Grokbase Groups R r-devel March 2011

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88 discussions - 284 posts

  • Current core/Recommended Matrix package (0.999375-48) has been segfaulting against R 2.13-alpha/2.14-trunk for the last week or so (since R-2.13 was branched, when I started trying) when "run with R ...
    Hin-Tak LeungHin-Tak Leung
    Mar 26, 2011 at 10:21 pm
    Apr 8, 2011 at 9:22 pm
  • Is there any reason that rstandard.glm doesn't have a "pearson" option? And if not, can it be added? Background: I'm currently teaching an undergrad/grad-service course from Agresti's "Introduction ...
    Brett PresnellBrett Presnell
    Mar 14, 2011 at 9:25 pm
    Mar 18, 2011 at 2:07 pm
  • Dear all, I see from some previous threads that support for 64-bit integers in R may be an aim for future versions, but in the meantime I'm wondering whether it is possible to read in integers of ...
    Jon ClaydenJon Clayden
    Mar 29, 2011 at 12:46 pm
    Apr 13, 2011 at 2:05 pm
  • Dear R devel, I have a C++ app that calls into embedded R to perform some analytic calculations. When my app encounters a segmentation fault, R always prints the following crash prompt and asks me to ...
    Wayne ZhangWayne Zhang
    Mar 8, 2011 at 2:24 pm
    Mar 9, 2011 at 1:20 pm
  • I stumbled onto this working on an update to coxph. The last 6 lines below are the question, the rest create a test data set. tmt585% R R version 2.12.2 (2011-02-25) Copyright (C) 2011 The R ...
    Terry TherneauTerry Therneau
    Mar 9, 2011 at 2:48 pm
    Mar 28, 2011 at 2:54 pm
  • Hi, Is there any way that a package can listen for when R quits? The Qt stuff is hooking into platform-specific event loops and when those die unexpectedly (from the perspective of Qt), it aborts, ...
    Michael LawrenceMichael Lawrence
    Mar 11, 2011 at 6:08 pm
    Mar 11, 2011 at 9:05 pm
  • Hi, I came across the following warning in R CMD check (it only occurred on Windows): The \usage entries for S3 methods should use the \method markup and not The package I'm looking at is one that I ...
    Dan TenenbaumDan Tenenbaum
    Mar 16, 2011 at 11:55 pm
    Mar 18, 2011 at 7:47 pm
  • I have been struggling all day to import a particular function/method combination (ranef(), which extracts the random effects from a mixed model fit) from the nlme package into another package ... so ...
    Ben BolkerBen Bolker
    Mar 23, 2011 at 11:44 pm
    Mar 24, 2011 at 7:12 pm
  • Hello, I have come across two separate packages that have a Makefile in inst/doc which use the R_HOME variable. In both cases, the path to R_HOME gets munged in such a way that commands that include ...
    Dan TenenbaumDan Tenenbaum
    Mar 22, 2011 at 1:07 am
    Mar 22, 2011 at 3:02 pm
  • I need read a table in a string with special format. I used read.csv and textConnection function. But i am confuse about textConnection by follow code. case A: It is OK£¡ str0 <- ...
    Mar 10, 2011 at 10:20 am
    Mar 15, 2011 at 6:32 am
  • The R manual says R will not build with gcc on 64-bit Solaris x86 with gcc "Tests with gcc32 on ?x86? and ?amd64? have been less ...
    Dr. David KirkbyDr. David Kirkby
    Mar 4, 2011 at 11:18 pm
    Mar 6, 2011 at 12:06 am
  • Hi, in Section 'Writing package vignettes' of 'Writing R Extensions' it says: "Whenever a Makefile is found, then R CMD build will try to run make after the Sweave runs, so PDF manuals can be created ...
    Henrik BengtssonHenrik Bengtsson
    Mar 30, 2011 at 6:20 am
    May 2, 2011 at 6:29 am
  • We are now starting testing R 2.13.0/alpba/beta/RC and testing and feedback would be appreciated (whereas reports on problems immediately after release will try our patience). Sources are available ...
    Prof Brian RipleyProf Brian Ripley
    Mar 18, 2011 at 9:22 pm
    Mar 28, 2011 at 4:18 pm
  • Howdy, I am having a problem with a library compiled from some legacy fortran code. I can call the library, it runs as it should, returns a list, and gives a " " prompt, but then locks up the R ...
