similar to: Creating packages in windoze: *** [indices] Error 1

R users, I recently upgraded (?) to Windows XP from 2000. I am trying to build an R package. I have done this many times on my old system and I am not sure why it is not working in XP. To build the package I call a bat file that specifies all the necessary paths -- but the "build" file (which appears to be a perl script) is looking for a "src" subdirectory in the src

Has anyone had success building a package on a windows machine? I am trying the following command with no luck (perhaps my flags are incorrect?). At this point I am stuck. Any help greatly appreciated. Niels Waller (BTW - I have no idea why it cannot find sh.exe since I have it is a directory that is specified in a path statement) H:\R\bin>rcmd build --binary --use-zip h:\taxon2 * checking

Dear R experts I am running a negative-binomial GLM (glm.nb) to test the null hypotheses that species 1 and 2 are equally abundant between site 1 and site2, and between each other. So, I have a 2x2 factorial design with factors Site (1,2) and Taxon (1,2). Since the Site:Taxon interaction is significant, I need to do the equivalent to a "post-hoc test" for ANOVA, however, the same tests

I just installed the R-patched 1.4.0 and for some reason I now have trouble compiling R packages - I could compile it a few weeks ago with R 1.4.0 released in December. This only happens if I put the --binary option in. For example: Rcmd build --binary cw returns the error: make: Entering directory `/cygdrive/c/PROGRA~1/R/RW1040/src/gnuwin32' make DLLNM= \ -C C:/MyRWork/cw PKG=cw

I've been comparing variables among objects (taxa) related by known trees, using phylogentically independent contrasts in the ape package, and want to move on to more complex models e.g. by using gls with appropriate correlation terms. My trees contain lots of (hard) polytomies and information about ancestors, which I've been including- creating fully dichotomous trees by using zero branch

I would like to revisit a problem that was discussed previously (see quoted discussion below). I am trying to do the same thing, using a string to indicate a column with the same name. I am making "foo" a string taken from a list of names. It matches the row where "item" = 5, and picks the corresponding "taxon" > foo <- list$taxon[match(5,list$item)] Let's

This summer I and a colleague built a package for R v 1.9.1 containing C-code under Windows. That only worked for us when R was installed in c:\program files\R. Now I have R v 2.0.1 and the same package won't build. I get the following C:\Program Files\R\rw2001\bin>rcmd check "c:\program files\r\rw2001\src\library\ sag" * checking for working latex ...latex: not found NO * using

I don't see what's missing in my statements to add rows to a data frame and someone else will probably see what needs to be added to the statements. The data frame has this structure (without any data): $ PHYLUM : chr $ SUBPHYLUM : chr $ SUPERCLASS : chr $ CLASS : chr $ SUBCLASS : chr $ INFRACLASS : chr $ SUPERORDER : chr $ ORDER : chr $ SUBORDER :

Hello everyone. I am using R 2.0.1 in windows XP sp2 and I want to create a package. I get the following errors when I run these commands at the dos prompt. Please help. Thanks. NIshan F:\Program Files\R\rw2001\bin>Rcmd build f:\testingskeke * checking for file 'f:\testingskeke/DESCRIPTION' ... OK * preparing 'f:\testingskeke': * cleaning src *

Hi all, I can't get my C routines running on a windows box. I have no problems at all in Linux. On windows, I have installed cygwin and the compilation works well but once I execute "dyn.load(.)" it hangs whatever I use C/C++ interfaces. In Linux it works wonderful but I need to get this code running on windows boxes. I know that the problem should be something with the

In reference to the thread http://tolstoy.newcastle.edu.au/R/devel/04/10/0859.html I have the same problem updating packages with newly-installed version of released version of R 2.0.1. Previous posts refer to a bug in windows. I wonder if there is a work-around? This probably should go to R-help but it follows on from the post in R-devel. Apologies in advance. OS: Windows XP Professional,

I'm using R 1.4.1 under Windows 2000 and am experiencing difficulty installing a package. I've included an example output using Rcmd build, but the same problem occurs with Rcmd check and Rcmd INSTALL. The error (make[1]: /bin/sh.exe: Command not found) is not a new one - it's referenced in readme.packages among other locations. I've placed a copy of sh.exe in C:\bin, but it

I tried ot build rpvm in my own makefile. But runs into some linker errors like e.g. undefined reference to `_R_alloc' My enviornment looks like this: CYGWIN pvm 3.4 compiled under cygwin myself R installed from the rw2001.exe setup file. I guess that the R under rw2001.exe was build with some other compiler? I then tried to compile R myself under CYGWIN but runs into the following

Dear List, I can'f figure how to add point labels in the next plot (example from ?taxondive help page, from vegan package): library(vegan) data(dune) data(dune.taxon) taxdis <- taxa2dist(dune.taxon, varstep=TRUE) mod <- taxondive(dune, taxdis) plot(mod) The points in this plot are diversity values of single sites, and I'd like to add a label to each one. The plot command don't

Dear all, I was wondering if you could help me with the following. I want to do calculate this equation: Ps(t)= (?_(r=1)^N Xtr* 1/?drs)/(?_(r=1)^N 1/?drs) Ps(t) ? Probability that taxon t will occur at site s (300 sites s) N ? Number of sites = from 1 to 49 Xtr ? Value for taxon t at site r (I have this information in a table, 40 taxa (columns) t, 49 sites r) drs ? Distance from site r to

Dear List, I can'f figure how to add point labels in the next plot (example from ?taxondive help page): library(vegan) data(dune) data(dune.taxon) taxdis <- taxa2dist(dune.taxon, varstep=TRUE) mod <- taxondive(dune, taxdis) plot(mod) The points in this plot are diversity values of single sites, and I'd like to add a label to each one. The plot command don't accept a

Hello, I'm trying to create a source package (on Win2k system). I followed the instructions from R-extns.pdf, installed ActivePerl and RTools with setting the DOS path to it. Then I did "Rcmd check" and had an error: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ C:\R\rw2001\bin>Rcmd check D:/prime7/SpnInstall/spectrino * checking for working latex ...latex: not found NO * using log directory

Hi This question is far less simple than the title suggests, please read carefully, thanks. I have 2 sets of data, both read into R >data1<-read.table ("1.txt", header=T, sep="\t") >data2<-read.table ("2.txt", header=T, sep="\t") >data1 Taxon stage1 stage2 stage3 stage4 T1 0 0 1 1 T2 0

Hello, I'm doing a comparative analysis of mammal brain and body size data. I'm following Charlie Nunn and Natalie Cooper's instructions for "Running PGLS in R using caper". I run into the following error when I create my comparative dataset, combining my phylogenetic tree (mammaltree) and taxon measures (mammaldata): "Error in phy$node.label[which(newNb > 0) -

Hello all: I have written a few R scripts and am trying to turn them into a package for submission to CRAN. All of these scripts are R code only, no C or C++ or anything else. I'm working with R 2.0.1 running on a Windows XP machine. So far running ">rcmd install --build --docs=normal mypkge" seems to work (i.e., the library "mypkge" is installed in R\rw2001\library and