[R] RODBC compile error with R 2.4.1
Hi All, I'm getting the following error, could anyone help please? $ R CMD INSTALL RODBC_1.1-7.tar.gz * Installing *source* package 'RODBC' ... checking for gcc... gcc -std=gnu99 checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc -std=gnu99 accepts -g... yes checking for gcc -std=gnu99 option to accept ANSI C... none needed checking how to run the C preprocessor... gcc -std=gnu99 -E checking for egrep... grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking sql.h usability... yes checking sql.h presence... yes checking for sql.h... yes checking sqlext.h usability... yes checking sqlext.h presence... yes checking for sqlext.h... yes checking for library containing SQLTables... -lodbc checking for SQLLEN... yes checking for SQLULEN... yes checking for long... yes checking size of long... configure: error: cannot compute sizeof (long), 77 See `config.log' for more details. ERROR: configuration failed for package 'RODBC' ** Removing '/usr/local/lib/R/library/RODBC' ** Restoring previous '/usr/local/lib/R/library/RODBC' version _ platform x86_64-unknown-linux-gnu arch x86_64 os linux-gnu system x86_64, linux-gnu status major 2 minor 4.1 year 2006 month 12 day18 svn rev40228 language R version.string R version 2.4.1 (2006-12-18) Regards, Matthew __ R-help@stat.math.ethz.ch mailing list https://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.
[R] FW: Debug package question
Dear list,
I received the response below from the package author of 'debug'. I
post it to the list, with Mark's approval, in case it is useful to
others too.
Regards, Matthew
-Original Message-
From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED]
Sent: 22 October 2006 23:53
To: Matthew Dowle
Cc: [EMAIL PROTECTED]
Subject: RE: Debug package question
Hi Matthew
That's an interesting point. If it's your own code, my recommendation
would be to predefine the function and then mtrace it, as you suggest.
But I can see that this isn't always easy, e.g. if you're trying to
debug a system function.
Because every little operation in R is actually a function call, it's
probably not very useful for 'mtrace' to have a step-into mode. [Anyway,
whether useful or not, it doesn't have one! ;)]
The simplest way to get what you're after-- but it might not work--
would be to 'mtrace(apply)' and then call 'mtrace( FUN)' manually when
the debug window for 'apply' appears. The snag is that 'apply' is quite
likely to feature somewhere in the workings of 'debug' (I can't
remember!) so you might hang the thing altogether. Also, if your own
function happens to call 'apply' (directly or indirectly) you will get
stuck with a lot of debug windows.
A more robust, complicated, and devious way to get what you're after, is
to write a version of 'apply' that automatically calls 'mtrace' on its
function-argument and then invokes the real 'apply'. Something like
this:
mtrace.apply - function( X, MARGIN, FUN, ...) {
FFF - FUN # don't know whether this is necessary
mtrace( FFF) # naughty-- should really arrange for name to be unique
mc - match.call( expand.dots=TRUE)
mc$FUN - FFF
mc[[1]] - quote( apply)
eval( mc, envir=parent.frame())
}
Then call 'mtrace.apply' instead of 'apply'.
BTW: if your pass-in function isn't crashing the first time it's called,
you might find it useful to use the 'bp(1,F)' trick the first time it
appears in a debug window-- this means that it won't pop the window up
and wait for input until/unless there's a crash.
Hope this helps-- and glad you like the package
Mark
Mark Bravington
CSIRO Mathematical Information Sciences
Marine Laboratory
Castray Esplanade
Hobart 7001
TAS
ph (+61) 3 6232 5118
fax (+61) 3 6232 5012
mob (+61) 438 315 623
-Original Message-
From: Matthew Dowle [mailto:[EMAIL PROTECTED]
Sent: Friday, 20 October 2006 8:20 PM
To: Bravington, Mark (CMIS, Hobart)
Subject: Debug package question
Hi Mark,
I've been using your excellent debug for a while now. Its truly
excellent.
The most common reason I find it useful is when R returns
subscript
out of bounds error. R provides no context information in the
message so I just mtrace() the function and your package
tells me the
line straight away. Perfect.
I have one question ... when I use the apply() family to apply a
function and the error occurs inside the function *defined*
inside the
function, e.g. :
X = matrix(...)
apply(X, 2, function(x) {
lots of lines
... M[m,] ...
lots of lines
... N[n,] ...
lots of lines
... O[o,] ...
lots of lines
})
Where it is the M[m,], N[n,] or O[o,] which generates the out of
bounds on a particular iteration, but you don't know which one.
Mtrace() will skip over the apply() and say the same as R,
that an out
of bounds has occurred somewhere, but not where, since
mtrace has not
been called on the function(x).
One way to work around this, is to define the sub-function
first with
a name, call mtace() on it, then execute the apply.
Is that the
only way? Is there a way to set mtrace() to automatically mtrace()
any function it calls, like step into and step over in other
languages ?