    Daniel FukaDaniel Fuka
    Mar 24, 2011 at 4:35 pm
    Mar 27, 2011 at 7:31 pm
  • Hi All, I am trying to write a source-to-source compiler for R. I am trying to leverage the R parser code for the purpose. I am trying to transform the SEXP returned from the parser into an AST for ...
    Rob AndersonRob Anderson
    Mar 23, 2011 at 11:35 pm
    Mar 26, 2011 at 10:07 pm
  • Hi all, I use txtProgressBar to monitor progress of large computations. What I miss is the ability to redirect the progress bar to a stream other than stdout, specifically to the message stream. This ...
    Andreas BorgAndreas Borg
    Mar 15, 2011 at 10:37 am
    Mar 16, 2011 at 8:06 am
  • Hello everybody I'm am trying to build a pdf out of the Rd files that i wrote for a package, so that I can attach it to my thesis. if i Run Rd2pdf (or Rd2dvi) I get this error massage: Hmm ... looks ...
    Tobias ErhardtTobias Erhardt
    Mar 25, 2011 at 8:23 am
    Aug 26, 2011 at 9:50 pm
  • Hi, It's unfortunate that with recent revisions of R 2.13 (this appeared in revision 54640, March 2), 'R CMD build' now removes empty dirs in the package. People might have good reasons for having ...
    Pages, HervePages, Herve
    Mar 30, 2011 at 6:56 am
    Apr 11, 2011 at 10:00 am
  • Please forgive any mis-post, and do feel free to point me to a more appropriate list if this isn't properly R-dev. I have a package on R-forge that shows correct linux and other *nix builds, but no ...
    S EllisonS Ellison
    Mar 28, 2011 at 1:33 am
    Mar 28, 2011 at 5:07 pm
  • Hello all, I have,say 4 R objects... bar1, bar2, bar3, bar4.. that I'd like to include in an R package "foobar". The desired functionality would be: [1] "bar1" "bar2" "bar3" "bar4" I've tried the ...
    Andrew stewartAndrew stewart
    Mar 24, 2011 at 3:51 pm
    Mar 28, 2011 at 3:51 pm
  • Dear list, I have another (again possibly boneheaded) puzzle about importing, again encapsulated in a nearly trivial package. (The package is posted at ...
    Ben BolkerBen Bolker
    Mar 26, 2011 at 6:14 pm
    Mar 27, 2011 at 10:05 pm
  • The pattern (I can make a simple example if needed): (subscript bounds error, now in recover()) Selection: 1 Browse[1] where In the output from "where," there should be information on the line number ...
    Norm MatloffNorm Matloff
    Mar 26, 2011 at 11:41 pm
    Mar 27, 2011 at 4:42 pm
  • Dear R devel, being constrained to a windows environment at work and having colleagues being accustomed to the Microsoft Office Suite, I was looking for a way to have the RweaveLatex driver for ...
    Meyer, SebastianMeyer, Sebastian
    Mar 23, 2011 at 11:07 am
    Mar 23, 2011 at 6:08 pm
  • [Env: R 2.12.2, WinXp] In a vignette for the vcdExtra package, I had a text file, tv.dat under data/, that I used in the vignette as <<tv1,results=verbatim = ...
    Michael FriendlyMichael Friendly
    Mar 23, 2011 at 2:03 pm
    Mar 23, 2011 at 2:35 pm
  • L.S. I noticed weird tools::texi2dvi behaviour on R-alpha when specifying an absolute path to the .tex file. The same phenomenon also appears to occur on R-2.12.2, so maybe the issue is independent ...
    Tobias VerbekeTobias Verbeke
    Mar 21, 2011 at 10:45 pm
    Mar 22, 2011 at 9:02 am
  • Dear all, I'm trying to fix a subtle bug in the hdf5 package. This package provides an interfaces to the HDF5 library and hence allows one to load data into R from files in the HDF5 format. The bug ...
