cannot reproduce the problems so that this is a blind watch makeer
-	fix.  Files FAQ-vegan and decision-vegan were handles without
-	problem, so we fixed only the failing intro-vegan at this stage;
-	diversity-vegan was not  processed at all as the process stopped
-	with intro-vegan so that it may still fail even if we managed to
-	blindly fix the intro.
+	sites use TeXLive 2012 distribution which was not yet used by any
+	vegan developer when vegan 2.0-4 was released. Ubuntu Linux still
+	stocks TeXLive 2009, and new version is promised first for the
+	12.10 release, and many other Linuxes are just as old. TeXLive
+	2012 for MacOS was released in July 2012 and with that we could
+	pin down the problem. There is hardly any user visible changes
+	except that building vegan succeeds with vignettes.
 	
 Version 2.1-17 (closed July 30, 2012)
 

Modified: pkg/vegan/inst/doc/diversity-vegan.Rnw
===================================================================
--- pkg/vegan/inst/doc/diversity-vegan.Rnw	2012-08-15 07:14:51 UTC (rev 2248)
+++ pkg/vegan/inst/doc/diversity-vegan.Rnw	2012-08-15 07:39:32 UTC (rev 2249)
@@ -49,9 +49,8 @@
 
 \tableofcontents
 
-\section*{~}
-
-The \pkg{vegan} package has two major components:
+ ~\\[2ex]
+\noindent The \pkg{vegan} package has two major components:
 multivariate analysis (mainly ordination), and methods for diversity
 analysis of ecological communities.  This document gives an
 introduction to the latter.  Ordination methods are covered in other

Modified: pkg/vegan/inst/doc/intro-vegan.Rnw
===================================================================
--- pkg/vegan/inst/doc/intro-vegan.Rnw	2012-08-15 07:14:51 UTC (rev 2248)
+++ pkg/vegan/inst/doc/intro-vegan.Rnw	2012-08-15 07:39:32 UTC (rev 2249)
@@ -55,9 +55,8 @@
 
 \tableofcontents
 
-\section*{~}
-
-\pkg{Vegan} is a package for community ecologists.  This
+~\\[2ex]
+\noindent \pkg{Vegan} is a package for community ecologists.  This
 documents explains how the commonly used ordination methods can be
 performed in \pkg{vegan}.  The document only is a very basic
 introduction.  Another document (\emph{vegan tutorial})