Regards,
Matthew
version
_
platform i386-pc-mingw32
arch i386
os mingw32
system i386, mingw32
status
major2
minor1.1
year 2005
month06
day 20
language R
and also
version
_
platform x86_64-unknown-linux-gnu
arch x86_64
os linux-gnu
system x86_64, linux-gnu
status
major2
minor1.1
year 2005
month06
day 20
language R
__
R-help@stat.math.ethz.ch mailing list
https://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
[R] Avoiding a memory copy by [[
Hi, n = 1000 L = list(a=integer(n), b=integer(n)) L[[2]][1:10] gives me the first 10 items of the 2nd vector in the list L. It works fine. However it appears to copy the entire L[[2]] vector in memory first, before subsetting it. It seems reasonable that [[ can't know that all that is to be done is to do [1:10] on the result and therefore a copy in memory of the entire vector L[[2]] is not required. Only a new vector length 10 need be created. I see why [[ needs to make a copy in general. L[[c(2,1)]] gives me the 1st item of the 2nd vector in the list L. It works fine, and does not appear to copy L[[2]] in memory first. Its much faster as n grows large. But I need more than 1 element of the vector L[[c(2,1:10)]] fails with Error: recursive indexing failed at level 2 Is there a way I can obtain the first 10 items of L[[2]] without a memory copy of L[[2]] ? Thanks! Matthew R 2.1.1 [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch 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] Avoiding a memory copy by [[
Thanks. I looked some more and found that L$b[1:10] doesn't seem to copy L$b. If that's correct why does L[[2]][1:10] copy L[[2]] ? -Original Message- From: Prof Brian Ripley [mailto:[EMAIL PROTECTED] Sent: 23 May 2006 16:23 To: Matthew Dowle Cc: 'r-help@stat.math.ethz.ch' Subject: Re: [R] Avoiding a memory copy by [[ On Tue, 23 May 2006, Matthew Dowle wrote: Hi, n = 1000 L = list(a=integer(n), b=integer(n)) L[[2]][1:10] gives me the first 10 items of the 2nd vector in the list L. It works fine. However it appears to copy the entire L[[2]] vector in memory first, before subsetting it. It seems reasonable that [[ can't know that all that is to be done is to do [1:10] on the result and therefore a copy in memory of the entire vector L[[2]] is not required. Only a new vector length 10 need be created. I see why [[ needs to make a copy in general. L[[c(2,1)]] gives me the 1st item of the 2nd vector in the list L. It works fine, and does not appear to copy L[[2]] in memory first. Its much faster as n grows large. But I need more than 1 element of the vector L[[c(2,1:10)]] fails with Error: recursive indexing failed at level 2 Note that [[ ]] is documented to only ever return one element, so this is invalid. Is there a way I can obtain the first 10 items of L[[2]] without a memory copy of L[[2]] ? Use .Call -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Avoiding a memory copy by [[
That development sounds excellent. I'm happy to help test it, just let me know. Until 2.4.0 then I'll do something like the following, because I need to deal with list integer locations rather than names : eval(parse(text=paste(L$',names(L)[2],'[1:10],sep=))) This works well but if there is an easier way until 2.4.0, please let me know. Thank you and Henrik for your replies. -Original Message- From: Prof Brian Ripley [mailto:[EMAIL PROTECTED] Sent: 23 May 2006 17:47 To: Henrik Bengtsson Cc: Matthew Dowle; r-help@stat.math.ethz.ch Subject: Re: [R] Avoiding a memory copy by [[ On Tue, 23 May 2006, Henrik Bengtsson wrote: On 5/23/06, Matthew Dowle [EMAIL PROTECTED] wrote: Thanks. I looked some more and found that L$b[1:10] doesn't seem to copy L$b. If that's correct why does L[[2]][1:10] copy L[[2]] ? I forgot, this is probably what I was told in discussion about UseMethod($) the other day: The $ operator is very special. Its second argument (the one after the operator) is not evaluated. For [[ it is. This is probably also why the solution with environment works. I think some with the more knowledge about the R core has to give you the details on this, and especially why $ is special in the first place (maybe because of the example you're giving). That's not the reason here: the internal code for [[ duplicates for vector lists but not pairlists. That could be replaced by a NAMED optimization, although we would not do that until 2.4.0 (for which Thomas Lumley has written profiling code for memory use and duplication). /Henrik -Original Message- From: Prof Brian Ripley [mailto:[EMAIL PROTECTED] Sent: 23 May 2006 16:23 To: Matthew Dowle Cc: 'r-help@stat.math.ethz.ch' Subject: Re: [R] Avoiding a memory copy by [[ On Tue, 23 May 2006, Matthew Dowle wrote: Hi, n = 1000 L = list(a=integer(n), b=integer(n)) L[[2]][1:10] gives me the first 10 items of the 2nd vector in the list L. It works fine. However it appears to copy the entire L[[2]] vector in memory first, before subsetting it. It seems reasonable that [[ can't know that all that is to be done is to do [1:10] on the result and therefore a copy in memory of the entire vector L[[2]] is not required. Only a new vector length 10 need be created. I see why [[ needs to make a copy in general. L[[c(2,1)]] gives me the 1st item of the 2nd vector in the list L. It works fine, and does not appear to copy L[[2]] in memory first. Its much faster as n grows large. But I need more than 1 element of the vector L[[c(2,1:10)]] fails with Error: recursive indexing failed at level 2 Note that [[ ]] is documented to only ever return one element, so this is invalid. Is there a way I can obtain the first 10 items of L[[2]] without a memory copy of L[[2]] ? Use .Call -- Brian D. Ripley, [EMAIL PROTECTED] 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 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Brian D. Ripley, [EMAIL PROTECTED] 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 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] a+b
