similar to: error with R-patched (2008-05-02 r45591)

I can compile RSPython without difficulty, been when I try to load it, I get the error messages below. Also below are some cryptic warnings I get on R boot (in case these are pertinent) and my sessionInfo(). Any help is appreciated. Thanks, Mark Warning messages: 1: In .updateMethodsInTable(fdef, where, attach) : Couldn't find methods table for "conditional", package

I'm having trouble with a Bioconductor package, an variable expected in an environment does not seem to be there. As part of my investigation of the problem (most likely on my end) I'd like to list the variables contained in an environment. If you have an environment loaded, lets call it "pkgEnv', how does one find what it does contain? Mark

I have a very long list of strings. Each string actually contains multiple values separated by a semi-colon. I need to turn each string into a vector of the values delimited by the semi-colons. I know I can do this very laboriously by using loops, nchar, and substr, but it is terribly slow. Is there a basic R function that handles this situation? If not, is there perhaps a faster way to do it than

Recently I posted to this list with a question about using the Intel 10.1 compilers in building R and one response was basically, "why in the heck would you want to do that?" The answer is that my sysadmin believes that there will be a performance boost with the Intel vs. Gnu compilers on our Linux cluster, of which I am one of many users. Wanting to be a good citizen and use my machine

I just downloaded R-devel and when loaded it immediately segfaults. I'm not sure how much or what sort of diagnostic info and can provide, but below is my build script, my console output, and the output of uname -r. I am currently dependent on the development version of a package, so I'd like to get R-devel up and running if possible. I am sure there is more info I can provide, but before

I am running 64-bit Ubuntu 8.04 and when I invoke rggobi the interactive graph displays but R crashes. See my sessionInfo() and a short example below. Ggobi and rggobi installed without complaints. Mark > sessionInfo() R version 2.7.0 Patched (2008-05-04 r45620) x86_64-unknown-linux-gnu locale:

Subject pretty much says it all. I am running 64-bit Ubuntu 8.04, i.e. Hardy Heron, have openmpi installed, and get the following error message with attempted install of Rmpi. sessionInfo() follows. Mark checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes

I've just installed Debian Lenny and RBGL fails compilation with the following errors (sessionInfo() follows). * Installing *source* package 'RBGL' ... untarring boost include tree... ** libs g++ -I/home/mkimpel/R_HOME/R-patched/R-build/lib64/R/include -I/usr/local/include -IboostIncl -fpic -g -O2 -c bbc.cpp -o bbc.o In file included from /usr/include/c++/4.3/ext/hash_set:64,

Had some packages fail install so I updated to today's R-beta release. On updating packages the following packages still fail. sessionInfo follows. Mark Warning messages: 1: In install.packages(update[instlib == l, "Package"], l, contriburl = contriburl, : installation of package 'MANOR' had non-zero exit status 2: In install.packages(update[instlib == l,

Martin, Well, thanks for jumping in! We need all the help we can get ;) I changed the execute bit as you suggested and recompiled, no luck, still the same error message. Below is the output you wanted me to look at, its a bit beyond me so I include both a brief grep summary and then the whole enchilada. I do note that my output is different from yours, but I'm not sure how to interpret. I

Martin, Well, thanks for jumping in! We need all the help we can get ;) I changed the execute bit as you suggested and recompiled, no luck, still the same error message. Below is the output you wanted me to look at, its a bit beyond me so I include both a brief grep summary and then the whole enchilada. I do note that my output is different from yours, but I'm not sure how to interpret. I

Subject pretty much says it all. Wonder if there is there is some code in XML that the new gcc doesn't like? See output below: * Installing *source* package 'XML' ... checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking

For years I have been using options(error = recover) either in .Rprofile or from within R for debugging purposes. The functionality of this appears to have changed and I can't recover it (no pun intended) using the ?options help page. How can I get the old functionality back, particularly from within .Rprofile? A specific line entry would be appreciated. An example, the help page, and

I am performing many permutations on a data-set with each permutation producing a variable number of results. I thought that the best way to keep track of all this in one object would be with a list ('res.lst'). To address these variable results for each permutation I attempted to construct this list using 'assign'. There is even more nesting than indicated below, but this is a

I have identical R.profiles and R_HOME directories set up on both my local machine and a remote linux cluster. To keep my libraries and R install separate, I use a site-library on both machines. The first line of my .Rprofile is: '.libPaths(new= "~/R_HOME/site-library") #tell R where site-library is' Until R-2.6.0 this was working fine on both machines, but since I have been

I would like to create a 3d scatterplot that is interactive in the sense that I can spin it on its axes to better visualize some PCA results I have. What are the options in R? I've looked at RGL and perhaps it will suffice but it wasn't apparent from the documentation I found. Any demo scripts available for a package that will work? Mark -- Mark W. Kimpel MD ** Neuroinformatics **

I'm making some plots on the same page and would like to include an overall title instead of individual main titles as they are similar and their x and y axis labels are sufficient to distinguish them. Is there a way to assign an overall "main" to this page of plots? Mark -- Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry Indiana University School of Medicine 15032

I'm having trouble achieving the results I want using a regular expression. I want to eliminate all characters that fall within square brackets as well as the brackets themselves, returning an "". I'm not sure if it's R's use of double slash escapes or something else that is tripping me up. If I only use one slash I get 1: '\[' is an unrecognized escape in a

I was running some sample code from a help page tonight and wished to redirect the sample output to my Desktop under Linux (Mint-Debian 64 if it makes a different). I was surprised to find that file name expansion using the ubuquitious "~/" was not recognized, in fact it caused R to crash. Is this expected behavior? See my output below and sessionInfo(). Also, not shown, but

I am running a very long loop and would like to save intermediate results in case of a system or program crash. Here is the skeleton of what my code would be: for (i in 1:zillion) { results[[i]]<-do.something.function() if (logical.test(i)) {save(results, "results.tmp")} } logical.test would test to see if i/1000 has no remainder. What R function would test that?