Re: [R] Errors checking a library
michael watson (IAH-C) wrote: Hi I am writing an R library. The documentation for one of my functions includes an example that I *know* works - simply cut and paste into R on either Windows and Linux and it works perfectly, no errors or warnings, nothing, nyet. However, when I run R CMD check on the library, I get an error. I am running R CMD check on linux, and the offending piece of code appears to be: cox[cox$group %in% onc,] You need to quote %: \%. Uwe Ligges cox is a data frame, one of the columns of which is group, which contains numbers. onc is a vector of numbers. The output on Linux from R CMD check is this: # lots of code # lots of code cox[cox$group + + + # the rest of my code Error: syntax error Execution halted As can be seen, my code cox[cox$group %in% onc,] seems to have been executed incorrectly. Does R CMD check have a problem with the %in% operator? It would seem that R has somehow got mixed up and has lost the rest of my command. I'm using R 1.9.1 on Suse Linux 8.2. The example code works fine on both Windows and Linux when cut-and-pasted into an R window. Mick __ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Errors checking a library
On Thu, 18 Nov 2004, michael watson (IAH-C) wrote:
Hi
I am writing an R library. The documentation for one of my functions
includes an example that I *know* works - simply cut and paste into R on
either Windows and Linux and it works perfectly, no errors or warnings,
nothing, nyet.
However, when I run R CMD check on the library, I get an error. I am
running R CMD check on linux, and the offending piece of code appears to
be:
cox[cox$group %in% onc,]
cox is a data frame, one of the columns of which is group, which
contains numbers. onc is a vector of numbers.
The output on Linux from R CMD check is this:
# lots of code
# lots of code
cox[cox$group
+
+
+ # the rest of my code
Error: syntax error
Execution halted
As can be seen, my code cox[cox$group %in% onc,] seems to have been
executed incorrectly. Does R CMD check have a problem with the %in%
operator? It would seem that R has somehow got mixed up and has lost
the rest of my command.
I'm guessing at what you may mean, so excuse me getting it wrong. If the
code is in an example in a help file (*.Rd, \examples{} block), then the %
may be being interpreted as a comment character, and the remainder of the
line not processed - see Writing R Extensions - Writing R documentation
files - Insertions.
If that is the problem, then escaping the % by \% should fix it, that it
what is done in src/library/base/man/match.Rd anyway.
I'm using R 1.9.1 on Suse Linux 8.2. The example code works fine on
both Windows and Linux when cut-and-pasted into an R window.
Mick
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Re: [R] Errors checking a library
michael watson (IAH-C) [EMAIL PROTECTED] writes:
I am writing an R library.
A whole library? Shouldn't you try a package first?
The documentation for one of my functions
includes an example that I *know* works - simply cut and paste into R on
either Windows and Linux and it works perfectly, no errors or warnings,
nothing, nyet.
However, when I run R CMD check on the library, I get an error. I am
running R CMD check on linux, and the offending piece of code appears to
be:
cox[cox$group %in% onc,]
cox is a data frame, one of the columns of which is group, which
contains numbers. onc is a vector of numbers.
The output on Linux from R CMD check is this:
# lots of code
# lots of code
cox[cox$group
+
+
+ # the rest of my code
Error: syntax error
Execution halted
As can be seen, my code cox[cox$group %in% onc,] seems to have been
executed incorrectly. Does R CMD check have a problem with the %in%
operator? It would seem that R has somehow got mixed up and has lost
the rest of my command.
Think: What is the comment character in .Rd files?
Checking out src/library/base/man/match.Rd should be enlightening, but
since you might not have R sources installed, here are the relevant
bits:
\name{match}
\alias{match}
\alias{\%in\%}
\title{Value Matching}
\description{
\code{match} returns a vector of the positions of (first) matches of
its first argument in its second.
\code{\%in\%} is a more intuitive interface as a binary operator,
which returns a logical vector indicating if there is a match or not
for its left operand.
}
\usage{
match(x, table, nomatch = NA, incomparables = FALSE)
x \%in\% table
}
\examples{
## The intersection of two sets :
intersect - function(x, y) y[match(x, y, nomatch = 0)]
intersect(1:10,7:20)
1:10 \%in\% c(1,3,5,9)
sstr - c(c,ab,B,bba,c,@,bla,a,Ba,\%)
sstr[sstr \%in\% c(letters,LETTERS)]
\%w/o\% - function(x,y) x[!x \%in\% y] #-- x without y
(1:10) \%w/o\% c(3,7,12)
}
\keyword{manip}
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