Hi, Is there a way to define + so that a+b returns ab ? setMethod(+,c(character,character),paste) Error in setMethod(+, c(character, character), paste) : the method for function '+' and signature e1=character, e2=character is sealed and cannot be re-defined a+b Error in a + b : non-numeric argument to binary operator Thanks! [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch 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] a+b
Thanks for the information. By 'not easily' it sounds like it is possible, but how? I'm happy to allow 'errors' like 2+3=23, is that what an erroneous use could be? I tried the following, given the info in your reply, which works. But is there a way to allow a+b=ab? x = a `+.character` - function(e1, e2) paste(e1,e2, sep=) attr(x,class)=character x+x [1] aa -Original Message- From: Prof Brian Ripley [mailto:[EMAIL PROTECTED] Sent: 02 May 2006 12:03 To: Matthew Dowle Cc: 'r-help@stat.math.ethz.ch' Subject: Re: [R] a+b Not easily. There's a comment in ?Ops that for efficiency the group generics only dispatch on objects with a class attribute: otherwise you could use an S3 method like `+.character` - function(e1, e2) paste(e1,e2, sep=) S4 methods are built on top of S3 methods as far as internal dispatch is concerned, so the same comment will apply there AFAICS. I would think that the intention was also to positively discourage messing with the basics of R, as if you were able to do this erroneous uses would likely not get caught. On Tue, 2 May 2006, Matthew Dowle wrote: Hi, Is there a way to define + so that a+b returns ab ? setMethod(+,c(character,character),paste) Error in setMethod(+, c(character, character), paste) : the method for function '+' and signature e1=character, e2=character is sealed and cannot be re-defined a+b Error in a + b : non-numeric argument to binary operator Thanks! [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Brian D. Ripley, [EMAIL PROTECTED] 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 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch 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] a+b
Ok, thanks for clarifying. -Original Message- From: Prof Brian Ripley [mailto:[EMAIL PROTECTED] Sent: 02 May 2006 12:51 To: Matthew Dowle Cc: 'r-help@stat.math.ethz.ch' Subject: RE: [R] a+b On Tue, 2 May 2006, Matthew Dowle wrote: Thanks for the information. By 'not easily' it sounds like it is possible, but how? Change the C code. R is Open Source, so anything is possible. I'm happy to allow 'errors' like 2+3=23, is that what an erroneous use could be? 2 + x, for example, where x is not numeric. I tried the following, given the info in your reply, which works. But is there a way to allow a+b=ab? x = a `+.character` - function(e1, e2) paste(e1,e2, sep=) attr(x,class)=character x+x [1] aa -Original Message- From: Prof Brian Ripley [mailto:[EMAIL PROTECTED] Sent: 02 May 2006 12:03 To: Matthew Dowle Cc: 'r-help@stat.math.ethz.ch' Subject: Re: [R] a+b Not easily. There's a comment in ?Ops that for efficiency the group generics only dispatch on objects with a class attribute: otherwise you could use an S3 method like `+.character` - function(e1, e2) paste(e1,e2, sep=) S4 methods are built on top of S3 methods as far as internal dispatch is concerned, so the same comment will apply there AFAICS. I would think that the intention was also to positively discourage messing with the basics of R, as if you were able to do this erroneous uses would likely not get caught. On Tue, 2 May 2006, Matthew Dowle wrote: Hi, Is there a way to define + so that a+b returns ab ? setMethod(+,c(character,character),paste) Error in setMethod(+, c(character, character), paste) : the method for function '+' and signature e1=character, e2=character is sealed and cannot be re-defined a+b Error in a + b : non-numeric argument to binary operator Thanks! [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Brian D. Ripley, [EMAIL PROTECTED] 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 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 -- Brian D. Ripley, [EMAIL PROTECTED] 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 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch 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] a+b
