here are reasonable cases where a function is redefined based on
available packages, for example.
+ seth
--
Seth Falcon | Computational Biology | Fred Hutchinson Cancer Research Center
http://bioconductor.org
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htt
showMethods isn't reporting inherited methods when it is first
called. The methods are there and after calling them, showMethods
gives the right output.
Here is an example (using R-devel r39647):
setClass("A", representation(x="numeric"),
prototype=list(x=1))
setClass("B", contains="A"
scover "what can be done" with an instance of a given class.
showMethods is very close to being that tool, but the interaction with
the method caching makes it confusing (until one has a solid
understanding of the method caching, but IMHO this isn't something a
user should need to k
Simon Urbanek <[EMAIL PROTECTED]> writes:
> thanks, but this is not what I want (the symbols in the environment
> are invisible outside) and it has nothing to do with the question I
> posed: as I was saying in the previous e-mail the point is to have
> exported variables in a namespace, but t
Hi,
The warning that was recently added to R-devel about unrecognized
escapes has been very helpful in identifying a number of incorrectly
specified regular expressions.
We are, however, seeing warning messages for Rd files that contiain
'\_' and I think that _is_ a recognized escape.
Can the ch
John Chambers <[EMAIL PROTECTED]> writes:
> If showMethods() were extended in this way but consistent with its
> behavior now, you would potentially get a mess (and do a lot of
> computation). Any method with "ANY" in any element of its signature
> qualifies (in particular, all default methods).
"Roger D. Peng" <[EMAIL PROTECTED]> writes:
> I've encountered a (I think) related problem when using promises to load
> relatively large datasets. For example something like
>
> delayedAssign("x", getBigDataset())
>
> runs into the same problem if you hit Ctrl-C while 'x' is being evaluated for
Peter Dalgaard <[EMAIL PROTECTED]> writes:
> Er, do you have a minimal example showing the behaviour? It's not
> quite clear whether you have this happening everywhere or only in
> example sections, formulas or...?
Oups. The example I was looking at has \_ in a number of places in
the Rd files so
Seth Falcon <[EMAIL PROTECTED]> writes:
> Peter Dalgaard <[EMAIL PROTECTED]> writes:
>> Er, do you have a minimal example showing the behaviour? It's not
>> quite clear whether you have this happening everywhere or only in
>> example sections, formulas or...
"Deepayan Sarkar" <[EMAIL PROTECTED]> writes:
> On 10/22/06, Duncan Murdoch <[EMAIL PROTECTED]> wrote:
>> In R code, you could use getNamespace("pkg") to get the namespace
>> environment. I haven't tried this, but I'd assume
>>
>> PROTECT(rho = eval(lang2(install("getNamespace"),
>>
Seth Falcon <[EMAIL PROTECTED]> writes:
> Perhaps:
>
> R_FindNamespace(mkString(where))
Sorry, this won't help you for package-level code as this function is
part of the internal use only API. It would be nice to have access to
it or a similar function fr
LSE
Thoughts?
+ seth
--
Seth Falcon | Computational Biology | Fred Hutchinson Cancer Research Center
http://bioconductor.org
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R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
Peter Dalgaard <[EMAIL PROTECTED]> writes:
> Hmm...
>
>> as.character(v)
> [1] NA "NA" "NA"
>
> This does look like a leftover from times when there was no character
> NA in the language. It is the kind of thing you need to be very
> careful about fixing though. (I have a couple of scars from
> a
John Chambers <[EMAIL PROTECTED]> writes:
> As I mentioned, this relates to writing methods for initialize().
> Imagine someone else extends the class "Ab", for which you wrote a
> method. If they add slots to their class and you do not pass down ...
> to callNextMethod(), then you have blocked us
Juan Santiago Ramseyer <[EMAIL PROTECTED]> writes:
> install packages RMySQL fail.
>
> System Fedora Core 6 x86_64
>
> see down. It's bug or incomplete install MySQL?
You need to install the devel headers for MySQL. This should be
available as an rpm for your system.
+ seth
___
"Pfaff, Bernhard Dr." <[EMAIL PROTECTED]> writes:
> Sorry, to bother the list one more time: but the following worked at
> least for 'urca':
>
> in NAMESPACE I now included explicitly:
>
> import(methods)
>
> a fix of the 'urca'-package will be uploaded to CRAN on the weekend.
> Fritz, will this w
John Chambers <[EMAIL PROTECTED]> writes:
> I haven't had a chance to verify these exact examples, but the likely
> explanation is that loading the workspace does not cache the saved
> methods. Assuming this is indeed what's happening, the workaround is to
> cache them "manually" by the call:
Hi,
Is there an alternative to type2char that is available for use in
package code? It would be useful for producing more informative error
messages.
+ seth
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Prof Brian Ripley <[EMAIL PROTECTED]> writes:
> type2char is itself a fairly recent addition (there is also type2str,
> which is older) that I found useful for improving messages in R
> itself.
>
> I have not encountered such a need in package code, but the function
> is exported.
>
> This is not
Hi,
I just updated to svn rev 39899 on a SuSE 10.1/x86_64 system and I get
the following error when configuring R:
checking for X... libraries /usr/X11R6/lib64, headers /usr/X11R6/include
checking for gethostbyname... yes
checking for connect... yes
checking for remove... yes
checking for shmat..
Hi,
I would like to be able to create new environments from package C
code. AFAICT, this isn't allowed since both NewEnvironment and
R_NewHashedEnv are declared in Defn.R.
If exposing this isn't controvertial, I would submit a patch.
