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[R-gregmisc-users] SF.net SVN: r-gregmisc:[1466] trunk/gmodels
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From: <wa...@us...> - 2011-01-16 22:17:24
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Revision: 1466
http://r-gregmisc.svn.sourceforge.net/r-gregmisc/?rev=1466&view=rev
Author: warnes
Date: 2011-01-16 22:17:17 +0000 (Sun, 16 Jan 2011)
Log Message:
-----------
Fix warnings reported by R CMD check. Update version number to 2.15.1.
Modified Paths:
--------------
trunk/gmodels/DESCRIPTION
trunk/gmodels/inst/NEWS
trunk/gmodels/man/ci.Rd
trunk/gmodels/man/estimable.Rd
trunk/gmodels/man/fast.prcomp.Rd
trunk/gmodels/man/fit.contrast.Rd
trunk/gmodels/man/glh.test.Rd
trunk/gmodels/man/make.contrasts.Rd
Modified: trunk/gmodels/DESCRIPTION
===================================================================
--- trunk/gmodels/DESCRIPTION 2011-01-15 21:58:56 UTC (rev 1465)
+++ trunk/gmodels/DESCRIPTION 2011-01-16 22:17:17 UTC (rev 1466)
@@ -1,5 +1,5 @@
Package: gmodels
-Version: 2.15.0
+Version: 2.15.1
Title: Various R programming tools for model fitting
Author: Gregory R. Warnes. Includes R source code and/or documentation
contributed by Ben Bolker, Thomas Lumley, and Randall C
@@ -7,10 +7,10 @@
(2005) SAIC-Frederick, Inc. Funded by the Intramural Research
Program, of the NIH, National Cancer Institute, Center for
Cancer Research under NCI Contract NO1-CO-12400.
-Maintainer: Gregory R. Warnes <gr...@ra...>
+Maintainer: Gregory R. Warnes <gr...@wa...>
Description: Various R programming tools for model fitting
Depends: R (>= 1.9.0)
-Suggests: gplots, Matrix, nlme, lme4
+Suggests: gplots, gtools, Matrix, nlme, lme4
Imports: MASS, gdata
License: GPL-2
URL: http://cran.r-project.org/src/contrib/PACKAGES.html
Modified: trunk/gmodels/inst/NEWS
===================================================================
--- trunk/gmodels/inst/NEWS 2011-01-15 21:58:56 UTC (rev 1465)
+++ trunk/gmodels/inst/NEWS 2011-01-16 22:17:17 UTC (rev 1466)
@@ -1,3 +1,11 @@
+Version 2.15.1
+--------------
+
+Bug fixes:
+
+- Fix warnings reported by new versions of R CMD check.
+
+
Version 2.15.0
--------------
Modified: trunk/gmodels/man/ci.Rd
===================================================================
--- trunk/gmodels/man/ci.Rd 2011-01-15 21:58:56 UTC (rev 1465)
+++ trunk/gmodels/man/ci.Rd 2011-01-16 22:17:17 UTC (rev 1466)
@@ -30,9 +30,9 @@
removed. Defaults to \code{FALSE}.}
\item{\dots}{Arguments for methods}
\item{sim.mer}{Logical value. If TRUE confidence
- intervals will be estimated using \code{\Link[Matrix]{mcmcsamp}}. This option only takes effect for mer
+ intervals will be estimated using \code{mcmcsamp}. This option only takes effect for mer
objects.}
- \item{n.sim}{Number of samples to take in \code{\Link[Matrix]{mcmcsamp}}.}
+ \item{n.sim}{Number of samples to take in \code{mcmcsamp}.}
}
%\details{
% ~~ If necessary, more details than the __description__ above ~~
@@ -42,7 +42,7 @@
\code{Estimate}, \code{CI lower}, \code{CI upper}, \code{Std. Error},
\code{DF} (for lme objects only), and \code{p-value}.
}
-\author{ Gregory R. Warnes \email{gr...@ra...}
+\author{ Gregory R. Warnes \email{gr...@wa...}
}
\seealso{
\code{\link[stats]{confint}},
Modified: trunk/gmodels/man/estimable.Rd
===================================================================
--- trunk/gmodels/man/estimable.Rd 2011-01-15 21:58:56 UTC (rev 1465)
+++ trunk/gmodels/man/estimable.Rd 2011-01-16 22:17:17 UTC (rev 1466)
@@ -38,10 +38,10 @@
included in the output table. Defaults to TRUE when beta0 is
specified, FALSE otherwise.}
\item{sim.mer}{Logical value. If TRUE p-values and confidence
- intervals will be estimated using \code{\Link[Matrix]{mcmcsamp}}.
+ intervals will be estimated using \code{mcmcsamp}.
}
\item{n.sim}{Number of MCMC samples to take in
- \code{\Link[Matrix]{mcmcsamp}}.
+ \code{mcmcsamp}.
}
\item{...}{ignored}
}
@@ -71,7 +71,7 @@
linear functions are meaningful.
For computing contrasts among levels of a single factor,
- \code{\link{fit.contrast}} may be more convenient. For computing
+ \code{fit.contrast} may be more convenient. For computing
contrasts between two specific combinations of model parameters, the
\code{contrast} function in Frank Harrell's Design library may be more
convenient.
@@ -95,13 +95,14 @@
}
\author{
BXC (Bendix Carstensen) \email{bxc\@novonordisk.com},
- Gregory R. Warnes \email{gr...@ra...},
+ Gregory R. Warnes \email{gr...@wa...},
Soren Hojsgaard \email{so...@ag...}, and
Randall C Johnson \email{rjo...@nc...}
}
\seealso{
\code{\link{fit.contrast}},
- \code{\link[stats]{lm}}, \code{\link[nlme]{lme}},
+ \code{\link[stats]{lm}},
+ \code{\link[nlme]{lme}},
\code{\link[stats]{contrasts}},
\code{\link[Design]{contrast}},
}
Modified: trunk/gmodels/man/fast.prcomp.Rd
===================================================================
--- trunk/gmodels/man/fast.prcomp.Rd 2011-01-15 21:58:56 UTC (rev 1465)
+++ trunk/gmodels/man/fast.prcomp.Rd 2011-01-16 22:17:17 UTC (rev 1466)
@@ -69,7 +69,7 @@
\code{\link{svd}} .
}
\author{Modifications by Gregory R. Warnes
- \email{gr...@ra...} }
+ \email{gr...@wa...} }
\seealso{
\code{\link[stats]{prcomp}}, \code{\link{svd}}, \code{\link{La.svd}}
Modified: trunk/gmodels/man/fit.contrast.Rd
===================================================================
--- trunk/gmodels/man/fit.contrast.Rd 2011-01-15 21:58:56 UTC (rev 1465)
+++ trunk/gmodels/man/fit.contrast.Rd 2011-01-16 22:17:17 UTC (rev 1466)
@@ -35,9 +35,9 @@
degrees of freedom.}
\item{\dots}{optional arguments provided by methods.}
\item{sim.mer}{Logical value. If TRUE p-values and confidence
- intervals will be estimated using \code{\Link[Matrix]{mcmcsamp}}. This option only takes effect for mer
+ intervals will be estimated using \code{mcmcsamp}. This option only takes effect for mer
objects.}
- \item{n.sim}{Number of samples to use in \code{\Link[Matrix]{mcmcsamp}}.}
+ \item{n.sim}{Number of samples to use in \code{mcmcsamp}.}
}
\details{
@@ -52,7 +52,7 @@
specified lower and upper confidence limits are also returned.}
\references{Venables & Ripley, Section 6.2}
-\author{ Gregory R. Warnes \email{gr...@ra...}}
+\author{ Gregory R. Warnes \email{gr...@wa...}}
\seealso{ \code{\link{lm}}, \code{\link{contrasts}},
\code{\link{contr.treatment}}, \code{\link{contr.poly}},
Modified: trunk/gmodels/man/glh.test.Rd
===================================================================
--- trunk/gmodels/man/glh.test.Rd 2011-01-15 21:58:56 UTC (rev 1465)
+++ trunk/gmodels/man/glh.test.Rd 2011-01-16 22:17:17 UTC (rev 1466)
@@ -65,7 +65,7 @@
}
\references{ R.H. Myers, Classical and Modern Regression with
Applications, 2nd Ed, 1990, p. 105}
-\author{Gregory R. Warnes \email{gr...@ra...} }
+\author{Gregory R. Warnes \email{gr...@wa...} }
\seealso{\code{\link{fit.contrast}}, \code{\link{estimable}},
\code{\link{contrasts}} }
\examples{
Modified: trunk/gmodels/man/make.contrasts.Rd
===================================================================
--- trunk/gmodels/man/make.contrasts.Rd 2011-01-15 21:58:56 UTC (rev 1465)
+++ trunk/gmodels/man/make.contrasts.Rd 2011-01-16 22:17:17 UTC (rev 1466)
@@ -31,7 +31,7 @@
\code{\link{contrasts}} or to the \code{contrasts} argument of model
functions (eg, \code{\link{lm}}).
}
-\author{ Gregory R. Warnes \email{gr...@ra...}}
+\author{ Gregory R. Warnes \email{gr...@wa...}}
\seealso{ \code{\link{lm}}, \code{\link{contrasts}},
\code{\link{contr.treatment}}, \code{\link{contr.poly}},
Computation and testing of General Linear Hypothesis:
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