similar to: fisher.test FEXACT memory bug "should not occur" (PR#1662)

Dear helplist Many many thanks to everyone who helped me. The trick was to use tabulate() or, better, tab <- rep(0,50) names(tab) <- 1:50 tab[names(table(sleeps))] <- table(c) My original dataset was a list of 50 trees and a length 12 vector recording which tree a certain possum slept in on 12 nights. As Professor Ripley points out, a Monte-Carlo simulation is easy to set up, and it

I posted this last night but I think I figured out the problem. I checked on the underlying equation for the Fisher Exact Test for tables greater than 2X2. It looks like I have an insane amount of factorials to be multiplied. Is that problem? Is it an overflow issue? Jeff Last night’s post: I just a ran a fisher.test on a 9x5 table and received the following message

Hello, I have an error message that doesn't seem to make sense in that having read the R documentation I was under the impression that R was able to grab as much memory as it needed, and has been able to do so for some time, so the advice given below about increasing the size of the workspace is redundant. If I'm right, does anyone have a solution to the problem of the size of

Dear all, I’m having an awkward problem in R. When I write the command Fisher.test(school.data,workspace=2e+07), where school.data is the matrix corresponding to the data set, I get the error message: FEXACT error 7. LDSTP is too small for this problem. Try increasing the size of the workspace. Increasing the workspace: Fisher.test(school.data,workspace=1e+10), I

(CC'ed to R-bugs ``for the record'') >>>>> "BDR" == Prof Brian D Ripley <ripley@stats.ox.ac.uk> writes: BDR> On Thu, 13 Jun 2002, Martin Maechler wrote: >> >>>>> "MM" == Martin Maechler >> <maechler@stat.math.ethz.ch> writes: >> >> >>>>> "BDR" ==

Hi folks, I'm trying to call an R function (fisher.test) in my program for like a billion times! Though my program is in Python and I feel that using rpy2 to interface R to python doesn't give me satisfactory performance. So I looked into R code and found out that fisher.test is actually a wrapper around another function called fexact which is implemented in C. Using Cython I managed to

Dear All, I am using fexact.c on a C++ program I wrote. To minimize dependencies on other files (e.g., to not need to include R.h and ctest.h ---now I only include the R files Boolean.h, Constants.h, and Memory.h), I have re-written all declarations of Sints as ints and, what is potentially more serious, I have re-written the line (lines 329 and 330, in fexact.c on R-1.6.1) /* IMAX is the

Hello, I'm using R to apply Fishers exact test to a whole pile of contingency tables, and I've run into the bug shown below. regards, Francis -- > dat1 = matrix(c(0,1,0,1,0,0,1,0,0,0,1,0,1,0,0,1,0,0,0,1,0,1,0,0,1,0,0,0,0, 1,1,0,0,1,0,0,1,0,0,1,0,0,3,0,0,2,0,0,1,0,0,0,1,0,0,2,0,0, 2,0,0,1,0,1,0,0,3,0,0,2,0,0,0,1,0,5,0,0,0,1,0,1,0,0), nrow=3) >

Hi! I am Marta Colombo, student in Mathematical Engineering at "Politecnico di Milano". For my master degree thesis I have to analyze some categorical data. My dataset is composed by 327 individuals and 16 variables. I am using Fisher exact test to test independence on IxJ contingency tables, but I have a problem with one variable. R gives me this error message: FEXACT error 7.

The last line gets duplicated when a file is read like this: a <- scan(file=filename, what="", sep="\n", strip.white=c(TRUE), quiet=TRUE) (This error does not occur on Linux, the only other platform I tested.) Version: platform = hppa2.0-hp-hpux10.20 arch = hppa2.0 os = hpux10.20 system = hppa2.0, hpux10.20 Actually, all binaries are

C?dric Finet wrote: > > I thank you for your answer but I do not understand yet why the Fisher?s exact > test does not work. And why is a "negative key". > > C?dric Finet > Running the original TOMS643 fortran code (R uses an f2c translation of this) says: FEXACT ERROR: 30 Stack length exceeded in f3xact. This problem should not occur. The integer hash key is

dear helplist, my student has fifty trees, numbered one to fifty, and a vector recording which tree a certain possum slept in on 12 nights. R> c [1] 3 14 17 22 26 26 17 40 43 25 46 46 R> Thus it slept in tree #3 on Monday, then tree #14 on Tues, and so on. I wish to test the null hypothesis that the animal chooses trees randomly; try R> table(c) c 3 14 17 22 25 26 40 43 46 1 1

The hybrid feature in fisher.test looks to me like an excellent way to analyze my two-way tables. The only problem is that it does not seem to be implemented. Am I right about this? An example is pasted below. I note that I get the warning message only when I shouldn't: for a 2x2 table hybrid seems to be ignored without warning. In no case does fisher.test seem to be checking Cochran

Hi, I want to analyse a contigency table (3 x 12) with a fisher.test beacause there are cells that are less than 5. ?mmen Anken Baf Belchen H?chi Hof Porti R?m Schmutz Sch?n Sissa Tann class14 7 26 150 2 46 68 126 66 3 31 7 61 class24 7 6 55 5 49 71 93 90 1 18 16 79 class34 1 1 4 3 19 8 29 61

I just a ran a fisher.test on a 9x5 table and received the following message Error in fisher.test(apaslg.t) : FEXACT error 30. Stack length exceeded in f3xact. This problem should not occur. I agree. The problem should not occur. I did some searching but only found other reports of the problem. Does anyone know of a fix? Jeff Internal Virus Database is out-of-date.

I want to ascertain the basis of the table ranking, i.e. the meaning of "extreme", in Fisher's Exact Test as implemented in 'fisher.test', when applied to RxC tables which are larger than 2x2. One can summarise a strategy for the test as 1) For each table compatible with the margins of the observed table, compute the probability of this table conditional on the

Hello experts I have a thing which I can't vectorize. Can any gurus out there help? This is my truncated dataset; it is a dataframe of five possums and which tree they slept in on three days. R> dataset p14 p88 p82 p90 p98 1 6 7 5 1 3 2 8 9 10 1 11 3 8 7 12 13 14 I can manipulate it with simple functions fine: R> f function(n){n+1000} R> f(dataset)

I am trying to get R 1.0 running on the Mac. The main target is MacX. Anyone else working on that? For the recent Macintosh system, I am trying to compile R using MachTen. The R core compiles and runs without any changes, using the Unix make files. The libraries give some problems, presumably due to handling of shared libraries. It seems I am missing something to link. Before I spend my time

Dear all, perhaps I am using princomp.formula and prcomp.formula in a way that is not documented to work, but then the documentation just says: formula: a formula with no response variable. Thus, to avoid a lot of typing, it would be nice if one could use '.' and '-' in the formula, e.g. > library(DAAG) > res <- prcomp(~ . - case - site - Pop - sex, possum)

Hi everyone thanks for the replies. The issue was NOT a font problem; I deliberately chose ll1 and l11 as examples of easily confused variable names (evidently these were too easily confused ;-). The code snippet was written as intended, and increment() contained a deliberate, highlighted, bug. I was asking for guidance on avoiding/finding this sort of coding error. That was why I wrote