Greetings,
I would like to programmatically interact with multiple versions of a
given Python module via the reticulate package, without having to
restart the R process over and over. (My understanding is reticulate
does not provide such a capability by itself, as once reticulate binds
to a P
r to that date.
On 3/2/24 02:42, Ivan Krylov wrote:
В Fri, 1 Mar 2024 10:46:53 -0500
Benjamin Tyner пишет:
my platform info:
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 22.04.4 LTS
Quick things first: have you installed all the build-dependencies? apt
build-d
Curious to know if this warning is expected behavior, and if so, what is
the recommended way instead:
> dput(letters, file = stderr())
c("a", "b", "c", "d", "e", "f", "g", "h", "i", "j", "k", "l",
"m", "n", "o", "p", "q", "r", "s", "t", "u", "v", "w", "x", "y",
"z")
Warning messa
A kind member of R-core suggested this is due to a misconfiguration on
my system, and to post it to the mailing list for troubleshooting.
When trying to build R version 4.3.3, in at least two places during the
process it gives LaTeX errors of the form:
(example 1)
you should 'make docs
Greetings,
Noticed that starting with R version 4.1.0, the base environment is
locked by default. So for example in interactive mode, we have
> .BaseNamespaceEnv$foo <- "bar"
Error in .BaseNamespaceEnv$foo <- "bar" :
cannot add binding of 'foo' to the base environment
However it appears tha
On 6/20/20 5:04 PM, Duncan Murdoch wrote:
I think you effectively did that in your original post (all but
encapsulating the expression in a function), so yes, it's possible.
However, it's a really bad idea. Why use non-standard evaluation when
standard evaluation is fine? Standard evaluation
On 6/20/20 5:49 PM, Bert Gunter wrote:
Gents:
(with trepidation)
f(x = 3, y = g(expr))
**already** evaluates g in the environment of f, **not** in the
environment of the caller.
(This does not contradict Duncan's example -- 3 is a constant, not a
variable).
e.g.
> f <- function(x = 3, y =
On 6/20/20 9:00 AM, Duncan Murdoch wrote:
How about
g <- function(x, y = x) {
f(x, y)
}
g(x = 3)
or even
yEqualsX <- function(f) function(x, y = x) f(x, y)
yEqualsX(f)(x = 3)
These are a lot like currying, but aren't currying, so they may be
acceptable to you. Personally I'd choose the f
Greetings,
Occasionally, I desire to call a function with one argument set to equal
to another. Here is a toy example:
f <- function(x, y) {
x + y
}
f(x = 3, y = x) # Error in f(x = 3, y = x) : object 'x' not found
So far, the most concise way I found to accomplish this is:
Hi
I would like to replace a data.table 'DT' with a subset of itself, where
the subset is determined by an expression 'expr' which evaluates to
logical. Thus far I've been using:
DT <- DT[expr, ]
however this frequently results in a SIGABRT from glibc of the form:
"double free or corr
Hello,
Perhaps not a bug, but interesting because the error only happens when
there is a single named argument.
> m <- matrix(1, 1, 1)
> library(Matrix)
> bdiag(m)
1 x 1 sparse Matrix of class "dgCMatrix"
[1,] 1
> bdiag(a = m)
Error in is.list(...) : supplied argument nam
pe this helps,
Rui Barradas
Às 03:25 de 16-07-2018, Benjamin Tyner escreveu:
Hi
Given a closure which has been compiled, what's the recommended way to
recover the original? For example,
> f <- function(x) x+1
> fc <- cmpfun(f)
> rm(f)
> fc
funct
Hi
Given a closure which has been compiled, what's the recommended way to
recover the original? For example,
> f <- function(x) x+1
> fc <- cmpfun(f)
> rm(f)
> fc
function(x) x+1
what's the best way to recover f from fc ?
Regards
Ben
___
Greetings
On linux, is it possible to invoke an OS command from within R without
spawning a child process? If not, is it possible to avoid copying the
"parts of the caller's context" that are mentioned on the clone manpage?
