similar to: named empty list

Hi, > x <- charToRaw("ABCDEFGx") > x[c(1:3, NA, 6)] <- x[8] *** caught segfault *** address 0x8402423f, cause 'memory not mapped' Possible actions: 1: abort (with core dump, if enabled) 2: normal R exit 3: exit R without saving workspace 4: exit R saving workspace Cheers, H. > sessionInfo() R version 2.10.0 Under development

Hi, > class(as(1:4, "numeric")) [1] "integer" Surprising but an explanation could be that an integer vector being a particular case of numeric vector, this coercion has nothing to do because 1:4 is already numeric. And indeed: > is.numeric(1:4) [1] TRUE > is.numeric(as(1:4, "numeric")) [1] TRUE However, 'as(1:4,

Hi list, This looks similar to the problem reported here https://stat.ethz.ch/pipermail/r-devel/2006-April/037199.html by Henrik Bengtsson a long time ago. It is very sporadic and non-reproducible. Henrik, do you remember if your code was using reg.finalizer()? I tend to suspect it but I'm not sure. I've been hunting this bug for months but today, and we the help of other Bioconductor

Hi, This looks OK: > x <- c("_1_", "1_9", "2_9") > rank(x) [1] 1 2 3 But this does not: > xa <- paste(x, "a", sep="") > xa [1] "_1_a" "1_9a" "2_9a" > rank(xa) [1] 2 1 3 Cheers, H. > sessionInfo() R version 2.14.0 (2011-10-31) Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1]

Hi, 'R CMD build' (with R 2.12.0 RC) fails to clean the src/ folder on Windows: D:\biocbld\bbs-2.7-bioc>ls meat/BUS/src BUS.cpp BUS.h D:\biocbld\bbs-2.7-bioc>R\bin\R CMD build meat\BUS * checking for file 'meat\BUS/DESCRIPTION' ... OK * preparing 'BUS': * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package

Hi, The following code produces different kinds of problems depending on which platform you run it: x <- as.list(1:200000) names(x) <- paste("A", 1:200000, sep="") e <- list2env(x) Timeout on Linux, crash on Mac and Windows, with R 2.12.0 and current R devel. The "multi-assign" mode (i.e. when the 'envir' arg is supplied) doesn't seem

Hi, x <- c(rep(1800000003L, 10000000), -rep(1200000002L, 15000000)) This is correct: > sum(as.double(x)) [1] 0 This is not: > sum(x) [1] 4996000 Returning NA (with a warning) would also be acceptable for the latter. That would make it consistent with cumsum(x): > cumsum(x)[length(x)] [1] NA Warning message: Integer overflow in 'cumsum'; use

Hi, With current R devel and R 2.13.1: > aa=1:5 > save(aa, file="aa.rda", compress="xy") Error in identical(compress, "gzip") || compress : invalid 'y' type in 'x || y' Thanks! H. > sessionInfo() R version 2.13.1 (2011-07-08) Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_CA.UTF-8 LC_NUMERIC=C [3]

I always followed http://cran.r-project.org/bin/linux/ubuntu/ to install R on Ubuntu 8.1. I had no errors before! > install.packages("XML") Warning in install.packages("XML") : argument 'lib' is missing: using '/usr/local/lib/R/site-library' --- Please select a CRAN mirror for use in this session --- Loading Tcl/Tk interface ... done trying URL

Hi, The cleanup_pkg() function defined the big tools:::.build_packages() function in tools/R/build.R is currently broken. When Makefiles are used cleanup_pkg() doesn't clean anything because of the way system2() is called. For example, the call to Ssystem() on line 304 (Ssystem is a silent version of system2) is basically trying to do this: >

Hi, When 'x' is a vector of doubles, it's not clear how 'factor(x)' compares its values in order to determine the levels. For example, here all the values in 'x' are "conceptually" the same: x <- c(11/3, 2/3 + 4/3 + 5/3, 50 + 11/3 - 50, 7.00001 - 1000003/300000) However, due to machine rounding errors, they are not

Hi, Today we've seen the following problem with the R-2.12 that we use for our Windows builds: > installed.packages() Error: subscript out of bounds After some investigation we discovered that the cause of this failure was that 1 of the 890 packages currently installed on the machine (Windows Server 2003 R2) had its DESCRIPTION file empty:

Hi, According to its man page substring() "expands (its) arguments cyclically to the length of the longest _provided_ none are of zero length". So, as expected, I get an error here: > substring("abcd", first=2L, last=integer(0)) Error in substring("abcd", first = 2L, last = integer(0)) : invalid substring argument(s) But I don't get one here:

Hi, Installing from binaries on Windows: > install.packages("multtest") Warning: dependency 'Biobase' is not available trying URL 'http://cran.fhcrc.org/bin/windows/contrib/2.12/multtest_2.6.0.zip' Content type 'application/zip' length 1645590 bytes (1.6 Mb) opened URL downloaded 1.6 Mb package 'multtest' successfully unpacked

I get this (with R-2.12 and R-2.13, didn't try with earlier versions): > max(c(NaN, NA)) [1] NA > max(c(NA, NaN)) [1] NaN I get the same thing with min(). The fact that the result of 'max(x)' or 'min(x)' depends on the order of the elements in 'x' is surprising. It also seems to contradict the man page: By definition the min/max of a numeric vector

On 15/07/2009 8:08 PM, Herv? Pag?s wrote: > Hi, > > > x <- c(a=10, b=20) > > length(x) <- 1 > > x > a > 10 > > But with gctorture turned on, I get: > > > gctorture(TRUE) > > x <- c(a=10, b=20) > > length(x) <- 1 > > x > a > "a" <---- ??? > > > x <-

Hi, Seems like this recent change broke the png() device: hpages at latitude:~/svn/R-devel/src/library/grDevices/src$ svn diff -r 56568:56569 Index: cairo/Makefile.in =================================================================== --- cairo/Makefile.in (revision 56568) +++ cairo/Makefile.in (revision 56569) @@ -38,7 +38,8 @@ R: Makefile @$(MAKE) $(cairo_la) - @cp $(cairo_la)

Hi, On both Unix and Windows there is a mechanism to add variables to the environment when R is started. I noticed that, on Unix, this mechanism is not used when R is started normally at the command line but only when it's started using the 'R CMD' syntax. One problem with this is some lack of consistent cross-platform behaviour. For example: On Linux: $ echo $TEXINPUTS $

Hi, Already reported here: https://stat.ethz.ch/pipermail/r-devel/2010-September/058636.html but it doesn't seem to be related (at least not in an obvious way) to the problems described in that previous thread. So the problem is that, with recent versions of R 2.12 (i.e. current R-alpha but I've observed this with R-devel for at least 2-3 months now), 'R CMD build

Hi, > gctorture(TRUE) > setGeneric("foo", function(x, y) standardGeneric("foo")) [1] "foo" > setMethod("foo", c("ANY", "ANY"), + function(x, y) cat("calling foo,ANY,ANY method\n") + ) Error: protect(): protection stack overflow Sorry this is something I already reported one week ago here