similar to: Error with Rcmd check library --as-cran

Hello, I have some xy data which clearly shows a non-monotonic, peaked triangular trend. You can get an idea of what it looks like with: x<-1:20 y<-c(2*x[1:10]+1,-2*x[11:20]+42) I've tried fitting a quadratic, but it just doesn't the data-structure with the break point adequately. Is there anyway to fit a triangular or 'tent' function to my data in R? Some sample code

Hello, I recently had to reinstall R on my windows machine, because MASS mysteriously vanished from my packages list. Before, when I used help(), the files would load in a Windows help window. Now, the help files load in my internet browser, which actually is problematic because I always made use of the contents/topics list to browse the help files in the Windows Help window. ("I don't

I have a data set like this in one .txt file (cols separated by !): APE!KKU!684! APE!VAL!! APE!UASU!! APE!PLA!1! APE!E!10! APE!TPVA!17122009! APE!STAP!1! GG!KK!KK! APE!KKU!684! APE!VAL!! APE!UASU!! APE!PLA!1! APE!E!10! APE!TPVA!17122009! APE!STAP!1! GG!KK!KK! APE!KKU!684! APE!VAL!! APE!UASU!! APE!PLA!1! APE!E!10! APE!TPVA!17122009! APE!STAP!1! GG!KK!KK! it contains over 14 000 000 records. Now

Dear all, It is my understanding that using 'importFrom' in the NAMESPACE of a package allows to avoid conflicts between different packages defining objects with identical names. However, I can still see conflicts while loading the package using 'library'. Here is a toy example, with a package 'foo' importing 'as.igraph' from the igraph package, and 'nj'

Hello, I've just downloaded and installed the RAqua onto my Mac and I have R up and running fine. Now I'm trying to get 'ape' downloaded and installed and having quite the difficulty. I am following the directions specified under 'Installing packages' where packages can be downloaded and installed from within R. I get the following error messages: 1: argument

Dear Sir or Madam, I am very new to R, and I am trying to install seqinr-package. In the manual I read that I need to install ape-package first, and I failed to do it. I had the following error messges: /usr/bin/ld: cannot find -lgfortran collect2: ld returned 1 exit status make: *** [ape.so] ?????? 1 ERROR: compilation failed for package 'ape' ** Removing

Dear all, I don't understand the following behaviour: Running compar.gee (in library ape ) with and without the option 'data', it give me different results Example: .... Start R .... > load("eiber.RData") > ls() [1] "gee.na" "mydata" "mytree" > library(ape) > # runnig with the option data= mydata > compar.gee(alt ~ R,

Folks I'm trying to use xfs_quota to keep track of disk space usage for my users. The documentation states that I should specify "uquota" as an option on the mount data in /etc/fstab. Yet, I cannot find the entry in fstab that corresponds to the Logical Volume that ends up being mounted on /home1. The system in question was installed on a single disk system. Later, after

I am not sure whether this would work or if there are other limitations that would block this very simplistic porting strategy to work. Since it looks so easy on paper, I expect it to be more complicated otherwise it would probably already have been done. According to the LLVM FAQ the important dependencies for LLVM are a unix-type shell and sed [1], but those dependencies are provided by APE

Dear all, I was testing the wonderful package APE. However upon testing a particular Newick's format tree - which I think to be a non-binary tree - it yields different result as expected. > library(ape) > tree.hiv <- read.tree(text="(rat,mouse,(human,chimp));") > is.binary.tree(tree.hiv) [1] TRUE Was that a bug in APE package? - Gundala Viswanath Jakarta - Indonesia

I am having trouble displaying a dendrogram of evolutionary relationships (a phylogram imported from the ape package) as the vertical component of a heatmap, but keeping the hierarchical clustering of the horizontal component. The relationships of the vertical component in the generated heatmap are not that of the dendrogram, although the ordering is. In more detail, I am attempting to generate

Hiya, will it be possible to add single song playback support like Monkey's Audio Image Link File to FLAC+CUE? This will allow the playing of single songs from 1 large FLAC file. Since FLAC can already embed the cuesheet inside the FLAC itself, the next step will be to allow the playback of the songs individually, allowing them to be added to playlists when playing singles. Please make

Dear FLAC developers, Thank you for your time and effort for creating such a great lossless compressor and make it freely available to the general public. I have a small feature request, which will make the life much easier for people like me who are converting from APE + CUE sheet to flac. The feature that I'm requesting is: Splitting flac files either according to CUE sheet or even

Hi, the problem is: /usr/bin/ld: cannot find -lblas-3 collect2: ld returned 1 exit status make: ** [ape.so] Erro 1 ERROR: compilation failed for package 'ape' ** Removing '/usr/local/lib/R/site-library/ape' Any help would be appreciated. Thanks, ------------------------------------ Bruno G. M. Churata

Let's say I would like to look inside the function corBrownian in library (ape). When I type in the function name I get the following, which is not nearly the detail that goes into this function. I am wondering how to begin cracking this function open (and others) so I can learn more about it and perhaps code my own corClass one day. Thanks. > corBrownian function (value = 1, phy, form

Hi list users, Is there a comparison somewhere of the efficiency of decoding flac files, with respect to some benchmark related to cpu processing? As compared to, say, ape files? I ask because I have recently switched my entire archive from ape to flac. I have an old 400 mhz laptop in my office running xubuntu, which I run into a receiver. Works great. Since switching to flac, I notice the

Hello, Just for further reference in case of someone else want to do the same : I wanted to write a mongrel for a CGI app : [[[ require ''cgi'' require ''foo'' cgi = CGI.new if !cgi[''uri''] || (cgi[''uri''] == '''') Foo.error "URI argument is required" end uri = cgi[''uri''] user =

Hi, I have generated a skyline plot of a tree in newick format using "ape". How can I plot the error bars for this graph? I only have the the tree data. un<-"((((8.1:0, 20.1:0):0, 6.1:3):123, (((((35.1:0, (22.1:0, (43.1:1, 29.1:0):0):0):4, 25.1:6):0, ((42.1:0, 21.1:0):3, (39.1:0, 2.1:0):3):1):8, (3.1:0, 7.1:0):8):48, (((((15.1:0, 14.1:0):0, 11.1:0):0, 37.1:0):0,

Dear R-help As a novice to R I was seeking some advice with respect to using R to help solve a problem I have. I have a large number of infiles that need analysed. This can be done, I believe, using 2 separate R packages (popgen and ape) with the output from 'popgen' being used as input for 'ape'. What I would like to know is whether it is possible within R to write some

> 3x3 subset used > Locus1 Locus2 Locus3 > Samp1 GG <NA> GG > Samp2 AG CA GA > Samp3 AG CA GG > > The euclidean distance function is defined as: sqrt(sum((x_i - y_i)^2)) My > assumption was that the difference between