ENOMEM Cannot allocate sufficient memory to allocate a task struct
esolve the issue.
Regards
Ben
On 6 February 2018 at 04:34, Benjamin Tyner https://stat.ethz.ch/mailman/listinfo/r-help>> wrote:
>/Hi />//>/Does rJava offer a way to instruct the JVM to perform a garbage
col
Thanks Jeff; indeed it works:
.jcall("java/lang/System", method = "gc")
On 02/05/2018 11:53 PM, Jeff Newmiller wrote:
rJava offers a mechanism to call arbitrary methods in Java. Wouldn't you use
that mechanism to call whatever you would call if you were programming in Java
(e.g. System.gc
Hi
Does rJava offer a way to instruct the JVM to perform a garbage collection?
Regards
Ben
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide http://www.R
Hello
The doc/NEWS.2 file mentions a setSessionLimit function, added with
version 2.8.0
o setTimeLimit() function to set limits on the CPU
and/or elapsed time for each top-level computation, and
setSessionLimit() to set limits for the rest of the session.
However, I no l
,
colClasses = c(y = "character", x = "numeric"), col.names = c("foo", "bar"))
foo bar
1 a 3.14
so I agree it is good that we are checking for that now.
Regards
Ben
On 10/24/2017 08:55 AM, Martin Maechler wrote:
Benjamin Tyner
Jeff,
Thank you for your reply. The intent was to construct a minimum
reproducible example. The same warning occurs when the 'file' argument
points to a file on disk with a million lines. But you are correct, my
example was slightly malformed and in fact gives an error under R
version 3.2.2.
Hello
I noticed that starting with R version 3.3.0 onward, this generates a
warning:
> txt <- c("a", "3.14")
> read.table(file = textConnection(txt), header = FALSE, colClasses
= c(x = "character", y = "numeric"))
the warning is "not all columns named in 'colClasses' exist" and I gues
Hi,
When using a custom error function that calls q(), what is the
recommended way to "flush" the calling function's on.exit ?
For example, say I have a script:
#!/usr/bin/Rscript --no-init-file
options(error = function() {
cat("on error message\n", file = stderr())
q(sav
Thank you for the insights, Rolf and Henrik.
To give another example, this time in non-interactive mode,
Rscript -e "file.exists(commandArgs(TRUE))" <(echo "Hi")
[1] TRUE
versus
Rscript -e "normalizePath(commandArgs(TRUE))" <(echo "Hi")
[1] "/dev/fd/63"
Warning message:
In n
Hi,
On my linux machine (Ubuntu, and also tested on RHEL), I am curious to
know what might be causing file.exists (and also normalizePath) to not
see the final device file here:
> list.files("/dev/fd", full.names = TRUE)
[1] "/dev/fd/0" "/dev/fd/1" "/dev/fd/2" "/dev/fd/3"
> file.exis
= FALSE,
dotall = FALSE, ...)
{
options <- stri_opts_regex(case_insensitive = ignore_case,
multiline = multiline, comments = comments, dotall = dotall,
...)
structure(pattern, options = options, class = c("regex",
"patt
Hi
I saw on the assignInNamespace help page, that it changes "the copy in
the namespace, but not any copies already exported from the namespace,
in particular an object of that name in the package (if already
attached) and any copies already imported into other namespaces."
So now I'm wonder
Hello,
I have some code which was running in interactive mode while Rprof(...,
line.profiling = TRUE). Near the end of my script, it opens up a
pipe(..., open = "w") to a perl script, and at that point the execution
gets stuck using 100% cpu.
(The perl script itself never showed up in pstree
ec 7, 2015 at 9:34 AM, Erich Neuwirth
wrote:
ggplot2 also can do this with
fortify
geom_polygon
Von meinem iPad gesendet
Am 06.12.2015 um 21:03 schrieb Benjamin Tyner :
Hi
I wish to draw a basic choropleth (US, by state) and am wondering if anyone has
any recommendations? I've t
Hi
I wish to draw a basic choropleth (US, by state) and am wondering if
anyone has any recommendations? I've tried the following thus far:
1. choroplethr: this works, but required installation of 30+
dependencies. I would prefer something with fewer dependencies.