    H C PumphreyH C Pumphrey
    Mar 4, 2011 at 10:35 am
    Mar 18, 2011 at 4:49 pm
  • Hi, I've just created: newEnvEval <- function(..., hashúLSE, parent=parent.frame(), size)L) { envir <- new.env(hash=hash, parent=parent, size=size); evalq(..., envir=envir); envir; } # newEnvEval() ...
    Henrik BengtssonHenrik Bengtsson
    Mar 10, 2011 at 7:44 am
    Mar 10, 2011 at 5:21 pm
  • Hi, I have a BioC infra-structure package that works fine (I can build, check and load it successfully) on revision r53950. The very same package fails on r54591 with the error below: Error in ...
    Benilton CarvalhoBenilton Carvalho
    Mar 1, 2011 at 11:19 pm
    Mar 2, 2011 at 12:06 pm
  • Hello, I encountered this: Error in png(file = tempfile(), width = 1165, height = 12983) : unable to start png() device In addition: Warning messages: 1: In png(file = tempfile(), width = 1165, ...
    Dan TenenbaumDan Tenenbaum
    Mar 30, 2011 at 1:10 am
    Mar 30, 2011 at 2:03 am
  • (a) In R 2.12.2 rowsum can overflow if given an integer input: [,1] a -294967296 [,1] a 4e+09 Should it be changed to coerce its x argument to numeric (double precision) so it always returns a ...
    William DunlapWilliam Dunlap
    Mar 25, 2011 at 5:19 pm
    Mar 29, 2011 at 6:24 pm
  • Dear List, There seems to be an bug in compactPDF() or at least an inconsistency with the documented behaviour. The documentations states: Details: This by default makes use of ?qpdf?, available from ...
    Gavin SimpsonGavin Simpson
    Mar 27, 2011 at 12:48 pm
    Mar 27, 2011 at 5:28 pm
  • Today I installed the newest R develepment branch R version 2.14.0 Under development (unstable) (2011-03-18 r54866) on FreeBSD 9.0-CURRENT (amd64). All seems fine so far. After that I updated my R ...
    Rainer HurlingRainer Hurling
    Mar 19, 2011 at 11:28 am
    Mar 19, 2011 at 4:02 pm
  • Hello list, I have the following scenario: f1 <- function(a) { .... # doing things; may need 'a', but does not change 'a'. g <- function(x) { sum(x + a) # Say. Use 'a'; does not change 'a'. } ...
    Zepu ZhangZepu Zhang
    Mar 10, 2011 at 2:15 am
    Mar 18, 2011 at 2:51 am
  • Hi Peter and others, If it helps, I wrote a small function glm.scoretest() for the statmod package on CRAN to compute score tests from glm fits. The score test for adding a covariate, or any set of ...
    Gordon K SmythGordon K Smyth
    Mar 16, 2011 at 10:29 pm
    Mar 18, 2011 at 1:32 am
  • I've recently hunted down a troublesome bug in my own code, and am looking for an easy mechanism to detect this kind of error in other R code. The problem was an undefined variable inside of a ...
    Ryan KingRyan King
    Mar 16, 2011 at 8:14 pm
    Mar 17, 2011 at 12:47 pm
  • I've been updating a package and, when installing a local devel version, I get an error "object 'confusionMatrix' not found whilst loading namespace". Looking around online, it appears that this ...
    Max KuhnMax Kuhn
    Mar 16, 2011 at 1:48 am
    Mar 16, 2011 at 2:15 am
  • Dear R-devel, There seems to be a discrepancy in the order in which lm and rlm evaluate their arguments. This causes rlm to sometimes produce an error where lm is just fine. Here is a little script ...
    Vadim OgranovichVadim Ogranovich
    Mar 14, 2011 at 5:36 pm
    Mar 14, 2011 at 7:31 pm
  • A recent question in r-help made me realize that I should add a drop1 method for coxph and survreg. The default does not handle strata() or cluster() properly. However, for coxph the right options ...
    Terry TherneauTerry Therneau
    Mar 14, 2011 at 4:42 pm
    Mar 14, 2011 at 5:56 pm
  • Hi all, I have a function which makes use of missing() to determine which arguments are provided in the call - basically, there are two sets of arguments that map to different strategies the function ...
    Andreas BorgAndreas Borg
    Mar 11, 2011 at 10:07 am
    Mar 11, 2011 at 3:22 pm
  • Dear all, I'm writing a package and I would like to reuse the residuals() function. When I use a function which calls the redefined residuals (for my custom class) I get an error (see below). It ...
