Re: [Rd] The default behaviour of a missing entry in an environment

%in% names(e) [1] FALSE get(x, e) # oops [1] 3 __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman rgent...@gmail.com __ R-devel@r-project.org mailing

Re: [Rd] Non-GPL packages for R

Hi, Peter Dalgaard wrote: Prof. John C Nash wrote: The responses to my posting yesterday seem to indicate more consensus than I expected: Umm, I had thought that it was well established that responders need not represent the population being surveyed. I doubt that there is consensus at

[Rd] debug

not being handled over the the next few weeks. Please let me know if you have problems, or suggested improvements. Robert -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M1-B514 PO Box

Re: [Rd] tabulate can accept NA values?

copying the matrix) outside the range of tabulate's nbin argument. Martin -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M1-B514 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700

Re: [Rd] [R] step by step debugger in R?

Hi, I stripped the cc's as I believe that all read this list. Romain Francois wrote: [moving this to r-devel] Robert Gentleman wrote: Hi, Romain Francois wrote: Duncan Murdoch wrote: On 5/22/2009 10:59 AM, Michael wrote: Really I think if there is a Visual Studio

Re: [Rd] Can a function know what other function called it?

. There is no line counter or anything of that sort available. best wishes Robert function call? Thanks! __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology

[Rd] a statement about package licenses

We are writing on behalf of the R Foundation, to clarify our position on the licenses under which developers may distribute R packages. Readers should also see FAQ 2.11: this message is not legal advice, which we never offer. Readers should also be aware that besides the R Foundation, R has many

Re: [Rd] install.packages and dependency version checking

-- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 rgent...@fhcrc.org __ R-devel@r

Re: [Rd] wish: exportClassPattern

]] __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024

Re: [Rd] Suggestion for the optimization code

* BTW, if this is relevant, I could try to do it. __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer

Re: [Rd] RFC: What should ?foo do?

would get the equivalent of ?foo now, if a decision to move were taken. Comments, please. Duncan Murdoch __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational

Re: [Rd] RFC: What should ?foo do?

Duncan Murdoch wrote: On 4/25/2008 10:16 AM, Robert Gentleman wrote: Duncan Murdoch wrote: Currently ?foo does help(foo), which looks for a man page with alias foo. If foo happens to be a function call, it will do a bit more, so ?mean(something) will find the mean method

Re: [Rd] R CMD check should check date in description

is not too useful) ... But definitely not a warning. Robert Best -k __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health

Re: [Rd] R CMD check should check date in description

, would you mind elaborating why? Sure: The date of what? Hadley -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 [EMAIL

Re: [Rd] Problem with new(externalptr)

https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 [EMAIL PROTECTED

[Rd] course announcement

you have a registration before making any travel plans. Also, this is definitely not a course for beginners. Best wishes Robert -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2

Re: [Rd] Evaluating R expressions from C

into the CAR-CDR variety). best wishes Robert Thanks for any help, Terry Therneau __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational

Re: [Rd] install.packages() and configure.args

- __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024

Re: [Rd] gregexpr (PR#9965)

. 'correctly' is a matter of definition, I believe: this could be considered to be vaguely worded in the help. __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational

Re: [Rd] 'load' does not properly add 'show' methods for classes extending 'list'

after loading /tmp/x.Rda, if I immediately do x[[1]] I get the show,GeneSetCollection-method but not show,GeneSet-method. Sorry for the somewhat obscure example. Martin -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer

[Rd] Jobs in Seattle

, or the post doc and should probably direct questions about the bioinformatics position to Martin. All applications must go through the FHCRC web site. thanks Robert -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research

Re: [Rd] HTML vignette browser

scary than source, e.g. LaTeX/Noweb source. I would very much prefer to keep the source, with some name, scary or not... -Deepayan __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD

Re: [Rd] Calling R_PolledEvents from R_CheckUserInterrupt

(Win32) ) R_ProcessEvents(); #else +R_PolledEvents(); if (R_interrupts_pending) onintr(); #endif /* Win32 */ __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD

Re: [Rd] Native implementation of rowMedians()

have to make sure that such a 'stats' function does behave = to the bioBase one. Martin __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division

Re: [Rd] One for the wish list - var.default etc

. If it turns out that he broke something that wasn't covered by the tests, he could create a new test for that and submit it somewhere, perhaps on the R Wiki. -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview

[Rd] buglet in terms calculations

the names via cleanTick = function(x) gsub(`, , x) works, but it seems a bit ugly, and it might be better if the modeling code was modified. best wishes -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100

[Rd] boundary case anomaly

a special name?) best wishes Robert -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 [EMAIL PROTECTED

Re: [Rd] possible bug in model.frame.default

recently. Can anyone tell if this is actually a bug? (In case not, please tell me where I got wrong). Regards, Thibaut. -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box

Re: [Rd] Wish list

it or not than to suppress articulating the need. Otherwise the development is driven by what is easy to do rather than what is needed. __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program

Re: [Rd] A possible improvement to apropos

- c(x, if (where) structure(found, names = rep.int(i, numFound)) else found) } } x } __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program

Re: [Rd] data frame subset patch, take 2

() does the same function) and to allow for(i in E) loops. thank you Vladimir Dergachev __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert

Re: [Rd] data frame subset patch, take 2

Robert Gentleman wrote: Hi, We had the names discussion and, AFAIR, the idea that someone might misinterpret the output as suggesting that one could index by number, seemed to kill it. A more reasonable argument against is that names- is problematic. You can use

Re: [Rd] caching frequently used values

to learn how Matrix does it, but don't know how to display the source with s3 methods (getAnywhere doesn't work). Tamas __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program

Re: [Rd] caching frequently used values

(), but how can I assign and retrieve values based on a numerical index (the derivative)? The example of the help page of assign explicitly shows that assign(a[1]) does not work for this purpose. Thanks, Tamas On Wed, Dec 13, 2006 at 01:54:28PM -0800, Robert Gentleman wrote: the idea you

Re: [Rd] data frame subset patch, take 2

__ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024

Re: [Rd] Error condition in evaluating a promise

-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 [EMAIL

Re: [Rd] Feature request: names(someEnv) same as ls(someEnv)

-- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 [EMAIL PROTECTED] __ R-devel@r

Re: [Rd] Strange behaviour of the [[ operator

[,1] [,2] [1,]13 [2,]24 m[j=2] [1] 2 Or even m[j=2,i=] [1] 2 4 However, what would the argument names be in the 2-dim case? i, j are used only in help([) and that page is quite specific about explaining that named matching doesn't work. -- Robert Gentleman

Re: [Rd] Question about substitute() and function def

/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 [EMAIL PROTECTED

Re: [Rd] [R] Bug/problem reporting: Possible to modify posting guide FAQ?

://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer

Re: [Rd] S4 'object is not subsettable' in prototype

, but happily, that is no longer needed. + seth -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 [EMAIL PROTECTED

Re: [Rd] configure on mac

list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 [EMAIL PROTECTED

Re: [Rd] [R] HTTP User-Agent header

should appear at an R-devel near you... thanks Seth Seth Falcon wrote: Robert Gentleman [EMAIL PROTECTED] writes: OK, that suggests setting at the options level would solve both of your problems and that seems like the best approach. I don't really want to pass this around as a parameter

Re: [Rd] [R] HTTP User-Agent header

. If there is interest, I will polish it. It looks right, but I am running under Windows without a compiler. -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109

Re: [Rd] [R] HTTP User-Agent header

, Robert Gentleman [EMAIL PROTECTED] wrote: I wonder if it would not be better to make the user agent string something that is configurable (at the time R is built) rather than at run time. This would make Seth's patch about 1% as long. Or this could be handled as an option. The patches are pretty

[Rd] proposed modifications to deprecated

a standard message (just as .Deprecated does) and then continue with the search using the other file extensions. Defunct could be handled similarly. Comments, alternative suggestions? thanks Robert -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health

Re: [Rd] R CMD check: non source files in src on (2.3.0 RC (2006-04-19 r37860))

. Best -k __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2

Re: [Rd] R CMD check: non source files in src on (2.3.0 RC (2006-04-19 r37860))

. [...] -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 [EMAIL PROTECTED] __ R

Re: [Rd] R CMD check: non source files in src on (2.3.0 RC (2006-04-19 r37860))

, 20 Apr 2006, Robert Gentleman wrote: I disagree, things like README files and other objects are important and should be included. I don't see the real advantage to such warnings, if someone wants them they could be turned on optionally. Isn't the point at least partly that all those

Re: [Rd] Word boundaries and gregexpr in R 2.2.1 (PR#8547)

-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700

[Rd] clarification of library/require semantics

folks I have asked have said they want the lib.loc parameter to be used for other loading. Comments? Robert -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle