similar to: Rgraphviz fails to load

Dear R-helpers, Can anyone tell me how to fix this: > library(Rgraphviz) Loading required package: graph Loading required package: Ruuid Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library '/Library/Frameworks/R.framework/ Resources/library/Rgraphviz/libs/ppc/Rgraphviz.so': dlopen(/Library/Frameworks/R.framework/Resources/library/Rgraphviz/

Dear R-helpers, In JGR: jpeg() Error in X11(paste("jpeg::", quality, ":", filename, sep = ""), width, : unable to start device JPEG In addition: Warning message: unable to open connection to X11 display '' > sessionInfo() Version 2.3.1 (2006-06-01) powerpc-apple-darwin8.6.0 attached base packages: [1] "grid" "datasets"

Dear R-helpers, In JGR, how to I get the help() to update when I install a new package? > sessionInfo() Version 2.3.1 (2006-06-01) powerpc-apple-darwin8.6.0 attached base packages: [1] "datasets" "methods" "stats" "graphics" "grDevices" "utils" "base" other attached packages: lattice MASS

Dear r-helpers, I wonder if you can figure out why the following is working: ******************************************************************** > sessionInfo() Version 2.3.1 (2006-06-01) powerpc-apple-darwin8.6.0 attached base packages: [1] "tcltk" "methods" "stats" "graphics" "grDevices" "utils"

Dear r-helpers, When I do an xYplot and display the result in a JavaGD() window, the font is sans-serif (presumably Helvetica). When I send the figure to a pdf, I get a serif font (presumably times). How do I insure that the font in the pdf is indeed the default sans serif? > sessionInfo() R version 2.4.1 (2006-12-18) i386-apple-darwin8.8.1 locale: C attached base packages: [1]

Dear list, I have a lot of troubles installing Rgraphviz. I installed graphviz 2.13 from "graphviz-2.13.20061222.0540.tar" I installed the library Rgraphviz > getBioC("Rgraphviz") Running biocinstall version 2.0.8 with R version 2.5.0 Your version of R requires version 2.0 of Bioconductor. trying URL '

Rgraphviz I cannot load it I have re-installed etc etc etc etc And cannot load it Message is 6): Library not loaded: /usr/local/lib/libgvc.3.dylib Referenced from: /Library/Frameworks/R.framework/Versions/2.6/Resources/library/Rgraphviz/lib s/ppc/Rgraphviz.so Reason: image not found Error : .onLoad failed in ''loadNamespace'' for ''Rgraphviz'' Error:

library(glmmADMB) #Example for glmm.admb data(epil2) glmm.admb(y~Base*trt+Age +Visit,random=~Visit,group="subject",data=epil2,family="nbinom") Gives: Error in glmm.admb(y ~ Base * trt + Age + Visit, random = ~Visit, group = "subject", : The function maximizer failed ****************** R version 2.4.1 RC (2006-12-14 r40181) powerpc-apple-darwin8.8.0 locale: C

Dear r-helpers, Could you please help me solve the following problem: When I run require(AlgDesign) trt <- LETTERS[1:5] blk <- 10 trtblk <- 3 BIB <- optBlock(~., withinData = trt, blocksizes = rep(trtblk, blk)) In response to the last command, R complains: Error in optBlock(~., withinData = trt, blocksizes = rep(trtblk, blk)) : object ".Random.seed" not found The

> (fm1 <- lmer2(Reaction ~ Days + (Days|Subject), sleepstudy)) Error in as.double(start) : Calloc could not allocate (888475968 of 4) memory ************************* > sessionInfo() R version 2.4.1 (2006-12-18) powerpc-apple-darwin8.8.0 locale: C attached base packages: [1] "grid" "datasets" "stats" "graphics" "grDevices"

Dear R-helpers, I don't see a difference between the following two plots of effect objects, which I understand should be different. What am I missing? require(doBy) require(effects) data(budworm) m1 <- glm(ndead/20 ~ sex + log(dose), data=budworm, weight=ntotal, family=binomial) m1.eff <- all.effects(m1) plot(m1.eff, rescale.axis = FALSE, selection = 2, main = 'rescale =

Dear List, as I'm trying to install R and Rgraphwiz on a Fedora Linux, I have a problem with the environement variable "PKG_CONFIG_PATH". The library "libgvc" is not getting recognized / found, although a recent version libgvc is on the system and can be seen via /usr/lib64. I've tried to edit the paths described in /etc/ldpaths but without any success. Any hints how

Hi Gabor, I just used your R code below and the code worked properly without any error messages. Attached is the output graph, which may be the one you expected. library("Rgraphviz") set.seed(123) V <- letters[1:10] M <- 1:4 g1 <- randomGraph(V, M, 0.2) g1 plot(g1) Thanks. Howard On Wed Mar 31 11:18:25 EDT 2010, Gabor Grothendieck <ggrothendieck at

Dear R-helpers, When I try > anova(txtE2.lme, txtE2.lme1) Model df AIC BIC logLik Test L.Ratio p-value txtE2.lme 1 10 8590 8638 -4285 txtE2.lme1 2 7 8591 8624 -4288 1 vs 2 6.79 0.0789 > latex(anova(txtE2.lme, txtE2.lme1)) Error: object "n.group" not found I don't even see n.group as one of the arguments of latex() I checked to see >

R version 2.7.0 Under development (unstable) (2008-03-04 r44677) i386-apple-darwin8.10.1 locale: C attached base packages: [1] grid grDevices datasets graphics stats utils methods base other attached packages: [1] lattice_0.17-6 MASS_7.2-41 JGR_1.5-18 iplots_1.1-2 JavaGD_0.5-1 rJava_0.5-1 The following opens a JavaGD window and freezes JGR: super.sym <-

Dear r-helpers, When I pull down the Packages:Package Installer menu, I get: ================================== > installPackages() stack imbalance in .External, 22 then 66 stack imbalance in <-, 20 then 64 stack imbalance in <-, 117 then 118 stack imbalance in {, 115 then 116 stack imbalance in if, 113 then 114 stack imbalance in {, 111 then 112 stack imbalance in <-, 105 then 106

require(gplots) data(rtPCR) overplot( RQ ~ Conc..ug.ml. | Test.Substance, data=rtPCR, subset=Detector=="ProbeType 7" & Conc..ug.ml. > 0, same.scale=TRUE, log="xy", f=3/4, main="Detector=ProbeType 7", xlab="Concentration (ug/ml)", ylab="Relative Gene Quantification" ) # Error in lowess.default(mf[[-response]], mf[[response]], f = f,

Hi Martin, It is really a 'PATH' problem. After adding C:\Program Files\Graphviz2.20\bin to the 'PATH' environment variable, the Rgraphviz package can be loaded without any error messages. Sorry that I ONLY set my 'PATH' environment variable correctly for R but not for Graphviz. Thank you and Duncan so much for your great help. Howard On Tue Mar 30 18:12:54

Hi Seth, The possibility of caching computations would be a great boon when one is iteratively refining a paper; so I'm most grateful for your work on this. Unfortunately I have a problem to report: ******************installing****************** > source("http://bioconductor.org/biocLite.R") > biocLite("weaver") Running getBioC version 0.1.8 with R version

Dear r helpers, In my exploration of the tcltk facilities of R I've had some success but some failures, and wonder if someone could point me to a solution. To begin: ****************************************************** > sessionInfo() Version 2.3.1 (2006-06-01) powerpc-apple-darwin8.6.0 attached base packages: [1] "tcltk" "methods" "stats"