r-devel@r-project.org discussions for May 2013

12	[Rd] Minimal build of R ...

Hi, I'm trying to cross-compile R to javascript so that it can run in a web-browser. Take as long as you need to stop laughing. So, as I was saying - I want to try and get a build of R running in the ...

Jony Hudson
May 2, 2013 at 4:12 pm
May 23, 2013 at 9:55 pm

10	[Rd] R CMD config for R >= 3.0.1

Dear all, When installing the usual packages that I use, after installing R 3.0.1, I noticed that the installation of some packages that query R about its configuration did not succeed. The problem ...

Berwin A Turlach
May 18, 2013 at 6:54 am
Sep 11, 2013 at 5:31 am

10	[Rd] Objects created by more than one data call?

Hello, All: If I use LazyData with the Ecdat package on R-Forge, "R CMD check" reports "no visible binding for global variable 'nonEnglishNames'", where 'nonEnglishNames' is a dataset in Ecdat used ...

Spencer Graves
May 20, 2013 at 11:12 pm
May 22, 2013 at 9:40 pm

9	[Rd] Latex errors (build on windows)

Where can I found hepl about latex errors: the R CMD check tells me less, but: * checking PDF version of manual ... WARNING LaTeX errors when creating PDF version. This typically indicates Rd ...

Knut Krueger
May 3, 2013 at 7:46 am
May 3, 2013 at 2:13 pm

8	[Rd] call R function from C code

Hi, I am writing C code for R, but in middle of the routine I want to call solve(A,b) function. What is the right way to solve linear set inside C code? Is it ok to just invoke La_solve()?

Matwey V. Kornilov
May 8, 2013 at 6:24 pm
May 14, 2013 at 1:47 pm

7	[Rd] RFC: a "safe" uniroot() function for future R

With main R releases only happening yearly in spring, now is good time to consider *and* discuss new features for what we often call "R-devel" and more officially is R Under development (unstable) ...

Martin Maechler
May 30, 2013 at 8:18 am
Jul 3, 2013 at 9:04 am

7	[Rd] Licence change

Dear list, For the maintainer of a given package, is it possible to change the licence of a it from GPL = 2 to GPL = 3 ? Thanks in advance, Mauricio Zambrano-Bigiarini, Ph.D -- ...

Mauricio Zambrano-Bigiarini
May 3, 2013 at 2:34 pm
May 3, 2013 at 6:59 pm

6	[Rd] Inconsistent results from .C()

Hello, I've run into a problem which is both maddening and rather hard to replicate, therefore I wondered if someone might know of a plausible explanation for it. I couldn't find anything in the ...

Robin Evans
May 20, 2013 at 3:12 pm
May 23, 2013 at 6:08 am

6	[Rd] locking down R

Is anyone on this list aware of discussions about locking down/securing R? My colleagues and I are working with health statistics in an office that disallows many useful tools (e.g. emacs, vim, perl, ...

Ben Bolker
May 19, 2013 at 6:16 pm
May 21, 2013 at 7:11 am

5	[Rd] R-3.0.1 - "transient" make check failure in splines-EX.r

Hello. I seem to be having the same problem that Paul had in the thread titled "[Rd] R 2.15.2 make check failure on 32-bit --with-blas="-lgoto2"" from October of last year ...

Adler, Avraham
May 28, 2013 at 10:36 pm
May 30, 2013 at 11:20 pm

5	[Rd] Substitute / delayedAssign (was: Substitute unaware when promise objects are evaluated)

Duncan, Thank you for the clarification on how delayedAssign works. Should R-level interfaces to promise objects ever become available, I expect they would at time come in handy. On the subject of ...

McGehee, Robert
May 16, 2013 at 1:06 pm
May 17, 2013 at 10:24 am

4	[Rd] Problem with Rboolean in c++ code

I am trying to use R_RegisterCFinalizerEx to ensure some c++ object is properly deleted after use. However, I run into some problems when trying to pass in the third argument which is an Rboolean ...

Jan van der Laan
May 24, 2013 at 6:53 am
May 24, 2013 at 7:23 pm

4	[Rd] R 3.0.1: wrong MD5 checksums for Windows?

Hello dear R-devel, I am not sure if this issue is tracked or not, but in case it isn't: It appears that R 3.0.1 reproduces the error reported for R 3.0.0 here ...