However, I'm not sure where the declarations should go (Rdefin
Prof Brian Ripley <[EMAIL PROTECTED]> writes:
> NewEnvironment is currently exposed as Rf_NewEnvironment.
> R_NewHashedEnv is currrently hidden, but I'll unhide it. It does not
> need a further prefix.
Thank you. Could someone provide a bit more detail on how to
determine if a given function in
"Tom McCallum" <[EMAIL PROTECTED]> writes:
> After getting one list done, I am now struggling to form a data frame in C.
>
> I tried to do a list of lists which gives me :
>
> $
> $[[1]]
> [1] "BID"
>
> $[[2]]
> [1] 0.6718
[snip]
>
> and then as.data.frame them in R but this gives me
One approach
"Ricardo Rios" <[EMAIL PROTECTED]> writes:
> I have a source code in C, it use the function lang2 ,does somebody
> know what does this function do. Thanks in advance.
It creates a language list. This is a Lisp-style pair list. A common
use of it is to build a function call to pass to eval.
+ s
Hi Duncan, all,
Duncan Murdoch <[EMAIL PROTECTED]> writes:
> This is now committed.
>
> I used keep.source, exactly the same as the option() that controls this
> behaviour in other places.
>
> I decided to set the default to TRUE. This means vignettes will all
> look different in R-devel.
I'
Duncan Murdoch <[EMAIL PROTECTED]> writes:
> There have been a couple of requests to set the keep.source default to
> FALSE (i.e. not to enable the new behaviour), so I've done that.
Thank you. That is much appreciated.
> Hopefully the code will still be exercised enough that we can have
> conf
Ross Boylan <[EMAIL PROTECTED]> writes:
> That answers my question. The meaning was if "foo" is an S3 method,
> should one avoid defining "foo" as an S4 method. And the answer is
> no, it's OK. I assume one should strive to use the same argument
> names, although since S3 methods don't need to u
"Byron Ellis" <[EMAIL PROTECTED]> writes:
> Hi All,
>
> I find myself wondering if there is a canonical means of achieving the
> multiple-dispatch version of 'super'? Specifically, I have a set of
> classes
>
> A, B, X and Y where B extends A
>
> and a method Foo with the signature (X,A,Y) and I'd
Kurt wrote:
>> This is not "enhancing" the way it is currently implemented, which is
>> allowing for the possibility to provide S3 or S4 methods for classes
>> from another package without actively suggesting it (thus enhancing
>> it).
By provide an S4 method for a class, I guess you mean define
Tamas K Papp <[EMAIL PROTECTED]> writes:
> On Wed, Dec 13, 2006 at 03:05:46PM -0800, Robert Gentleman wrote:
>
>> e1 = new.env(hash=TRUE)
>>
>> e1[["1"]] = whateveryouwant
>>
>> ie. just transform to characters, but I don't see why you want to do
>> that - surely there are more informative name
Hello all,
I've had the following apropos alternative in my ~/.Rprofile for some
time, and have found it more useful than the current version.
Basically, my version ignores case when searching.
If others find this useful, perhaps apropos could be suitably patched
(and I'd be willing to create suc
Martin Maechler <[EMAIL PROTECTED]> writes:
> Hi Seth,
> Could you live with typing 'i=T' (i.e. ignore.case=TRUE)?
I can live with my ~/.Rprofile, I suppose. :-)
> In principle, I'd like to keep the default as ignore.case=FALSE,
> since we'd really should teach the users that R
> *is* case s
Kurt Hornik <[EMAIL PROTECTED]> writes:
>> Robert Gentleman writes:
>
>> I would also, personally prefer some sort of approximate matching since
>> there are different ways to spell some words, and some folks abbreviate
>> parts of words.
>
> The same design has been employed by help.search
Ben Bolker <[EMAIL PROTECTED]> writes:
> I'm trying to add arguments to the AIC method
> for some classes -- things like
> weights=TRUE to calculate AIC weights
> corr=TRUE, nobs to calculate AICc
> delta=TRUE to put a delta-AIC column in the output.
>
> The problem is that AIC is define
Ross Boylan <[EMAIL PROTECTED]> writes:
> I would like to preserve the values of all the arguments to a function
> in a results object.
> foo <- function(a, b=1)
> foo(x, 3)
>
> match.call() looks promising, but it records that a is x, while I want
> the value of x (in the calling frame). Al
"Michael Braun" <[EMAIL PROTECTED]> writes:
> Suppose I want to compute the log density of a multivariate normal
> distribution using C code and the gsl library. My R program is:
>
> dyn.load("mvnorm-logpdf.so")
>
> x<-c(0,0,0,0,0,0)
> mu<-c(0,0,0,0,0,0)
> sig<-diag(6)
>
Hi,
A recent change has R failing to compile (for me) on ppc OSX 10.4.8 like this:
../../../../R-devel/src/main/datetime.c: In function `reset_tz':
../../../../R-devel/src/main/datetime.c:511: error: void value not ignored as
it ought to be
I suspect there is some sort of configure magic that n
The documentation for unlist says:
By default, 'unlist' tries to retain the naming information
present in 'x'. If 'use.names = FALSE' all naming information is
dropped.
Hence, I find it odd that I see the following:
> b <- list("highway1"=1:5)
> unlist(b)
highway11 hi
Prof Brian Ripley <[EMAIL PROTECTED]> writes:
> On Mon, 8 Jan 2007, Seth Falcon wrote:
>
>> The documentation for unlist says:
>>
>> By default, 'unlist' tries to retain the naming information
>> present in 'x'. If 'use.names =
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