I know I should provide a better answer, but I think it's really for a
function.
For this package, we simply pass a list object about, but have to obfuscate it
using a domain familiar nomenclature for the users.
So, not a data set, but a function. I think.
Here's the file in it's entirety:
%% $Id $
\name{sample.data}
\alias{sample.data}
\title{CONIFERS forest growth model sample data}
\description{ A list object of type \code{sample.data} stores all of
the basic information about a \code{\link{data.frame}} object
representing a sample of plants.}
\usage{
x <- list( plots=data.frame(), plants=data.frame(), age=0, x0=0.0,
n.years.projected=0 )
class(x) <- "sample.data"
}
\details{
To create the basic data type used in rconifers, you create a
list object with the following elements (order is not
important):
\describe{
\item{plots}{is a \link{data.frame} with the the same elements as
\code{\link{plots.swo}}.}
\item{plants}{is a \link{data.frame} with the the same elements as
\code{\link{plants.swo}}.}
\item{age}{is an integer value that represents the age of the plants,
in years.}
\item{x0}{is the $x_{0}$ coefficient for the Hann and Wang (1990) mortality
model.}
\item{n.years.projected}{is the number of years that $x$ has been
projected forward in time.}
}
}
\references{
Ritchie, M.W. 2008. User's Guide and Help System for CONIFERS: A Simulator for
Young Conifer Plantations Version
4.10. See
\url{http://www.fs.fed.us/psw/programs/ecology_of_western_forests/projects/conifers/}
}
\author{Jeff D. Hamann \email{jeff.ham...@forestinformatics.com},\cr
Martin W. Ritchie \email{mritc...@fs.fed.us} }
\seealso{ \code{\link{plants.smc}},
\code{\link{plots.smc}}
\code{\link{plants.swo}},
\code{\link{plots.swo}},
\code{\link{sample.data}},
\code{\link{set.species.map}},
\code{\link{set.variant}},
\code{\link{smc}},
\code{\link{summary.sample.data}},
\code{\link{swo}},
\code{\link{thin}}
}
\examples{
library( rconifers )
## Example for SWO variant
## set the variant to the SWO variant and set species map
##set.species.map( set.variant(0) )
set.variant(0)
## grow the data that was originally swo in the smc variant
# load and display CONIFERS example plots
data( plots.swo )
print( plots.swo )
# load and display CONIFERS example plants
data( plants.swo )
print( plants.swo )
# create the sample.data list object
sample.swo.3 <- list( plots=plots.swo, plants=plants.swo, age=3,
x0=0.0,n.years.projected=0)
class(sample.swo.3) <- "sample.data"
}
\keyword{models}
and the WARNING:
* checking Rd \usage sections ... WARNING
Assignments in \usage in documentation object 'sample.data':
x <- list(plots, plants, age = 0, x0 = 0, n.years.projected = 0)
class(x) <- "sample.data"
Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* checking Rd contents ... OK
Respectfully,
Jeff.
Jeff Hamann, PhD
PO Box 1421
Corvallis, Oregon 97339-1421
541-754-2457
jeff.hamann[at]forestinformatics[dot]com
jeff.d.hamann[at]gmail[dot]com
http://www.forestinformatics.com
http://en.wikipedia.org/wiki/Forest_informatics
To ensure that your email is processed, include a subject entry in your email.
On Jan 6, 2012, at 11:38 AM, Bryan Hanson wrote:
> Jeff, quick question: is this a data set or a function you are documenting?
> What you say sounds like it's data, but the Rd file reads more like a
> function. Or are you trying to document a data format/object which stores
> specific data sets?
>
> Let us know, and I'll bet the answer will appear pretty quickly. Bryan
>
> ***********
> Bryan Hanson
> Professor of Chemistry & Biochemistry
> DePauw University
>
> On Jan 6, 2012, at 2:11 PM, Jeff Hamann wrote:
>
>> I'm trying to update a package and would like to crush a WARNING message for
>> a clean build.
>>
>> I've been struggling with this question and haven't gotten any traction on
>> the web either.
>>
>> I've got a document file (Rd) that contains the following \usage statement:
>>
>> \name{sample.data}
>> \alias{sample.data}
>>
>> \title{CONIFERS forest growth model sample data}
>>
>> \description{ A list object of type \code{sample.data} stores all of
>> the basic information about a \code{\link{data.frame}} object
>> representing a sample of plants.}
>>
>> \usage{
>> x <- list( plots=data.frame(), plants=data.frame(), age=0, x0=0.0,
>> n.years.projected=0 )
>> class(x) <- "sample.data"
>> }
>>
>> When I run R CMD check [pkg], I get the following WARNING:
>>
>> * checking Rd \usage sections ... WARNING
>> Assignments in \usage in documentation object 'sample.data':
>> x <- list(plots, plants, age = 0, x0 = 0, n.years.projected = 0)
>> class(x) <- "sample.data"
>>
>> Functions with \usage entries need to have the appropriate \alias
>> entries, and all their arguments documented.
>> The \usage entries must correspond to syntactically valid R code.
>> See the chapter 'Writing R documentation files' in manual 'Writing R
>> Extensions'.
>> * checking Rd contents ... OK
>>
>> I'm not sure if there's a problem with the \alias section or the \usage
>> section or both sections (I'm assuming this is the case).
>>
>> I've read the Chapter 2 of R-ext.pdf plenty and just can't seem to see where
>> I'm blowing it.
>>
>> Respectfully,
>> Jeff.
>>
>>
>> Jeff Hamann, PhD
>> PO Box 1421
>> Corvallis, Oregon 97339-1421
>> 541-754-2457
>> jeff.hamann[at]forestinformatics[dot]com
>> jeff.d.hamann[at]gmail[dot]com
>> http://www.forestinformatics.com
>> http://en.wikipedia.org/wiki/Forest_informatics
>>
>> To ensure that your email is processed, include a subject entry in your
>> email.
>>
>>
>>
>>
>>
>> [[alternative HTML version deleted]]
>>
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>
>
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