Tal Galili
May 17, 2013 at 6:01 pm
May 19, 2013 at 12:00 pm

4	[Rd] invalid operands of types ‘SEXPREC*’ and ‘R_len_t’ to binary ‘operator/’ with Rcpp.

Dear R-Developers, I just started learning how to use Rcpp. Earlier while using it, I encountered an error as shown below: file74d8254b96d4.cpp: In function �Rcpp::NumericVector ...

Xiao He
May 14, 2013 at 4:42 am
May 14, 2013 at 2:17 pm

3	[Rd] Assigning NULL to large variables is much faster than rm() - any reason why I should still use rm()?

Hi, in my packages/functions/code I tend to remove large temporary variables as soon as possible, e.g. large intermediate vectors used in iterations. I sometimes also have the habit of doing this to ...

Henrik Bengtsson
May 25, 2013 at 7:48 pm
May 26, 2013 at 12:10 am

3	[Rd] Namespace/inheritance problem in S4 methods for a union class

Hi, I started this post on bioc-devel but this seems to be more general: https://stat.ethz.ch/pipermail/bioc-devel/2013-May/004311.html See reproducible example from Martin below. Thank you. Renaud ...

Renaud Gaujoux
May 8, 2013 at 6:05 am
May 9, 2013 at 4:08 pm

3	[Rd] Dependencies of Imports not attached?

Encountered an error in scripting, which can be reproduced using Rscript as follows: $ Rscript -e "library(httr); handle('http://cran.r-project.org')" Error in getCurlHandle(cookiefile = cookie_path, ...

Peter Meilstrup
May 8, 2013 at 3:35 am
May 8, 2013 at 7:27 pm

3	[Rd] Windows, format.POSIXct and character encodings

Hi all, In what encoding does format.POSIXct return its output? It doesn't seem to be utf-8: Sys.setlocale("LC_ALL", "Japanese_Japan.932") times <- c("1970-01-01 01:00:00 UTC", "1970-02-02 22:00:00 ...

Hadley Wickham
May 1, 2013 at 2:06 pm
May 2, 2013 at 1:46 pm

2	[Rd] What is preferable - a single large package or a few smaller packages?

Hi all, I maintain the WGCNA package which at present has nearly 200 functions. In the future there will be more. Curious whether it would be preferable or useful to split the package into a couple ...

Peter Langfelder
May 29, 2013 at 10:38 pm
May 30, 2013 at 8:01 am

2	[Rd] quick question about glm() example

I don't have a copy of Dobson (1990) from which the glm.D93 example is taken in example("glm"), but I'm strongly suspecting that these are made-up data rather than real data; the means of the ...

Ben Bolker
May 29, 2013 at 5:58 pm
May 29, 2013 at 8:09 pm

2	[Rd] Using a shared object without installing a library required by the object.

Dear all, I have a C++ code. To create a shared object from this particular code, I had to install a Fortran library on my computer (Mac). The compiled code runs fine on my computer. However, if I ...

Xiao He
May 23, 2013 at 8:18 pm
May 24, 2013 at 12:09 am

2	[Rd] R CMD check: unknown option ?--outdir==RCHECK?

Hi, I believe this is kind of a long standing bug though. In R-3.0.1, but this also happened in previous versions, the long version '--outdir' is not recognised: For `R CMD check --outdir=mydir ...

Renaud Gaujoux
May 21, 2013 at 12:13 pm
May 21, 2013 at 1:01 pm

2	[Rd] Accessing i'th element of a vector without using a macro

Hello, I have a double vector, x. I can access the i'th element as REAL(x)[i] Is there a function for this? I know i can write my own, but was seeing if one already exists. I did check Rinternals.h ...

Saptarshi Guha
May 20, 2013 at 4:56 pm
May 20, 2013 at 5:35 pm

2	[Rd] R CMD check: unknown option ‘--outdir==RCHECK’

Dear R devel I am experiencing a problem using R CMD check. I tried to specify the argument outdir, but get every time the error message: Warning: unknown option â€˜--outdir==RCHECKâ€™ This happens ...

Matthieu Stigler
May 20, 2013 at 10:05 am
May 20, 2013 at 10:49 am

2	[Rd] setTimeLimit sometimes fails to terminate idle call in R

I would like to use setTimeLimit to abort operations that are stuck waiting (idle) after n seconds. Below a toy example in which Sys.sleep is a placeholder call that is idle: testlimit <- function(){ ...