Perfect. Thank you! -Original Message- From: Martin Morgan [mailto:[EMAIL PROTECTED] Sent: 02 May 2006 17:10 To: Matthew Dowle Cc: 'Prof Brian Ripley'; 'r-help@/usr/bin/idn: idna_to_ascii_4z() failed with error 3. r-help@stat.math.ethz.ch@fhcrc.org Subject: Re: [R] a+b I think %any-symbol% defines a binary operator, so %+% - function(x,y) paste(x,y,sep=) a %+% b [1] ab or for more fun setGeneric(%+%, function(x,y) standardGeneric(%+%)) [1] %+% setMethod(%+%, signature(x=character, y=character), function(x,y) paste(x,y,sep=)) [1] %+% setMethod(%+%, signature(x=numeric, y=numeric), function(x,y) x+y) [1] %+% a %+% b [1] ab 1 %+% 2 [1] 3 Martin Matthew Dowle [EMAIL PROTECTED] writes: Thanks for the information. By 'not easily' it sounds like it is possible, but how? I'm happy to allow 'errors' like 2+3=23, is that what an erroneous use could be? I tried the following, given the info in your reply, which works. But is there a way to allow a+b=ab? x = a `+.character` - function(e1, e2) paste(e1,e2, sep=) attr(x,class)=character x+x [1] aa -Original Message- From: Prof Brian Ripley [mailto:[EMAIL PROTECTED] Sent: 02 May 2006 12:03 To: Matthew Dowle Cc: 'r-help@stat.math.ethz.ch' Subject: Re: [R] a+b Not easily. There's a comment in ?Ops that for efficiency the group generics only dispatch on objects with a class attribute: otherwise you could use an S3 method like `+.character` - function(e1, e2) paste(e1,e2, sep=) S4 methods are built on top of S3 methods as far as internal dispatch is concerned, so the same comment will apply there AFAICS. I would think that the intention was also to positively discourage messing with the basics of R, as if you were able to do this erroneous uses would likely not get caught. On Tue, 2 May 2006, Matthew Dowle wrote: Hi, Is there a way to define + so that a+b returns ab ? setMethod(+,c(character,character),paste) Error in setMethod(+, c(character, character), paste) : the method for function '+' and signature e1=character, e2=character is sealed and cannot be re-defined a+b Error in a + b : non-numeric argument to binary operator Thanks! [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Brian D. Ripley, [EMAIL PROTECTED] 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 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch 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] Function dependency function
That is amazing. foodweb(prune=myfunct) does precisely what I described. It even draws a graph! Hats off to the author Mark Bravington. Thanks Erik for the pointer. Regards, Matthew -Original Message- From: Erik Iverson [mailto:[EMAIL PROTECTED] Sent: 31 March 2006 17:21 To: Matthew Dowle Cc: 'r-help@stat.math.ethz.ch' Subject: Re: [R] Function dependency function I had a similar need and found package mvbutils, function foodweb(). From the help file: 'foodweb' is applied to a group of functions (e.g. all those in a workspace); it produces a graphical display showing the hierarchy of which functions call which other ones. This is handy, for instance, when you have a great morass of functions in a workspace, and want to figure out which ones are meant to be called directly. 'callers.of(funs)' and 'callees.of(funs)' show which functions directly call, or are called directly by, 'funs'. Hope that helps, Erik Iverson Matthew Dowle wrote: Hi, Is there a function taking a function as an argument, which returns all the functions it calls, and all the the functions those functions call, and so on?I could use Rprof, but that would involve executing the function, which may miss some branches of code. I'd really like a function which looks at the source code to work out all the functions that could possibly be called. When I develop a function and release to production environment (or to some library) then I may need to release other functions I've developed which that function calls. As soon as the function call stack goes outside .GlobalEnv (for example into base) then the search can stop as I'm only interested in functions in .GlobalEnv (my own functions). Also useful would be the reverse function i.e. find all functions which could possibly call the function. This could be used to find functions which are never called and could be considered for deletion. Thanks, Matthew [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Function dependency function
Hi, Is there a function taking a function as an argument, which returns all the functions it calls, and all the the functions those functions call, and so on?I could use Rprof, but that would involve executing the function, which may miss some branches of code. I'd really like a function which looks at the source code to work out all the functions that could possibly be called. When I develop a function and release to production environment (or to some library) then I may need to release other functions I've developed which that function calls. As soon as the function call stack goes outside .GlobalEnv (for example into base) then the search can stop as I'm only interested in functions in .GlobalEnv (my own functions). Also useful would be the reverse function i.e. find all functions which could possibly call the function. This could be used to find functions which are never called and could be considered for deletion. Thanks, Matthew [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Deparsing '...'
Hi,
The following function works, but is there a neater way to write it?
f = function(x,...)
{
# return a character vector of the arguments passed in after 'x'
gsub(
,,unlist(strsplit(deparse(substitute(list(...))),[(,)])))[-1]
}
f(x,a,b,c*d)
[1] a b c*d
Thanks.
[[alternative HTML version deleted]]
__
R-help@stat.math.ethz.ch 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] Deparsing '...'
That's much neater, thanks.
-Original Message-
From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On
Behalf Of Peter Dalgaard
Sent: 02 March 2006 16:59
To: Matthew Dowle
Cc: 'r-help@stat.math.ethz.ch'
Subject: Re: [R] Deparsing '...'