2. tmap: this also seems prom
Hi,
Say I have a sparse Matrix X, and a sparse vector (stored as a 1-column
sparse Matrix A), with X and A having the same number of rows, and I
wish to multiply each column of X by A, but would like the operation to
take full advantage of the sparseness of both X and A. In other words I
want
path in the first
place.
By the way, is R-forge still the correct place to report bugs in
package:Matrix?
Regards
Ben
On 09/25/2015 04:25 AM, Martin Maechler wrote:
> Dear Ben,
>
>>>>>> Benjamin Tyner
>>>>>> on Thu, 24 Sep 2015 13:47:58 -0400 writes:
Hi
I have some code which does (on a symmetric matrix 'x')
backsolve(chol(x), diag(nrow(x)))
and I am wondering what is the recommended way to accomplish this when x
is also sparse (from package:Matrix). I know that package:Matrix
provides a chol method for such matrices, but not a backsolve
Hi
I have an R script which invokes WriteXLS() (from the package of the
same name) which as you may know, calls perl via system(). I've noticed
that when I enable profiling using Rprof(), when the script gets to the
part where perl is called, it gets "stuck": it just sits there using
99-100% CPU a
Thanks David! I'll take a look at zipfR.
Regards
Ben
On 05/07/2015 03:10 PM, David Winsemius wrote:
> On May 6, 2015, at 7:00 PM, Benjamin Tyner wrote:
>
>> Hi
>>
>> I'm wondering if anyone is aware of an R package implementing (i.e.,
>> providing a pdf
Hi
I'm wondering if anyone is aware of an R package implementing (i.e.,
providing a pdf, cdf, and/or quantile function) for the continuous
binomial distribution? Specifically the one characterized here:
http://www2.math.uni-paderborn.de/fileadmin/Mathematik/AG-Indlekofer/Workshop/Satellite_meetin
Thank you Yihui for also reporting the bug here:
https://bugs.r-project.org/bugzilla/show_bug.cgi?id=16354
and thank you Duncan for finding the issue and fixing it! I definitely
like your idea to report a summary message instead of the long text string.
Regards
Ben
> I tried to reduce the offen
I tried to reduce the offending portion as best I could to a
more-or-less minimal example (1136 bytes), which can be downloaded via:
wget https://www.dropbox.com/s/74rgxr5x2aalr99/badstring.R
then once in R,
> b <- parse(file = "~/badstring.R", keep.source = TRUE)
> d <- getParseData
Hello,
Here is an example; hopefully it is reproducible on others' platform:
library(quadprog)
n <- 66L
set.seed(6860)
X <- matrix(1e-20, n, n)
diag(X) <- 1
Dmat <- crossprod(X)
y <- seq_len(n)
dvec <- crossprod(X, y)
Amat <- diag(n)
bvec <- y + runif(n)
Greetings,
I ran across this recommendation, to keep the norms of the columns of
the Amat on similar
scales,
https://stat.ethz.ch/pipermail/r-help/2007-September/141335.html
However, when I looked at the code, I noticed that the norms are already
being calculated:
c
c calculate the
t; args(cut.Date)
function (x, breaks, labels = NULL, start.on.monday = TRUE, right = FALSE,
...)
I suppose the latter does make sense, given that days, months, years etc are
right-continuous functions of time.
Regards
Ben
> On 17/09/2014 12:04, Benjamin Tyner wrote:
> >/ Hello,
> />/
Hello,
I'm wondering if this is expected?