Jeroen Ooms
May 16, 2013 at 6:12 pm
May 16, 2013 at 7:34 pm

2	[Rd] Incorrect target file name for gramLatex.c

Hi! The attached patch changes the rule that describes the actions for gramLatex.c in src/library/tools/src/Makefile.in so it actually generates that file instead of "gramLatex." (no extension). The ...

Ingo Korb
May 16, 2013 at 9:26 am
May 16, 2013 at 11:40 am

2	[Rd] Documentation request Re: [R] recode categorial vars into binary data

On May 7, 2013, at 10:54 AM, Chris Stubben wrote: There are many instances of new users posting questions to R-help where they use the form: dfrm <- data.frame(cbind(1:10, letter[1:10]) ) ? and ...

David Winsemius
May 13, 2013 at 5:21 pm
May 14, 2013 at 10:14 pm

2	[Rd] Avoid entering {} evaluation in debugger

Hi, f1 <- function(){ browser() print("aaa") } f2 <- function(){ a <- 12 eval(envir = parent.frame(), bquote({ b <- .(a) })) } Now do, f1() and enter n RET and then {1+2}: Browse[2] {1 + 2} debug at ...

Vitalie Spinu
May 5, 2013 at 2:11 pm
May 6, 2013 at 11:27 pm

2	[Rd] Catch SIGINT from user in backend C++ code

Hi, I was wondering if anybody knew how to trap SIGINTs (ie Ctrl-C) in backend C++ code for R extensions? I'm writing a package that uses the GPU for some hefty matrix operations in a tightly coupled ...

Jewell, Chris
May 1, 2013 at 11:50 pm
May 6, 2013 at 11:07 am

2	[Rd] Package update for old version of R

Hi, Is is possible to create a release of a package against an older version of R? I would like to release a new version of the package I maintain, but have some errors when I test it against R ...

Eilidh Troup
May 3, 2013 at 12:55 pm
May 3, 2013 at 6:04 pm

2	[Rd] loading of an unwanted namespace

I have a debugging environment for the survival package, perhaps unique to me, but I find it works very well. To wit, a separate directory with copies of the source code but none of the package ...

Terry Therneau
May 2, 2013 at 7:05 pm
May 2, 2013 at 8:43 pm

2	[Rd] diag() when input is a numeric scalar

Hi All, I'm wondering why when passing a single numeric value that contains any decimals to diag() that the value is silently coerced to a integer for constructing an identify matrix. To me, an input ...

Philchalmers
May 1, 2013 at 11:35 pm
May 2, 2013 at 3:50 pm

1	[Rd] Standalone example to use eval in C (not eval in R)?

'eval' is used in optim.c, but it is used along with other things. I'm looking for a standalone example to demonstrate the usage of eval in C. Does anybody have some a simple example? Thanks. -- ...

Peng Yu
May 24, 2013 at 10:00 am
May 24, 2013 at 12:59 pm

1	[Rd] making makepredictcall() work

Dear All, I'm interested in creating a function similar to ns() from package splines that can be passed in a model formula. The idea is to produce "safe" predictions from a model using this ...

D. Rizopoulos
May 21, 2013 at 11:19 am
May 21, 2013 at 4:20 pm

1	[Rd] Copy on assignment to large field of reference class

Dear all I am trying to find the best way to handle large fields in reference classes. As the code below shows assignment via <<- causes many copies to be made if the subsetting is extensive (in ...

Giles Percy
May 18, 2013 at 9:50 pm
May 19, 2013 at 9:59 pm

1	[Rd] problem in add1's F statistic when data contains NAs?

Shouldn't the F statistic (and p value) for the x2 term in the following calls to anova() and add1() be the same? I think anova() gets it right and add1() does not. Analysis of Variance Table ...

William Dunlap
May 14, 2013 at 7:23 pm
May 17, 2013 at 5:48 pm

1	[Rd] Substitute unaware when promise objects are evaluated

R-devel, I used the 'substitute' function to create labels for objects inside an environment, without actually evaluating the objects, as the objects might be promises. However, I was surprised to ...

McGehee, Robert
May 15, 2013 at 3:54 pm
May 15, 2013 at 10:03 pm

1	[Rd] Missing Dependency: tex(latex) is needed by package R-devel - Help Required

Hi ALl, I am trying to install R on RHEL 5.4 while install R i am getting the dependency errors .. can you please help on this . [root at Rgraph ~]# yum install R Loaded plugins: rhnplugin, security ...

