similar to: debugging packages

Dear R-help, I am having trouble with the predict function in lasso2. For example: > data(Iowa) > l1c.I <- l1ce(Yield ~ ., Iowa, bound = 10, absolute.t=TRUE) > predict (l1c.I) # this works is fine > predict (l1c.I,Iowa) Error in eval(exper,envir, enclos) : couldn't find function "Yield" And I have similar trouble whenever I use the newdata argument in

Dear R-devel, I have been trying to compile R-2.0.0 on under linux, with the usual ./configure make I get the errors Warning message: package seems to be using lazy loading already in: makeLazyLoading("tools") Error in get(x, envir, mode, inherits) : variable ".install_package_description" was not found Execution halted This same configuration of linux successfully

Dear R-devel, I am trying to alter rpart so that it makes additional calculations when growing the tree. In the "rpart.s" there is a call to the C routine: rp <- .C("s_to_rp2", as.integer(nobs), as.integer(nsplit), as.integer(nodes), as.integer(ncat),

Dear R-help, This is about randomForest's handling of NA and NaNs in test set data. Currently, if the test set data contains an NA or NaN then predict.randomForest will skip that row in the output. I would like to change that behavior to outputting an NA. Can this be done with flags to randomForest? If not can some sort of wrapper be built to put the NAs back in? thanks, Clayton

Dear R-help, what are the limits on xtest? > NOT_A.rf <- randomForest (log10(Y[!A] ) ~ . , data = notA_desc , proximity=T ,xtest = A_desc) *** caught segfault *** address 0x9cdd000, cause 'memory not mapped' Segmentation fault I don't think that the matrix are large: notA_desc is 651 obs of 27 variables A_desc is 17 obs of 27 variables thanks in advance, Clayton

Is there a function in R, which would return index of maximum value in a vector ? e.g. > v <- round(10*rnorm(8)) > v [1] 6 -3 -6 15 7 9 0 -19 > max(v) [1] 15 ??? index.max(v) ??? 4

In e1071 package/svm default epsilon value is set to 0.1 and not 0.5 as documentation says. R

I have a data frame (df) with colums x, y and z. e.g. df <- data.frame(x = sample(4), y = sample(4), z = sample(4)) I can extract column z by: df$z or df[3] I can also extract columns x,y by: df[1:2] or by df[-3]. Is it possible to extract x,y columns in a "symbolic" fashion i.e. by equivalent of df[-z] (which is illegal) ??? Or alternativeley, is there an equivalent of

I don't know the details of pls (in the pls.pcr package, I assume), but if you use validation="CV", that says you want to use CV to select the best number of components. Then why would you specify ncomp as well? Andy > From: ryszard.czerminski at pharma.novartis.com > > When I try to use ncomp parameter in pls procedure I get > following error: > > >

How can I select random subsets (rows!) from a data set ? If I generate simple data set > a <- data.frame(x=1:2, y = NaN, z = 2:1) > a x y z 1 1 NaN 2 2 2 NaN 1 I can select random subsets (colums) very easily using sample function: > sample(a, 2) z y 1 2 NaN 2 1 NaN I expected that using transpose of a would do the same for rows, but I am getting rather unexpected

How can I remove columns with NaN entries ? Here is my simple example: > data <- read.csv("test.csv") > xdata <- data[3:length(data)] > xs <- lapply(xdata, function(x){(x - mean(x))/sqrt(var(x))}) > x <- data.frame(xs) > x C D E F 1 -0.7071068 NaN -0.7071068 -0.7071068 2 0.7071068 NaN 0.7071068 0.7071068

I am trying to produce rather mundane output of the form e.g. pi, e = 3.14 2.718 The closest result I achieved so far with print() is: > print (c(pi, exp(1)), digits = 3) [1] 3.14 2.72 > print(c("pi, e =", pi, exp(1)), digits = 3) [1] "pi, e =" "3.14159265358979" "2.71828182845905" I understand that c() promotes floats to strings and

The following is not what I expected in sorting characters (single letters and the same letters with preceding spaces). Can someone enlighten me as to why the following might be a correct result for sorting? ; x <- c(LETTERS[1:3], paste(" ", LETTERS[1:3], sep="")) ; x [1] "A" "B" "C" " A" " B" " C" ; sort(x)

Greetings - I'm finally finished review, here's what I heard: ============ from Tobias Verbeke: anthony.rossini@novartis.com wrote: > Greetings! > > After a quick look at current programming tools, especially with regards > to unit-testing frameworks, I've started looking at both "butler" and > "RUnit". I would be grateful to receieve real

Apparently row names are dropped when I extract single column from a data frame. Why this behaviour ? > y <- as.matrix(df[,1:2]); length(row.names(y)) [1] 324 > y <- as.matrix(df[,1:1]); length(row.names(y)) [1] 0 Best regards, Ryszard

Full_Name: Ryszard Czerminski Version: 1.8.1 OS: GNU/Linux Submission from: (NULL) (205.181.102.120) prcomp(..., scale = TRUE) does not work correctly: $ uname -a Linux 2.4.20-28.9bigmem #1 SMP Thu Dec 18 13:27:33 EST 2003 i686 i686 i386 GNU/Linux $ gcc --version gcc (GCC) 3.2.2 20030222 (Red Hat Linux 3.2.2-5) > a <- matrix(rnorm(6), nrow = 3) > sum((scale(a %*% svd(cov(a))$u, scale

Full_Name: Peter Gedeck Version: R1.6.2 and R1.7.0 OS: Windows XP Submission from: (NULL) (194.191.169.72) Hello, I marked the bug report Private, as I don't want my email address on the web server. The problem that I found is best explained using an example. index <- 1:6 cluster <- c(1,1,1,2,2,3) tapply(index,cluster,sample) gives $"1" [1] 2 1 3 $"2" [1] 4 5

Any ideas why read.table complains about not correct number of elements in line while readLine/strsplit indicate that all lines have the same number of elements ? R > tbl <- read.table('tmp', header = T, sep = '\t') Error in scan(file = file, what = what, sep = sep, quote = quote, dec = dec, : line 32 did not have 27 elements > lines <-

When I install an R package with cpp codes such as rrcov via CRAN (under R 3.1.1, using no Makevars file and under Ubuntu 14.04 using GCC 4.8), the cpp code is compiled with the -o3 flag (in fact, looking at the Makeconf file this seem to again be the default since R 3.1.1) But when I install my own package via CRAN it is compiled with the -o2 flag. My questions are what is causing my

So in English what you are saying is that there's a file called Makeconf in the etc directory under the R_HOME that contains the information. That certainly seems to be true for Linux. Thanks. -----Original Message----- From: G?bor Cs?rdi [mailto:csardi.gabor at gmail.com] Sent: 22 January 2016 11:37 To: Tom Quarendon <tom.quarendon at teamwpc.co.uk> Cc: r-devel at r-project.org