    ONKELINX, ThierryONKELINX, Thierry
    Mar 10, 2011 at 4:21 pm
    Mar 11, 2011 at 9:14 am
  • Hi, I was suggested that this question should be reported to r-devel. Could you please make file.copy() preserve the file mode information? I see from the source code that file.copy() is basically ...
    Yihui XieYihui Xie
    Mar 6, 2011 at 9:08 pm
    Mar 7, 2011 at 6:17 am
  • Dear R Development People: I was trying to build R-2.12.2 from source on a Windows XP machine. Doing the make all recommended works fine, but building the bitmap dll is a problem. It seems to be in ...
    Hodgess, ErinHodgess, Erin
    Mar 5, 2011 at 5:36 pm
    Mar 5, 2011 at 6:17 pm
  • I am building R-2.13 r54645 from source as described here: The "make all recommended" command ends as follows on both 32 and ...
    Dan TenenbaumDan Tenenbaum
    Mar 3, 2011 at 6:50 pm
    Mar 4, 2011 at 7:36 pm
  • Hi, assume I have an existing file 'pathname' and I want to rename it to 'pathnameN' (which does not exist). I use: res <- file.rename(pathname, pathnameN); Is it guaranteed that: (1) if res == TRUE, ...
    Henrik BengtssonHenrik Bengtsson
    Mar 2, 2011 at 4:41 am
    Mar 2, 2011 at 6:47 pm
  • --- This made me smile. The rowsums function was originally an internal part of the survival package, used for fast computation of certain sums when there is a cluster() statement. It was Statistical ...
    Terry TherneauTerry Therneau
    Mar 29, 2011 at 12:56 pm
    Dec 18, 2011 at 10:48 pm
  • Some already know, but I think it deserves a bit of a attention here as well: It looks like we're about to get new features in R that will be very powerful! That should be a good enough teaser for ...
    Henrik BengtssonHenrik Bengtsson
    Mar 13, 2011 at 5:45 am
    Apr 13, 2011 at 1:16 pm
  • a 1 2011-01-01 00:00:01 2 2011-01-01 00:00:02 a 1 2011-01-01 00:00:01 2 2011-01-01 00:00:02 I think this is because in we have nrows <- length(x) instead of nrows <- NROW(x) ...
    Hadley WickhamHadley Wickham
    Mar 31, 2011 at 3:30 pm
    Apr 5, 2011 at 2:31 pm
  • Hello, I am building R r55221 according to After I have done "make all && make recommended", "make bitmapdll" returns the ...
    Dan TenenbaumDan Tenenbaum
    Mar 31, 2011 at 9:01 pm
    Mar 31, 2011 at 10:11 pm
  • In r55204 src/library/tools/R/install.R, line 338. It says: shQUote(file.path(lockdir, pkg)))) Should say: shQuote(file.path(lockdir, pkg)))) Thanks Dan
    Dan TenenbaumDan Tenenbaum
    Mar 31, 2011 at 4:50 pm
    Mar 31, 2011 at 4:53 pm
  • Hi, With R version 2.13.0 alpha (2011-03-24 r55004), 'R CMD check' will produce the following output on some packages: * checking Rd metadata ... WARNING Error in is.function(FUN) : 'FUN' is missing ...
    Hervé PagèsHervé Pagès
    Mar 29, 2011 at 5:31 pm
    Mar 29, 2011 at 5:53 pm
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Prof Brian Ripley: 20 posts Dan Tenenbaum: 19 posts Duncan Murdoch: 19 posts Henrik Bengtsson: 14 posts Peter dalgaard: 13 posts Simon Urbanek: 12 posts Terry Therneau: 9 posts Ben Bolker: 8 posts Dirk Eddelbuettel: 7 posts Martin Morgan: 6 posts Brett Presnell: 5 posts Jon Clayden: 5 posts Martin Maechler: 5 posts Petr Savicky: 5 posts Wayne Zhang: 5 posts William Dunlap: 5 posts Andreas Borg: 4 posts Dr. David Kirkby: 4 posts Pages, Herve: 4 posts Daniel Fuka: 3 posts
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