Hi Uwe,

Thanks for the help.  R version 2.14.0 (2011-10-31).  The file in question
looks like this (w/ a few minor edits for privacy):

\name{curatedData-package}
\alias{curatedData-package}
\alias{curatedData}
\docType{package}
\title{Cancer Gene Expression Analysis}
\description{The curatedData package provides relevant functions and data
for gene expression analysis in cancer patients.}
\details{
\tabular{ll}{
Package: \tab curatedData\cr
Type: \tab Package\cr
Version: \tab 1.0\cr
Date: \tab 2012-2-03\cr
License: \tab Artistic-2.0\cr
Depends: \tab R (>= 2.10.0), affy\cr
}
}
\author{
Benjamin F. Ganzfried, et al.

Department of Biostatistics and Computational Biology, Dana-Farber Cancer
Institute, Harvard School of Public Health

Maintainer: ben.ganzfried@gmail.com
}
\description{
Please refer to the following key.

For "summarygrade": low = 1, 2, LMP.  High= 3,4,23.

For "summarystage": early = 1,2, 12. late=3,4,23,34.

For "T": Stage (1-4).  If multiple stages given (eg 34), use the highest.

For "substage": substage (abcd).  For cases like ab, bc, use highest given.

For "G": Grade (1-4): If multiple given, ie 12, 23, use highest given.

For "N": N (0/1): degree of spread to regional lymph nodes.

For "M": M (0/1): presence of metastasis.

For "pltx": patient treated with platin.

For "tax": patient treated with taxol.

For "neo": patient treated with neoadjuvant treatment.

For "primary_therapy_outcome_success": response to any kind of therapy
(including radiation only).

For "chemo_response": platinum resistance: refractory=3mo or less,
resistant=6mo or less, sensitive=12mo or higher.

For "inferred_chemo_response": inferred platinum resistance:
refractory=death in 6mo or less, sensitive=survival for 12mo or more.

For "debulking": amount of residual disease (optimal = <1mm,
suboptimal=>1mm).
}




2012/2/8 Uwe Ligges <ligges@statistik.tu-dortmund.de>

>
>
> On 08.02.2012 18:44, Ben Ganzfried wrote:
>
>> Hi--
>>
>> I googled the above error and found previous postings about this error on
>> the list.  I was having a little difficulty implementing the advice
>> though.
>>  The suggestions were to use: traceback() and checkRd().  I'm using R in
>> the directory in which the .Rd file with the problem is located, but I'm
>> having difficulty figuring out how to proceed.  I've looked through the
>> help pages for traceback() and checkRd(), and would greatly appreciate any
>> advice for how to find the errors and fix them.
>>
>> The specific error I am getting when trying to check my package is:
>>
>> * checking Rd files ... WARNING
>> Error in Rd[[which]] : subscript out of bounds
>>
>
> Which R version (assuming R-2.14.1 or R-devel)? Can you make the file
> available?
>
> Uwe Ligges
>
>
>
>> problem found in ‘curatedData-package.Rd’
>>
>> Thanks in advance!
>>
>> Ben
>>
>>        [[alternative HTML version deleted]]
>>
>>
>>
>>
>> ______________________________**________________
>> R-help@r-project.org mailing list
>> https://stat.ethz.ch/mailman/**listinfo/r-help<https://stat.ethz.ch/mailman/listinfo/r-help>
>> PLEASE do read the posting guide http://www.R-project.org/**
>> posting-guide.html <http://www.R-project.org/posting-guide.html>
>> and provide commented, minimal, self-contained, reproducible code.
>>
>

	[[alternative HTML version deleted]]