Matthew Dowle [EMAIL PROTECTED] writes:
Hi,
The following function works, but is there a neater way to write it?
f = function(x,...)
{
# return a character vector of the arguments passed in after 'x'
gsub(
,,unlist(strsplit(deparse(substitute(list(...))),[(,)])))[-1]
}
f(x,a,b,c*d)
[1] a b c*d
f - function(x,...)as.character(match.call(expand.dots=FALSE)$...)
f(x,a,b,c*d)
[1] a b c * d
or maybe
f - function(x,...)
sapply(match.call(expand.dots=FALSE)$..., deparse, backtick=TRUE)
--
O__ Peter Dalgaard Øster Farimagsgade 5, Entr.B
c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K
(*) \(*) -- University of Copenhagen Denmark Ph:
(+45) 35327918
~~ - ([EMAIL PROTECTED]) FAX:
(+45) 35327907
__
R-help@stat.math.ethz.ch 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] Deparsing '...'
That's even neater. But when its called from within another function, this
happens, see below. I was planning to call f something like 'getdots' and
use it in several functions that need to do this.
f - function(...) as.character(match.call())[-1]
f(a,b,c)
[1] a b c
g = function(x,...) f(...)
g(x,a,b,c)
[1] ..1 ..2 ..3
-Original Message-
From: Prof Brian Ripley [mailto:[EMAIL PROTECTED]
Sent: 02 March 2006 17:18
To: Matthew Dowle
Cc: 'r-help@stat.math.ethz.ch'
Subject: Re: [R] Deparsing '...'
f - function(...) as.character(match.call())[-1]
f(x,a,b,c*d)
[1] x a b c * d
On Thu, 2 Mar 2006, Matthew Dowle wrote:
Hi,
The following function works, but is there a neater way to write it?
f = function(x,...)
{
# return a character vector of the arguments passed in after 'x'
gsub(
,,unlist(strsplit(deparse(substitute(list(...))),[(,)])))[-1]
}
f(x,a,b,c*d)
[1] a b c*d
Thanks.
--
Brian D. Ripley, [EMAIL PROTECTED]
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 272866 (PA)
Oxford OX1 3TG, UKFax: +44 1865 272595
__
R-help@stat.math.ethz.ch 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] Deparsing '...'
That works well. So the final version is:
getdots = function() as.character(match.call(sys.function(-1),
call=sys.call(-1), expand.dots=FALSE)$...)
Thank you both for your help.
-Original Message-
From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On
Behalf Of Peter Dalgaard
Sent: 02 March 2006 18:07
To: Matthew Dowle
Cc: 'Prof Brian Ripley'; 'r-help@stat.math.ethz.ch'
Subject: Re: [R] Deparsing '...'
Matthew Dowle [EMAIL PROTECTED] writes:
That's even neater. But when its called from within
another function,
this happens, see below. I was planning to call f something like
'getdots' and use it in several functions that need to do this.
f - function(...) as.character(match.call())[-1]
f(a,b,c)
[1] a b c
g = function(x,...) f(...)
g(x,a,b,c)
[1] ..1 ..2 ..3
Yes, that will (and must) happen. If you really want to go
that route, you need something in the veins of
f - function() match.call(sys.function(-1), call=sys.call(-1)) g =
function(x,...) f()
g(x,a,b,c)
g(x = x, a, b, c)
-Original Message-
From: Prof Brian Ripley [mailto:[EMAIL PROTECTED]
Sent: 02 March 2006 17:18
To: Matthew Dowle
Cc: 'r-help@stat.math.ethz.ch'
Subject: Re: [R] Deparsing '...'
f - function(...) as.character(match.call())[-1]
f(x,a,b,c*d)
[1] x a b c * d
On Thu, 2 Mar 2006, Matthew Dowle wrote:
Hi,
The following function works, but is there a neater way
to write
it?
f = function(x,...)
{
# return a character vector of the arguments passed
in after 'x'
gsub(
,,unlist(strsplit(deparse(substitute(list(...))),[(,)])))[-1]
}
f(x,a,b,c*d)
[1] a b c*d
Thanks.
