I am unclear on whether to run R CMD check pgkname as user or as root on Linux. When running as user, after all the latex, html, and man files are created, I get the following error message: Rdconv(): Couldn't open '': Permission denied Has anyone dealt with that message? When I run R CMD check a second time, all latex, html, etc. are recreated which takes quite a while. Is there a way for R CMD check to compile only the help files that have changed since the last check (the way that R CMD INSTALL does)? Thanks, Frank -- Frank E Harrell Jr Prof. of Biostatistics & Statistics Div. of Biostatistics & Epidem. Dept. of Health Evaluation Sciences U. Virginia School of Medicine http://hesweb1.med.virginia.edu/biostat -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send "info", "help", or "[un]subscribe" (in the "body", not the subject !) To: r-help-request at stat.math.ethz.ch _._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._
On Tue, 14 May 2002, Frank E Harrell Jr wrote:> I am unclear on whether to run R CMD check pgkname as user or as root on Linux. When running as user, after all the latex, html, and man files are created, I get the following error message: > > Rdconv(): Couldn't open '': Permission denied > > Has anyone dealt with that message?No. Check what's in man with ls -a.> When I run R CMD check a second time, all latex, html, etc. are recreated which takes quite a while. Is there a way for R CMD check to compile only the help files that have changed since the last check (the way that R CMD INSTALL does)?--no-clean> > Thanks, > > Frank > -- > Frank E Harrell Jr Prof. of Biostatistics & Statistics > Div. of Biostatistics & Epidem. Dept. of Health Evaluation Sciences > U. Virginia School of Medicine http://hesweb1.med.virginia.edu/biostat > -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- > r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html > Send "info", "help", or "[un]subscribe" > (in the "body", not the subject !) To: r-help-request at stat.math.ethz.ch > _._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._ >-- Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272860 (secr) Oxford OX1 3TG, UK Fax: +44 1865 272595 -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html Send "info", "help", or "[un]subscribe" (in the "body", not the subject !) To: r-help-request at stat.math.ethz.ch _._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._
Thanks to those who helped with R CMD check yesterday. Part of my problem was a
faulty Linux directory (list directory bit turned off).
I have three further question. First, I get an error related to the following
piece of a .Rd file:
\usage{
bystats(y, \dots, fun, nmiss, subset)
b <- bystats(y, \dots)
print(b, \dots)
latex(b, caption, title, rowlabel, \dots)
b <- bystats2(y, v. h. fun, nmiss, subset)
latex(b, caption, title, rowlabel, \dots)
}
* checking for undocumented arguments in \usage ... WARNING
Error in parse(file, n, text, prompt) : parse error
Error in checkDocArgs(package = "Hmisc") :
cannot source usages in documentation object 'bystats'
Execution halted
Other .Rd files have \dots and do not result in an error.
Second, I get this message:
Objects with usage in documentation object 'aregImpute' but missing from
code:
[1] "plot" "print"
The aregImpute function, like many others, has under the Usage section code such
as plot(object) and print(object) but the aliases at the top of the .Rd file
point to plot.aregImpute and print.aregImpute. To me there should not be a
warning about this.
Third, I use several non-standard keywords (e.g., bootstrap, imputation). Is
there a way to add user-provided keywords to the system (I'm using R 1.5 on
Linux)?
Thanks, Frank
--
Frank E Harrell Jr Prof. of Biostatistics & Statistics
Div. of Biostatistics & Epidem. Dept. of Health Evaluation Sciences
U. Virginia School of Medicine http://hesweb1.med.virginia.edu/biostat
-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-
r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html
Send "info", "help", or "[un]subscribe"
(in the "body", not the subject !) To: r-help-request at
stat.math.ethz.ch
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