Santoshdvn
May 15, 2013 at 6:05 am
May 15, 2013 at 12:20 pm

1	[Rd] getting corrupted data when using readBin() after seek() on a gzfile connection

Hi, I'm running into more issues when reading data from a gzfile connection. If I read the data sequentially with successive calls to readBin(), the data I get looks ok. But if I call seek() between ...

Hervé Pagès
May 8, 2013 at 8:51 am
May 8, 2013 at 5:54 pm

1	[Rd] Please check link for R-patched.tar.gz

I have been trying to build R-patched from source using the link ftp://ftp.stat.math.ethz.ch/Software/R/R-patched.tar.gz Which the file list says is linked to R-patched_2013-05-01.tar.gz but what I ...

John Minter
May 2, 2013 at 7:01 pm
May 3, 2013 at 6:06 pm

1	[Rd] install.packages from own rpository - depencies

I am trying to setup a respository for students with a own package. Its working fine when the depended packages are already installed with: install.packages("mypackage", ...

Knut Krueger
May 2, 2013 at 1:58 pm
May 2, 2013 at 2:05 pm

1	[Rd] foreign: write.xport

I see in the archives significant discussion about SAS, CDISC formats etc. for FDA, but no direct suggestion of adding a write.xport method to the foreign package. Are there significant barriers to ...

Tim Bergsma
May 1, 2013 at 6:12 pm
May 2, 2013 at 12:37 pm

1	[Rd] trace with reference class

No intended change. The trace method was not updated when reference class generators became functions. Should be fixed now in r-devel and 3.0.0 patched (rev 62699). Thanks for the catch. John

John Chambers
May 1, 2013 at 3:43 pm
May 2, 2013 at 12:31 pm

0	[Rd] Bug in stats::plot.hclust/graphics:::plotHclust/underlying C code (C_dend) in R-3.0?

Hi all, it appears that plot.hclust disregards the argument 'cex'. Up until 2.15.1 (and probably all 2.15.x), specifying cex in plot.hclust changed the size of the plotted labels on each leaf. In ...

Peter Langfelder
May 31, 2013 at 11:32 pm
May 31, 2013 at 11:32 pm

0	[Rd] "Unable to optimize" error returned in factanal using R-3.0.1, Windows 64 bit, and OpenBLAS

Hello, I have been trying for weeks to compile a 64-bit Rblas. I started with ATLAS where I have had success in the past, but 64 bit was not behaving, and as each compilation takes between 9 and 12 ...

Adler, Avraham
May 29, 2013 at 5:23 pm
May 29, 2013 at 5:23 pm

0	[Rd] Customizing tab completion for package functions?

Dear all, I've been searching around for some hours now, but did not find a solution. Is there a way to customize the tab completion behavior of R? In more detail. We have a R packages called ...

Stefan Holzheu
May 28, 2013 at 3:18 pm
May 28, 2013 at 3:18 pm

0	[Rd] Variable labels in a data.frame

I'd like to take a different approach to the old question of dataset variable labels. Support for their use in output is low. For example, among packages that provide tables of model estimates only ...

Brian Quistorff
May 27, 2013 at 2:10 pm
May 27, 2013 at 2:10 pm

0	[Rd] 'rbind' in example(make.unique)

x 1 1 2 2 3 3 x 1 1 2 2 3 3 Above is the result of running the last two lines in "Examples" of 'make.unique'. I don't see the work of 'make.unique' there. It used to work, when there is no automatic ...

Suharto Anggono Suharto Anggono
May 27, 2013 at 5:36 am
May 27, 2013 at 5:36 am

0	[Rd] R in the browser ...

Hi all, I hope you'll forgive me - I don't plan to start using this list as my blog - but given the discussion following my last post I thought people on here might be interested to see some ...

Jony Hudson
May 25, 2013 at 9:58 pm
May 25, 2013 at 9:58 pm

0	[Rd] segfault when using browser() in Rprofile.site

Hi. It seems that if I put a browser() in my Rprofile.site, I get a segfault. This happens on several machines, several versions of R. Here it the valgrind output when using revision 62797: =1314== ...

Benjamin Tyner
May 25, 2013 at 12:41 am
May 25, 2013 at 12:41 am

group	r-devel @
categories	r
discussions	62
posts	223
users	72
website	r-project.org
irc	#r

summaries	on	Hotkey: s
users list	on	Hotkey: d
user style	avatars	Hotkey: a

R > r-devel > May 2013

Search Discussions

62 discussions - 223 posts

72 users for May 2013

Content

People

Support

Translate