[Seqinr-commits] r1487 - pkg/inst/doc/src/mainmatter

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

Author: lobry
Date: 2008-10-26 18:36:07 +0100 (Sun, 26 Oct 2008)
New Revision: 1487

Modified:
   pkg/inst/doc/src/mainmatter/introduction.tex
Log:
R 2.8.0

Modified: pkg/inst/doc/src/mainmatter/introduction.tex
===================================================================
--- pkg/inst/doc/src/mainmatter/introduction.tex	2008-10-26 17:35:07 UTC (rev 1486)
+++ pkg/inst/doc/src/mainmatter/introduction.tex	2008-10-26 17:36:07 UTC (rev 1487)
@@ -134,8 +134,8 @@
 \end{Sinput}
 \begin{Soutput}
 [1] "             ****     ACNUC Data Base Content      ****                         "
-[2] "          GenBank Rel. 165 (15 April 2008) Last Updated: May 12, 2008"           
-[3] "90,620,951,454 bases; 87,387,352 sequences; 5,153,479 subseqs; 508,578 refers."  
+[2] "          GenBank Rel. 167 (15 August 2008) Last Updated: Oct 26, 2008"          
+[3] "97,378,213,581 bases; 96,406,734 sequences; 5,646,527 subseqs; 525,953 refers."  
 [4] "Software by M. Gouy, Lab. Biometrie et Biologie Evolutive, Universite Lyon I "   
 \end{Soutput}
 \begin{Sinput}
@@ -143,7 +143,7 @@
  bpbk
 \end{Sinput}
 \begin{Soutput}
-[1] "90,620,951,454"
+[1] "97,378,213,581"
 \end{Soutput}
 \begin{Sinput}
  bpbk <- as.numeric(paste(unlist(strsplit(bpbk, split = ",")), 
@@ -152,11 +152,11 @@
  (widthkm <- widthcm/10^5)
 \end{Sinput}
 \begin{Soutput}
-[1] 7.745292
+[1] 8.32283
 \end{Soutput}
 \end{Schunk}
 
-It would be about 7.7
+It would be about 8.3
 kilometer long in ACNUC book format to print GenBank today (\today). As a
 matter of comparison, our local universitary library buiding\footnote{
 Université de Lyon, F-69000, Lyon ; Université Lyon 1 ; 
@@ -183,9 +183,9 @@
 The Comprehensive \Rlogo{} Archive Network, CRAN, is a network of servers 
 around the world that store identical, up-to-date, versions of code and documentation 
 for R. At compilation time of this document, there were
-52 
+56 
 mirrors available 
-from 32 countries.
+from 34 countries.
 Please use the CRAN mirror nearest to you to minimize network load, they are
 listed at \texttt{http://cran.r-project.org/mirrors.html}, and can be directly
 selected with the function \texttt{chooseCRANmirror()}.
@@ -195,8 +195,8 @@
 In the terminology of the \Rlogo{} project \cite{R, RfromR}, this document 
 is a package \emph{vignette}, which means that all code outputs present 
 here were actually obtained by runing them.
-The examples given thereafter were run under \texttt{R version 2.8.0 Under development (unstable) (2008-05-11 r45672)}
-on Mon May 12 17:50:47 2008 with Sweave \cite{Sweave}. There is a section at the end of
+The examples given thereafter were run under \texttt{R version 2.8.0 (2008-10-20)}
+on Sun Oct 26 17:49:56 2008 with Sweave \cite{Sweave}. There is a section at the end of
 each chapter called \textbf{Session Informations} that gives details about
 packages and package versions that were involved\footnote{
 Previous versions of \Rlogo{} and packages are available on CRAN mirrors,
@@ -211,7 +211,7 @@
  .find.package("seqinr")
 \end{Sinput}
 \begin{Soutput}
-[1] "/Users/lobry/seqinr.Rcheck/seqinr"
+[1] "/Users/lobry/seqinr/pkg.Rcheck/seqinr"
 \end{Soutput}
 \end{Schunk}
 
@@ -302,7 +302,7 @@
 
 Do not re-invent (there's a patent \cite{wheel} on it anyway).
 At the compilation time of this document there were 
-1321
+1559
 contributed packages available. Even if you don't want to be spoon-feed 
 \textit{{\`a} bouche ouverte}, 
 it's not a bad
@@ -451,7 +451,7 @@
 \setkeys{Gin}{width=0.8\textwidth}
 
 
-The doubling time is now 16.6 months.
+The doubling time is now 16.7 months.
 
 
 \begin{figure}
@@ -481,19 +481,20 @@
 This part was compiled under the following \Rlogo{}~environment:
 
 \begin{itemize}
-  \item R version 2.8.0 Under development (unstable) (2008-05-11 r45672), \verb|i386-apple-darwin8.8.2|
-  \item Locale: \verb|C|
+  \item R version 2.8.0 (2008-10-20), \verb|i386-apple-darwin8.8.2|
+  \item Locale: \verb|fr_FR.UTF-8/fr_FR.UTF-8/fr_FR.UTF-8/C/C/C|
   \item Base packages: base, datasets, grDevices, graphics, methods,
     stats, utils
-  \item Other packages: MASS~7.2-42, ade4~1.4-7, ape~2.2,
-    nlme~3.1-88, seqinr~1.1-6, xtable~1.5-2
+  \item Other packages: MASS~7.2-44, ade4~1.4-9, ape~2.2-2,
+    nlme~3.1-89, quadprog~1.4-11, seqinr~2.0-0, tseries~0.10-16,
+    xtable~1.5-4, zoo~1.5-4
   \item Loaded via a namespace (and not attached): grid~2.8.0,
-    lattice~0.17-7, tools~2.8.0
+    lattice~0.17-15, tools~2.8.0
 \end{itemize}
 There were two compilation steps:
 
 \begin{itemize}
-  \item \Rlogo{} compilation time was: Mon May 12 17:50:52 2008
+  \item \Rlogo{} compilation time was: Sun Oct 26 17:50:03 2008
   \item \LaTeX{} compilation time was: \today
 \end{itemize}