--
Brian D. Ripley, [EMAIL PROTECTED]
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 272866 (PA)
Oxford OX1 3TG, UKFax: +44 1865 272595
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
--
O__ Peter Dalgaard Øster Farimagsgade 5, Entr.B
c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K
(*) \(*) -- University of Copenhagen Denmark Ph:
(+45) 35327918
~~ - ([EMAIL PROTECTED]) FAX:
(+45) 35327907
__
R-help@stat.math.ethz.ch 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] data.frame() size
That explains it. Thanks. I don't need rownames though, as I'll only ever use integer subscripts. Is there anyway to drop them, or even better not create them in the first place? The memory saved (90%) by not having them and 10 times speed up would be very useful. I think I need a data.frame rather than a matrix because I have columns of different types in real life. rownames(d) = NULL Error in dimnames-.data.frame(`*tmp*`, value = list(NULL, c(a, b : invalid 'dimnames' given for data frame -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Peter Dalgaard Sent: 08 December 2005 18:57 To: Matthew Dowle Cc: 'r-help@stat.math.ethz.ch' Subject: Re: [R] data.frame() size Matthew Dowle [EMAIL PROTECTED] writes: Hi, In the example below why is d 10 times bigger than m, according to object.size ? It also takes around 10 times as long to create, which fits with object.size() being truthful. gcinfo(TRUE) also indicates a great deal more garbage collector activity caused by data.frame() than matrix(). $ R --vanilla nr = 100 system.time(m-matrix(integer(1), nrow=nr, ncol=2)) [1] 0.22 0.01 0.23 0.00 0.00 system.time(d-data.frame(a=integer(nr), b=integer(nr))) [1] 2.81 0.20 3.01 0.00 0.00 # 10 times longer dim(m) [1] 100 2 dim(d) [1] 100 2 # same dimensions storage.mode(m) [1] integer sapply(d, storage.mode) a b integer integer # same storage.mode object.size(m)/1024^2 [1] 7.629616 object.size(d)/1024^2 [1] 76.29482 # but 10 times bigger sum(sapply(d, object.size))/1024^2 [1] 7.629501 # or is it ?If its not really 10 times bigger, why 10 times longer above ? Row names!! r - as.character(1:1e6) object.size(r) [1] 7256 object.size(r)/1024^2 [1] 68.6646 'nuff said? -- O__ Peter Dalgaard Øster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] data.frame() size
Hi, In the example below why is d 10 times bigger than m, according to object.size ? It also takes around 10 times as long to create, which fits with object.size() being truthful. gcinfo(TRUE) also indicates a great deal more garbage collector activity caused by data.frame() than matrix(). $ R --vanilla nr = 100 system.time(m-matrix(integer(1), nrow=nr, ncol=2)) [1] 0.22 0.01 0.23 0.00 0.00 system.time(d-data.frame(a=integer(nr), b=integer(nr))) [1] 2.81 0.20 3.01 0.00 0.00# 10 times longer dim(m) [1] 100 2 dim(d) [1] 100 2 # same dimensions storage.mode(m) [1] integer sapply(d, storage.mode) a b integer integer # same storage.mode object.size(m)/1024^2 [1] 7.629616 object.size(d)/1024^2 [1] 76.29482# but 10 times bigger sum(sapply(d, object.size))/1024^2 [1] 7.629501# or is it ?If its not really 10 times bigger, why 10 times longer above ? version platform x86_64-unknown-linux-gnu arch x86_64 os linux-gnu system x86_64, linux-gnu status major2 minor1.1 year 2005 month06 day 20 language R Many thanks in advance! Matthew [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] tapply huge speed difference if X has names
Hi all,
Apologies if this has been raised before ... R's tapply is very fast, but if
X has names in this example, there seems to be a huge slow down: under 1
second compared to 151 seconds. The following timings are repeatable and
are timed properly on a single user machine :
X = 1:10
names(X) = X
system.time(fast-tapply(as.vector(X), rep(1:1,each=10), mean)) #
as.vector() to drop the names
[1] 0.36 0.00 0.35 0.00 0.00
system.time(slow-tapply(X, rep(1:1,each=10), mean))
[1] 149.95 1.83 151.79 0.00 0.00
head(fast)
123456
5.5 15.5 25.5 35.5 45.5 55.5
head(slow)
123456
5.5 15.5 25.5 35.5 45.5 55.5
identical(fast,slow)
[1] TRUE
Looking inside tapply, which then calls split, it seems there is an
is.null(names(x)) which prevents R's internal fast version from being
called. Why is that there? Could it be removed? I often do something like
tapply(mat[,colname],...) where mat has rownames. Therefore the rownames
of mat become the names of the vector mat[,colname], and this seems to
slow down tapply a lot. Perhaps other functions which call split also suffer
this problem?
split.default
function (x, f)
{
if (is.list(f))
f - interaction(f)
f - factor(f)
if (is.null(attr(x, class)) is.null(names(x)))
return(.Internal(split(x, f)))
lf - levels(f)
y - vector(list, length(lf))
names(y) - lf
for (k in lf) y[[k]] - x[f %in% k]
y
}
environment: namespace:base
version
_
platform x86_64-redhat-linux-gnu
arch x86_64
os linux-gnu
system x86_64, linux-gnu
status
major2
minor0.1
year 2004
month11
day 15
language R
Thanks and regards,
Matthew
[[alternative HTML version deleted]]
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Problem with filter() ?
