[R] Failure when updating package nlme
Hello all, R2.2.1, W2k I posted a similar question last week after having problem with a group update (using update.packages()), without getting any answer. Now I have updated all packages separately, and found that the problem comes from nlme: Everything comes home, the md5 checksums are ok, but then the old version can´t be removed from my computer, leaving a nlme library with only the libs sublibrary left. As my R doesn´t start without nlme, I am stuck here. R doesn´t start with only the libs left and doesn´t start without nlme. What´s going on? It´s no big crisis as I have the nlme version from the R installation file, but I try to keep my installation as updated as possible, so it´s irritating. :) /CG -- CG Pettersson, MSci, PhD Stud. Swedish University of Agricultural Sciences (SLU) Dep. of Crop Production Ekology. Box 7043. SE-750 07 Uppsala, Sweden [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Ubuntu and R
You could try the stable/sarge backport from Cran. That's less likely to cause problems than using the Etch version, but I'm not using Ubuntu so I can't confirm this. Add the following to your sources.list and see how it goes: deb http://cran.R-project.org/bin/linux/debian stable/ -- Tyler Smith __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] segmentation fault with Hmisc areg.boot()
Martin Henry H. Stevens wrote:
Hi Folks,
Mac OS 10.4.4
R 2.2.1(2005-12-20 r36812)
Hmisc 3.0-10
acepack 1.3-2.2
I keep getting a segmentation fault when trying to run areg.boot in
the Hmisc package. I include below output from two different attempts.
Thank you in advance for any help.
Hank Stevens
The following is taken from the example in the areg.boot
documentation, run inside Aquamacs Emacs:
set.seed(171) # to be able to reproduce example
x1 - rnorm(200)
x2 - runif(200) # a variable that is really unrelated to y]
x3 - factor(sample(c('cat','dog','cow'), 200,TRUE)) # also
unrelated to y
y - exp(x1 + rnorm(200)/3)
f - areg.boot(y ~ x1 + x2 + x3, B=40)
Works fine on debian linux with same versions
Frank
P.S. In future it's best to omit prompts from lines of code for easy
pasting into the R prompt.
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] getting probabilities from SVM
Finally figured it out. You have to extract it from the attributes. Tricky. Thanks anyway. attr(pred, prob)[1:10,] On 2/16/06, roger bos [EMAIL PROTECTED] wrote: I am using SVM to classify categorical data and I would like the probabilities instead of the classification. ?predict.svm says that its only enabled when you train the model with it enabled, so I did that, but it didn't work. I can't even get it to work with iris. The help file shows that probability = TRUE when training the model, but doesn't show an example. Then I try to predict with probabilities, I still only get classifications back. Anyone get this to work and can help me out? Thanks, Roger attach(iris) # alternatively the traditional interface: x - subset(iris, select = -Species) y - Species model - svm(x, y, probability = TRUE) pred - predict(model, x, probability = TRUE) [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Ubuntu and R
On 2/16/06, Clint Harshaw [EMAIL PROTECTED] wrote: I've recently installed Ubuntu 5.10 on a desktop and need R installed, however, even after uncommenting the repos associated with universe, backports and multiverse, the packages available for Ubuntu are somewhat out of date: [EMAIL PROTECTED]:~$ apt-cache policy r-base r-base-core r-base: Installed: (none) Candidate: 2.1.1-1 Version table: 2.1.1-1 0 500 http://archive.ubuntu.com breezy/universe Packages r-base-core: Installed: (none) Candidate: 2.1.1-1 Version table: 2.1.1-1 0 500 http://archive.ubuntu.com breezy/universe Packages How should I edit my /etc/apt/sources.list so that I can proplery maintain a current version of R, and not break my system? I've searched the forums at Ubuntu, and there are several similar requests there, but no definitive answer that I found. What are other Ubuntu users here doing to keep their version of R fresh? I suspect the 2.2.x packages from Debian testing and/or unstable would run fine on breezy (I don't think there's been any libc6 changes that would affect things); you could always rebuild from the Debianized sources for Ubuntu if they don't. You could use apt pins to make sure that only the R packages from Debian are pulled in, if you want to use apt to keep it up to date from Debian's archive. Something like the following in /etc/apt/preferences should work: Package: r-* Pin: release o=Debian Pin-Priority: 500 Package: * Pin: release o=Debian Pin-Priority: -1 Then add a line for the Debian mirror of your choice to /etc/apt/sources.list, using either testing or unstable as your release. Chris __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Problem with scoping a variable value
You are a star... that was it. Many thanks,
Tolga
-Original Message-
From: Gabor Grothendieck [mailto:[EMAIL PROTECTED]
Sent: 16 February 2006 20:24
To: Tolga Uzuner
Cc: r-help@stat.math.ethz.ch
Subject: Re: [R] Problem with scoping a variable value
Without a reproducible example one can only guess but
perhaps the problem is not show but that you have a variable
F. Try writing out F as FALSE.
On 2/16/06, Tolga Uzuner [EMAIL PROTECTED] wrote:
Hi there,
I have a function which has a variable called show as an input:
richardson.grad - function(func, x, d=0.01, eps=1e-4, r=6, show=F){
# do some things
if(show) {
cat(\n,first order approximations, \n)
print(a.mtr, 12)
}
#do more things and return
}
The show variable is being used as a flag to show intermediate results.
Interestingly enough, I have downloaded a package recently which defines
the show variable as a function:
show
standardGeneric for show defined from package methods
function (object)
standardGeneric(show)
environment: 01676F7C
Methods may be defined for arguments: object
Now, all of a sudden, the function I had defined earlier is scoping up
to this new value, and is thus not working:
richardson.grad(function(x) x^2,2)
Error in if (show) { : argument is not interpretable as logical
I could always redefine show in richardson.grad to be something else but
something seems wrong: why is richardson.grad not looking up show's
value in the function ? How would I fix this ?
Thanks in advance,
Tolga
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] How to change the number of bins in hist function?
Hi all, I am doing histogram using the hist function. For some reason, the histogram does not look good... is there a way I can change the number of bins, and/or change the way that data gets binned... so that I can obtain a better looking histogram? Thanks a lot! [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] how to make plot output to JPG or GIF
Richard Evans wrote: Hello, How does one write PLOT() commands that make individual graphic files of plots that are currently generated to the graphics output window of a session? Currently, I have a chron-job that generates a new data input files once every hour. My goal is to then automatically run my source.r file with the plot commands which then automatically generates a web-ready graphic file in a folder for my server. See ?bitmap Uwe Ligges thanks! -revansx __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