> cut(structure(1, class="Date"), structure(c(11100,1),
class="Date"))
[1]
Levels: 2000-05-23
The help page says that "for ‘"Date"’ objects, only ‘"day"’, ‘"week"’,
‘"month"’, ‘"quarter"’ and ‘"year"’ are allowed" [for the 'breaks'
a
On 08/27/2014 02:10 AM, David Winsemius wrote:
> On Aug 26, 2014, at 3:25 PM, Benjamin Tyner wrote:
>
>> Hi,
>>
>> According to
>> https://svn.r-project.org/R-packages/trunk/lattice/R/print.trellis.R,
>>
>>"[panel.number] is usually the same as, bu
Hi,
According to
https://svn.r-project.org/R-packages/trunk/lattice/R/print.trellis.R,
"[panel.number] is usually the same as, but can be different from
packet.number"
and I had been under the impression that as long as the user is not
using a custom index.cond nor perm.cond, the panel.numbe
Duncan,
How embarrassing! Thanks.
-Ben
On 06/26/2014 10:25 PM, Duncan Murdoch wrote:
> On 27/06/2014, 4:08 AM, Benjamin Tyner wrote:
>> Hi
>>
>> I know that subset() is not intended for use in programming. However I
>> am still curious to learn why, in non-inter
Hi
I know that subset() is not intended for use in programming. However I
am still curious to learn why, in non-interactive mode, if I take away
the quotes around 'bar'
Rscript -e "foo <- list(bar = iris); head(subset(foo$'bar',
Species=='setosa'))"
Sepal.Length Sepal.Width Petal.Length P
-
> Sent from my phone. Please excuse my brevity.
>
> On April 23, 2014 6:11:09 PM PDT, Benjamin Tyner wrote:
>> Thanks Duncan! Yes, I considered taking advantage of .First, but was
>> concerned that the .First defined by the site profile could be masked
&
gave was a simplifying
assumption, sorry about that).
On 04/23/2014 06:55 AM, Duncan Murdoch wrote:
On 22/04/2014, 8:59 PM, Benjamin Tyner wrote:
Greetings,
Is there any way to programmatically detect whether a piece of code is
being run within the initial (Startup) sourcing o
Greetings,
Is there any way to programmatically detect whether a piece of code is
being run within the initial (Startup) sourcing of the site profile?
For example, say I have a site profile, "/path/to/Rprofile.site". Is
there any function "my_func" which would return different values for
these tw
earch
path, then functions in the base namespace would no longer be able to see
objects in utils? (I realize the answer may be vacuous, since library() does
not honor pos=1).
Regards,
Ben
On 03/09/2014 09:09 AM, Duncan Murdoch wrote:
On 14-03-08 6:42 PM, Benjamin Tyner wr
es back in alphabetical order.)
Regards
Ben
On 03/07/2014 11:46 AM, Duncan Murdoch wrote:
On 07/03/2014 10:16 AM, Benjamin Tyner wrote:
Hello,
I realize that a function in (for example, function
"head1" below) is unable to see (without resorting to "::", anyw
Hello,
I realize that a function in (for example, function
"head1" below) is unable to see (without resorting to "::", anyway)
objects in utils (for example, "head" below), since package:base is
after package:utils on the search path.
However, I'm wondering what is the machinery that allows a fu
gt;
>
> On Fri, May 24, 2013 at 5:46 PM, Benjamin Tyner <mailto:bty...@gmail.com>> wrote:
>
> Hi,
>
> I have some functions defined within etc/Rprofile.site which contain
> embedded comments, but it seems the comments get stripped out when the
> site
Hi,
I have some functions defined within etc/Rprofile.site which contain
embedded comments, but it seems the comments get stripped out when the
site profile is sourced into the base namespace. I'm thinking I need to
enable options(keep.source=TRUE) somewhere prior to the actual sourcing
of the sit
ple:
>
> ret2 <- lapply(X=mylist2,
>FUN=do.call,
>what=function(...) f2(y=Y, ...))