Dear list, This is ok : filter(1:5, 1, recursive) Time Series: Start = 1 End = 5 Frequency = 1 [1] 1 3 6 10 15 But this? : filter(c(rep(NA,5),1:5), 1, recursive) Time Series: Start = 1 End = 10 Frequency = 1 [1] NA 0 NA 0 NA 0 2 5 9 14 version _ platform x86_64-redhat-linux-gnu arch x86_64 os linux-gnu system x86_64, linux-gnu status major2 minor0.1 year 2004 month11 day 15 language R Regards, Matthew __ R-help@stat.math.ethz.ch 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] Tcl error - brace in argument?
Peter,
Yes c(0,23) works.
Many thanks!
Matthew
-Original Message-
From: Peter Dalgaard [mailto:[EMAIL PROTECTED]
Sent: 26 November 2004 16:43
To: Peter Dalgaard
Cc: Matthew Dowle; '[EMAIL PROTECTED]'
Subject: Re: [R] Tcl error - brace in argument?
Peter Dalgaard [EMAIL PROTECTED] writes:
Matthew Dowle [EMAIL PROTECTED] writes:
Hi all,
Does anyone know a solution for this error ?
tkwidget(dlg, iwidgets::spinint, range={0 23})
I suspect you want range=as.tclObj(c(0,23)) or something like that,
i.e. a Tcl list of two numbers, not a five-character string.
On second thoughts: I think range=c(0,23) should do.
--
O__ Peter Dalgaard Blegdamsvej 3
c/ /'_ --- Dept. of Biostatistics 2200 Cph. N
(*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918
~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907
__
[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
[R] Tcl error - brace in argument?
Hi all,
Does anyone know a solution for this error ?
tkwidget(dlg, iwidgets::spinint, range={0 23})
Error in structure(.External(dotTclObjv, objv, PACKAGE = tcltk), class =
tclObj) :
[tcl] wrong # args: should be .31.1.19 configure -range {begin
end}.
Thanks,
Matthew
[[alternative HTML version deleted]]
__
[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
[R] RDCOMClient under R2.0.0 - not a valid package
Dear r-help, Both '[EMAIL PROTECTED]' and '[EMAIL PROTECTED]' appear to be bouncing with 'user unknown' so trying r-help [ Btw, mailing lists link on omega page is returning mailman CGI error. ] require(RDCOMClient) Loading required package: RDCOMClient Error in library(package, character.only = TRUE, logical = TRUE, warn.conflicts = warn.conflicts, : 'RDCOMClient' is not a valid package -- installed 2.0.0? version _ platform i386-pc-mingw32 arch i386 os mingw32 system i386, mingw32 status beta major2 minor0.0 year 2004 month09 day 28 language R I have re-installed RDCOMClient_0.8-1.zip under R2.0.0 but still getting the error above. Any ideas/suggestions much appreciated. The file ../library/RDCOMClient/Meta/package.rds appears to be missing? Regards, Matthew [[alternative HTML version deleted]] __ [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
[R] RExcel : problem with error handler?
Dear R-help, Call RInterface.StartRServer ' Works fine Call RInterface.RRun(objects()) ' Works fine Call Rinterface.RRun( other R commands which do not generate errors, the demos etc ) ' Works fine But ... Call RInterface.RRun(doesnotexist)' Sends Excel into endless loop it appears After about 90 seconds a dialog box appears Microsoft Excel is waiting for another application to complete an OLE action. Click OK then it hangs for another minute or so, and displays the dialogue again. Task manager is required to kill Excel. I rebooted to ensure only Excel is running, so there should be no conflicts with any other app, but the same error is repeatable. In this case I was expecting the R error Object doesnotexist not found be passed back into Excel, either as a dialogue box in Excel, or available to VBA using a GetRError function or something? I hope someone can help, or point me in the right direction. Info from About RExcel : RExcel version 1.35 RDCOM server 1.35 R system software: Version 2.0.0 Microsoft Excel 10.0 Windows NT 5.01 version _ platform i386-pc-mingw32 arch i386 os mingw32 system i386, mingw32 status beta major2 minor0.0 year 2004 month09 day 28 language R Many thanks, Matthew [[alternative HTML version deleted]] __ [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
[R] is.weekend() odd behaviour
It seems is.weekend() is unsure ?
# Start R 1.9.0 with --vanilla on windows xp
# load package chron
table(is.weekend(sapply(1:100, function(i){Sys.sleep(0.05);Sys.time()})))
FALSE TRUE
6832
date()
[1] Wed May 26 11:18:56 2004
version _
platform i386-pc-mingw32
arch i386
os mingw32
system i386, mingw32
status
major1
minor9.0
year 2004
month04
day 12
language R
[[alternative HTML version deleted]]
__
[EMAIL PROTECTED] mailing list
https://www.stat.math.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
RE: [R] is.weekend() odd behaviour
Thanks. When is.weekend() is given an object it doesn't know about, could a
warning or error be added? At the moment, I think you're agreeing, that it
silently returns a random TRUE/FALSE.
