18 files changed, 154 insertions, 2082 deletions

diff --git a/branches/0.1/chemCal/DESCRIPTION b/branches/0.1/chemCal/DESCRIPTION
index 323827b..ba96f47 100644
--- a/branches/0.1/chemCal/DESCRIPTION
+++ b/branches/0.1/chemCal/DESCRIPTION
@@ -1,6 +1,6 @@
 Package: chemCal
-Version: 0.1-27
-Date: 2010-09-12
+Version: 0.1-28
+Date: 2012-09-11
 Title: Calibration functions for analytical chemistry
 Author: Johannes Ranke <jranke@uni-bremen.de>
 Maintainer: Johannes Ranke <jranke@uni-bremen.de>
@@ -12,7 +12,7 @@ Description: chemCal provides simple functions for plotting linear
 	of detection (LOQ) and limit of quantification (LOD).
 	The functions work on model objects from - optionally weighted - linear
 	regression (lm) or robust linear regression (rlm from the MASS package).
-License: GPL version 2 or newer
+License: GPL (>= 2)
 URL: http://www.r-project.org, 
 	http://www.uft.uni-bremen.de/chemie/ranke,
 	http://kriemhild.uft.uni-bremen.de/viewcvs/?root=chemCal
diff --git a/branches/0.1/chemCal/inst/doc/chemCal-001.pdf b/branches/0.1/chemCal/inst/doc/chemCal-001.pdf
deleted file mode 100644
index fcf034d..0000000
--- a/branches/0.1/chemCal/inst/doc/chemCal-001.pdf
+++ /dev/null
@@ -1,1727 +0,0 @@
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index 84553d7..84553d7 100644
--- a/branches/0.1/chemCal/inst/doc/chemCal-002.eps
+++ b/branches/0.1/chemCal/vignettes/chemCal-002.eps
diff --git a/branches/0.1/chemCal/vignettes/chemCal-002.pdf b/branches/0.1/chemCal/vignettes/chemCal-002.pdf
new file mode 100644
index 0000000..2b56f14
--- /dev/null
+++ b/branches/0.1/chemCal/vignettes/chemCal-002.pdf
diff --git a/branches/0.1/chemCal/inst/doc/chemCal.Rnw b/branches/0.1/chemCal/vignettes/chemCal.Rnw
index 8cdc97c..30e0331 100644
--- a/branches/0.1/chemCal/inst/doc/chemCal.Rnw
+++ b/branches/0.1/chemCal/vignettes/chemCal.Rnw
@@ -22,7 +22,7 @@ At the moment, the package consists of four functions, working on univariate
 linear models of class \texttt{lm} or \texttt{rlm}, plus to datasets for
 validation.
 
-A \href{http://bugs.r-project.org/cgi-bin/R/wishlst-fulfilled?id=8877;user=guest}{bug
+A \href{http://bugs.r-project.org/bugzilla3/show_bug.cgi?id=8877}{bug
 report (PR\#8877)} and the following e-mail exchange on the r-devel mailing list about
 prediction intervals from weighted regression entailed some further studies
 on this subject. However, I did not encounter any proof or explanation of the
diff --git a/branches/0.1/chemCal/inst/doc/chemCal.aux b/branches/0.1/chemCal/vignettes/chemCal.aux
index 20bfc98..20bfc98 100644
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index e69de29..e69de29 100644
--- a/branches/0.1/chemCal/inst/doc/chemCal.bbl
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index 31eced3..3107ddd 100644
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@@ -251,6 +311,20 @@ LaTeX Info: Redefining \pageref on input line 9.
 \@outlinefile=\write4
 \openout4 = `chemCal.out'.
 
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diff --git a/branches/0.1/chemCal/inst/doc/chemCal.out b/branches/0.1/chemCal/vignettes/chemCal.out
index e69de29..e69de29 100644
--- a/branches/0.1/chemCal/inst/doc/chemCal.out
+++ b/branches/0.1/chemCal/vignettes/chemCal.out
diff --git a/branches/0.1/chemCal/vignettes/chemCal.pdf b/branches/0.1/chemCal/vignettes/chemCal.pdf
new file mode 100644
index 0000000..935b160
--- /dev/null
+++ b/branches/0.1/chemCal/vignettes/chemCal.pdf
diff --git a/branches/0.1/chemCal/inst/doc/chemCal.tex b/branches/0.1/chemCal/vignettes/chemCal.tex
index 9617cda..6326126 100644
--- a/branches/0.1/chemCal/inst/doc/chemCal.tex
+++ b/branches/0.1/chemCal/vignettes/chemCal.tex
@@ -5,7 +5,7 @@
 \title{Basic calibration functions for analytical chemistry}
 \author{Johannes Ranke}
 
-\usepackage{/usr/share/R/share/texmf/Sweave}
+\usepackage{Sweave}
 \begin{document}
 \maketitle
 
@@ -23,7 +23,7 @@ At the moment, the package consists of four functions, working on univariate
 linear models of class \texttt{lm} or \texttt{rlm}, plus to datasets for
 validation.
 
-A \href{http://bugs.r-project.org/cgi-bin/R/wishlst-fulfilled?id=8877;user=guest}{bug
+A \href{http://bugs.r-project.org/bugzilla3/show_bug.cgi?id=8877}{bug
 report (PR\#8877)} and the following e-mail exchange on the r-devel mailing list about
 prediction intervals from weighted regression entailed some further studies
 on this subject. However, I did not encounter any proof or explanation of the
@@ -52,7 +52,7 @@ provided by R:
 
 \begin{Schunk}
 \begin{Sinput}
-> plot(m0, which = 3)
+> plot(m0,which=3)
 \end{Sinput}
 \end{Schunk}
 \includegraphics{chemCal-002}
@@ -66,7 +66,7 @@ is proposed which can be reproduced by
 > yx <- split(y, x)
 > ybar <- sapply(yx, mean)
 > s <- round(sapply(yx, sd), digits = 2)
-> w <- round(1/(s^2), digits = 3)
+> w <- round(1 / (s^2), digits = 3)
 > weights <- w[factor(x)]
 > m <- lm(y ~ x, w = weights)
 \end{Sinput}
@@ -77,14 +77,14 @@ we use the \texttt{inverse.predict} function:
 
 \begin{Schunk}
 \begin{Sinput}
-> inverse.predict(m, 15, ws = 1.67)
+> inverse.predict(m, 15, ws=1.67)
 \end{Sinput}
 \begin{Soutput}
 $Prediction
 [1] 5.865367
 
 $`Standard Error`
-[1] 0.892611
+[1] 0.8926109
 
 $Confidence
 [1] 2.478285