>
> Best,
> Nello
>
> -Original Message-
> Date: Tue, 12 Mar 2013 22:37:52 -0400
> From: Benjamin Tyner
> To: r-help@r-project.org
> Subject: Re: [R] hold
inal Message-
> Date: Tue, 12 Mar 2013 22:37:52 -0400
> From: Benjamin Tyner
> To: r-help@r-project.org
> Subject: Re: [R] holding argument(s) fixed within lapply
> Message-ID: <513fe680.2070...@gmail.com>
> Content-Type: text/plain; charset="iso-8859-1"
>
>
Apologies; resending in plain text...
Given a function with several arguments, I would like to perform an
lapply (or equivalent) while holding one or more arguments fixed to some
common value, and I would like to do it in as elegant a fashion as
possible, without resorting to wrapping a separate w
|Hello,
Given a function with several arguments, I would like to perform an
lapply (or equivalent) while holding one or more arguments fixed to some
common value, and I would like to do it in as elegant a fashion as
possible, without resorting to wrapping a separate wrapper for the
function if pos
Thanks Jim -- I had considered this approach; is there any way to "hide"
such arguments from users?
Jim Lemon wrote:
On 02/17/2013 12:55 PM, Benjamin Tyner wrote:
Given a function that calls itself, what's the best way to detect the
entry point? The best I came up with is
Given a function that calls itself, what's the best way to detect the
entry point? The best I came up with is:
IsEntryPoint <- function(){
par <- sys.call(-1L)[[1]]
grandpar <- sys.call(-2L)[[1]]
!identical(par, grandpar)
}
but this won't work for functions that don't directly
Many thanks Paul, that is a nifty way to do it.
Regards
Ben
Paul Murrell wrote:
Hi
On 07/09/12 09:35, Benjamin Tyner wrote:
Update: seems one way to skin this cat is to add
gp = gpar(fontfamily="mono")
to the viewport() call itself. If anyone has any suggestions for a
rob
Update: seems one way to skin this cat is to add
gp = gpar(fontfamily="mono")
to the viewport() call itself. If anyone has any suggestions for a
robust way to extract this piece information from the key grob itself
(it's nested several levels deep), I'm all ears.
Thanks
Ben
__
Hello
Within my panel function, I am using draw.key to create a custom key for
each panel. I'm trying to use grobWidth to calculate the correct width
for the viewport, but it appears to be disregarding the fontfamily when
computing the width. Attached is an example; any ideas what I'm doing wr
Hi
We've found that when using parse_args(..., positional_arguments=FALSE),
it is permissible to invoke our script with either "--myfoo=bar" or
"--myfoo bar"; that is, whether or not the equals sign is present makes
no difference, and in fact both usage forms are demonstrated in the
optparse
Hello,
We're curious to know why, on builds lacking Tcl/Tk,
try(library(tcltk),silent=TRUE)
still allows the message to be printed:
Error in firstlib(which.lib.loc, package) :
Tcl/Tk support is not available on this system
though it does succeed in trapping the error condition?
Th
Hi
Given a "cluster" of identical windows machines all running the same
version of R, are there any circumstances where using install.packages()
to install a package (say, one that doesn't have any dependencies) on
just a single machine, then copying the resulting installed package
subdirecto
Hi
I recall running across a function a while back which would return
information about running processes (such as their cpu and memory
usage), but I cannot seem to locate it. Wondering if someone would be
kind enough to refresh my memory. I vaguely recall it was parsing the
output of the 'ps
Thanks Bill! Next time, I'll try literacy.
William Dunlap wrote:
-Original Message-
From: r-help-boun...@r-project.org
[mailto:r-help-boun...@r-project.org] On Behalf Of Benjamin Tyner
Sent: Thursday, June 23, 2011 5:31 PM
To: r-help@r-project.org
Subject: [R] 'Rscript -e&#
Hello,
I am curious to know why the output of
Rscript -e "cat(R.version.string,stdout())"
includes a trailing " 1", whereas
Rscript -e "cat(R.version.string)"
does not. I have tried various mechanisms to subvert this behavior, such as
Rscript -e "invisible(con<-stdout()); cat(R.vers
Thanks Bill and Gabor!
