similar to: bnlearn package compilation failure on MacOSX

Hi everyone, I'm attempting to use the bnlearn package to calculate conditional probabilities, and I'm running into a problem when the "cpquery" function is used within a loop. I've created an example, shown below, using data included with the package. When using the cpquery function in a loop, a variable created in the loop ("evi" in the example) is not

Dear Ross, This usually happen because you have parameters with a value of NaN in your network, because the data you estimate the network from are sparse and you are using maximum likelihood estimates. You should either 1) use simpler networks for which you can estimate all conditional distributions from the data or 2) use posterior estimates for the parameters. Cheers, Marco On 13 July

Hi all I have built a Bayesian network using discrete data using the bnlearn package. When I try to run the cpquery function on this data it returns NaN for some some cases. Running the cpquery in debug mode for such a case (n=10^5, method="lw") creates the following output: generated a grand total of 1e+05 samples. > event has a probability mass of 14982.37 out of

I'm trying to teach myself about Bayesian Networks and am working with the following data and the bnlearn package. I understand the conceptual aspects of BNs, but I'm not sure how to specify the response variables in R when constructing a dag plot. I've cecked ?hc and done numerous google searches without luck. Can anyone help? library("bnlearn")

Dear R-help list: I have two related questions regarding the functions boot.strength and custom.strength in bnlearn. 1) I am using the following commands (on a set of continuous data, the example here run on fake data): > myblacklist<-data.frame(from=c("x1", "x1", "x1", "x2", "x2", "x2")) , to=c("x2",

Hi, I need to classify, using Naive Bayes and Bayes Networks, and estimate their performance using cross validation. How can I do this? I tried the bnlearn package for Bayes Networks, althought I need to get more indexes, not only the error rate (precision, sensitivity, ...). I also tried the *e1071* package, but I could not find a way to do cross-validation. Thanks for everyone. Guilherme.

Hi Anyone have experience with very large datasets and the Bayesian Network package, bnlearn? In my experience R doesn't react well to very large datasets. Is there a way to divide up the dataset into pieces and incrementally learn the network with the pieces? This would also be helpful incase R crashes, because I could save the network after learning each piece. Thank you.

Hello: I have looked at the bnlearn and deal packages for infering bayesian network. Can anyone suggest any other suitable package for constructing bayesian gene regulatory network using gene expression data? Thanks! John [[alternative HTML version deleted]]

Hi, I am interested in using a bayesian network as a predictor (machine learning); however, I can't get any of the implementations (deal, nblearn) to learn & predict stuff. Shouldn't there also be probabilites for each node after the learning phase, how can I access these? Cheers, Stephan -- View this message in context:

Dear R developers, I recently observed a NOTE on several MaxOS X package checks: sh: line 1: gs: command not found !!! Error: Closing Ghostscript (exit status: 127)! /usr/bin/texi2dvi: thumbpdf exited with bad status, quitting. See for details: http://www.r-project.org/nosvn/R.check/r-release-macosx-ix86/simecol-00check.html or

Dear developeRs, Compilation of the latest version (0.9-5) of my actuar package fails with r-release MacOS_X ix86 on CRAN; see http://www.R-project.org/nosvn/R.check/r-release-macosx-ix86/actuar-00check.html All errors come from accented letters in comments in latin-1 encoded files (except hierarc.R which is in UTF-8, my bad). Encoding is declared as latin-1 in DESCRIPTION. The package

(I'm quite afraid this is a dumb question, so sorry in advance) I am trying to install the package rimage to R version 2.8.1 with Ubuntu Intrepid. When I type "sudo R CMD INSTALL" I get the following error message (pasted below). I know the same problem appears here (http://www.r-project.org/nosvn/R.check/r-patched-linux-ix86/rimage-00install.html) but I do not know what its

Hi all, For the R package bujar, the warnings below were generated on CRAN's Windows systems. The package uses some Fortran subroutines. I would appreciate any advice to eliminate the warnings. By the way, similar warnings were generated to some unrelated R packages as well: https://www.r-project.org/nosvn/R.check/r-oldrel-windows-ix86+x86_64/imputeTS-00check.html. Thanks in advance. Zhu

Hello, the compilation of the GUTS package on CRAN for Mac produces the following error messages: http://www.r-project.org/nosvn/R.check/r-release-macosx-ix86/GUTS-00install.html I guess it is some namespace collision, but I can not reproduce it on my machine, it compiles fine here. What is the cause and which setup do I need to reproduce the errors? R: version platform

Dear R users, Thanks in advance. I am Deb, Statistician at NSW Department of Commerce, Sydney. I am using R 2.8.1 on Windows XP. This has reference to the package “DPpackage”. The binary version is available on Mac OS, but I am using Windows XP. May I request you to assist me in the followings: How can I prepare Windows binary of DPpackage from source? 2. Is there any possibility

I am getting the following on CRAN windows and winbuilder https://www.r-project.org/nosvn/R.check/r-devel-windows-ix86+x86_64/penaltyLearning-00check.html Apparently there is an error in re-building vignettes, but I do not have any idea what it is, because all that is listed is three dots (...). Is this a bug in R CMD check? If not, the only solution I can think of is removing the vignette

Hi, I am using caretNWS on a RHEL x86_64 system and I am getting an error message that is nearly identical to the one occuring in http://www.r-project.org/nosvn/R.check/r-release-macosx-ix86/caretNWS-00check.txt Error in socketConnection(serverHost, port = port, open = "a+b", blocking = TRUE) : unable to open connection Calls: system.time ... .local -> tryCatch -> tryCatchList

When I am loading the RGrace package I am getting the following errormessage: Loading required package: RGtk2 Loading required package: grid Loading required package: cairoDevice Error in figure() : could not find function "gladeXMLNew" Error : .onLoad failed in 'loadNamespace' for 'RGrace' Error: package/namespace load failed for 'RGrace' I am running R 2.7.1

Hi every one I am working on shiny app using bnlearn for Bayesian networks and using r studio I get a fatal error and when I use R GUI I get this error ** caught segfault *** address 0xfffffffc0fcd6248, cause 'memory not mapped' Traceback: 1: .Call("mappred", node = node, fitted = fitted, data = data, n = as.integer(n), from = from, prob = prob, debug = debug) 2:

I was trying to produced bagged importance estimates of attributes in earth using the caret package with the following commands:   fit2 <- bagEarth(loyalty ~ ., data=model1, B = 10)   bagImpGCV <- varImp(fit2,value="gcv") My bootstrap estimates are produced however the second command "varImp" produces the following error:    Error in UseMethod("varImp") : no