-Original Message-
From: Uwe Ligges [mailto:[EMAIL PROTECTED]
Sent: 26 May 2004 11:55
To: Matthew Dowle
Cc: '[EMAIL PROTECTED]'
Subject: Re: [R] is.weekend() odd behaviour
Matthew Dowle wrote:
It seems is.weekend() is unsure ?
It is completely sure, if an object is given is.weekend() knows about as in:
table(is.weekend(sapply(1:100,
function(i){Sys.sleep(0.05);as.chron(Sys.time())})))
(note the as.chron() call!)
Uwe Ligges
# Start R 1.9.0 with --vanilla on windows xp
# load package chron
table(is.weekend(sapply(1:100,
function(i){Sys.sleep(0.05);Sys.time()})))
FALSE TRUE
6832
date()
[1] Wed May 26 11:18:56 2004
version _
platform i386-pc-mingw32
arch i386
os mingw32
system i386, mingw32
status
major1
minor9.0
year 2004
month04
day 12
language R
[[alternative HTML version deleted]]
__
[EMAIL PROTECTED] mailing list
https://www.stat.math.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://www.stat.math.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
FW: [R] is.weekend() odd behaviour
Kurt,
Uwe suggested I write to you as maintainer of chron ... at the start of
is.weekend, in the check on the argument type, maybe just change chron() to
as.chron()? This would ensure as.chron.POSIXt gets called on POSIXt
arguments, and (I think) fixes the problem. I tested and it seems ok. No
warning/error required.
is.weekend
function(x)
{
if(!inherits(x, dates))
if(is.character(x) || is.numeric(x))
x - as.chron(x) # was x - chron(x)
else stop(x must inherit from dates)
}
-Original Message-
From: Uwe Ligges [mailto:[EMAIL PROTECTED]
Sent: 26 May 2004 13:20
To: Matthew Dowle
Cc: '[EMAIL PROTECTED]'
Subject: Re: [R] is.weekend() odd behaviour
Matthew Dowle wrote:
Thanks. When is.weekend() is given an object it doesn't know about,
could a warning or error be added? At the moment, I think you're
agreeing, that it silently returns a random TRUE/FALSE.
It's not random, it depends on the value of Sys.time(), which also
includes seconds .
I agree that a warning or error might be sensible. So I think you are
about to write a note to the maintainer of package chron including
patches for is.weekend() and friends?
Uwe Ligges
-Original Message-
From: Uwe Ligges [mailto:[EMAIL PROTECTED]
Sent: 26 May 2004 11:55
To: Matthew Dowle
Cc: '[EMAIL PROTECTED]'
Subject: Re: [R] is.weekend() odd behaviour
Matthew Dowle wrote:
It seems is.weekend() is unsure ?
It is completely sure, if an object is given is.weekend() knows about
as in:
table(is.weekend(sapply(1:100,
function(i){Sys.sleep(0.05);as.chron(Sys.time())})))
(note the as.chron() call!)
Uwe Ligges
# Start R 1.9.0 with --vanilla on windows xp
# load package chron
table(is.weekend(sapply(1:100,
function(i){Sys.sleep(0.05);Sys.time()})))
FALSE TRUE
6832
date()
[1] Wed May 26 11:18:56 2004
version _
platform i386-pc-mingw32
arch i386
os mingw32
system i386, mingw32
status
major1
minor9.0
year 2004
month04
day 12
language R
[[alternative HTML version deleted]]
__
[EMAIL PROTECTED] mailing list
https://www.stat.math.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://www.stat.math.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] RODBC MS SQL Server: repeated calls to sqlGetResults() problem
Dear list, RODBC is mostly working very well on Windows XP talking to MS SQL Server. However, when trying to retrieve a result set in repeated batches the first batch returns results ok, but then subsequent calls return no data (see code below). I tried setting believeNRows=FALSE both in odbcConnect() and in sqlGetResults() but this doesn't appear to make any difference. Also odbcFetchRows() suffers the same problem. The documentation states sqlGetResults is a mid-level function. It should be called after a call to odbcQuery and used to retrieve waiting results into a data frame. Its main use is with max set to non zero it will retrieve the result set in batches with repeated calls. Have I mis-understood? Is this a driver problem? Something else? Any help/advice much appreciated. Many thanks in advance, Matthew channel = odbcConnect(MY DSN) odbcGetInfo(channel) [1] Microsoft SQL Server version 08.00.0760. Driver ODBC version 03.52 odbcQuery(channel, select * from TEST)# Table TEST contains a single column by 100 rows [1] 1 sqlGetResults(channel, max=10) last_update 1 2004-02-06 2 2004-02-06 3 2004-02-06 4 2004-02-06 5 2004-02-06 6 2004-02-06 7 2004-02-06 8 2004-02-06 9 2004-02-06 10 2004-02-06 sqlGetResults(channel, max=10) [1] last_update 0 rows (or 0-length row.names)# why is this empty? version _ platform i386-pc-mingw32 arch i386 os mingw32 system i386, mingw32 status major1 minor9.0 year 2004 month04 day 12 language R __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