William Dunlap wrote:
-Original Message-
From: r-help-boun...@r-project.org
[mailto:r-help-boun...@r-project.org] On Behalf Of Benjamin Tyner
Sent: Friday, April 08, 2011 6:48 PM
To: r-help@r-project.org
Subject: [R] best practice(s) for retrieving a local
Greetings,
Say I have defined
mp <- function(a) function(x) x^a
f2 <- mp(2)
and I would like to retrieve the "a" which is local to f2. Two options
come to mind;
get("a", envir=environment(f2))
eval(substitute(a), environment(f2))
I'm curious if one of these is preferred over the other
ion(x,y,...){
panel.polygon(x = c(0.4,0.6,0.6,0.4),
y = c(-10,-10,10,10),
col = "yellow")
panel.xyplot(x,y,...)
}
then the bottom border on panel 1 is obscured...any suggestions?
Thanks again,
Ben
Deepayan Sarkar wrote:
On Fri, Apr 8, 2011
Hello,
In lattice, is there a way to customize the axis.line by panel? For
example, say I have two panels:
Data <- data.frame(x=runif(10),
y=rnorm(10),
f=gl(2,5)
)
library(lattice)
plot <- xyplot(y ~ x|f,
data = Data,
Thank you David for taking the time to respond to my question. Perhaps I
should clarify: the man page says "a 'dump' file can be 'source'd"; have
I taken the documentation too literally in this case?
David Winsemius wrote:
On Jul 21, 2009, at 7:19 PM, Benjamin
Is there a way to do this? I tried
x <- writeBin(pi, raw())
dump("x","x.R")
source("x.R")
but is seems x.R is not source()-able, as it contains an unexpected symbol.
Thanks
Ben
__
R-help@r-project.org mailing list
https://stat.ethz.ch/mailman/l
Deepayan,
Many thanks for the quick response and suggested workaround.
Best,
Ben
Deepayan Sarkar wrote:
On Wed, May 27, 2009 at 4:38 PM, Benjamin Tyner wrote:
Hello,
Say I have a predictor taking a very wide value:
Data <- data.frame(pred="a
Hello,
Say I have a predictor taking a very wide value:
Data <-
data.frame(pred="a",resp=1)
print(xyplot(pred~resp, data=Data)) # enough y-axis padding to
accommodate the wide label
print(xyplot(pred~resp, data=Data,scales=list(fontfamily="mono
Many thanks Duncan. Perhaps this merits a more explicit note in the
documentation?
Duncan Murdoch wrote:
On 4/16/2009 9:52 AM, Benjamin Tyner wrote:
Hi
Using R 2.8.1. I have list object called "AuxData". Inside a browser(),
get("AuxData")
succeeds, while
Hi
Using R 2.8.1. I have list object called "AuxData". Inside a browser(),
get("AuxData")
succeeds, while
getAnywhere("AuxData")
fails with the error "no object named âAuxDataâ was found". I'm
curious to know if this could be a bug. If yes, I'll try to come up
with a reproducible examp
Simon,
Many thanks, that is a very helpful example. It seems quite general in
that it also works under bs="cr" as well as with fx=TRUE.
-Ben
There's an example at the end of the pcls help file in version 1.5-0 --- just
submitted to CRAN.
best,
Simon
__
Hi,
Does anyone know how to fit a GAM where one or more smooth terms are
constrained to be monotonic, in the presence of "by" variables or
other terms? I looked at the example in ?pcls but so far have not been
able to adapt it to the case where there is more than one predictor.
For example,
requi
R-helpers,
n <- 100
arcoefs <- c(0.8)
macoefs <- c(-0.6)
p <- length(arcoefs)
q <- length(macoefs)
require(nlme)
tmp <- corARMA(value=c(arcoefs,macoefs), form=~1, p=p, q=q)
Sigma <- corMatrix(tmp, covariate = 1:n) # results in segfault
Have I used these commands in an improper way?
Thanks
Ben
_
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