Liviu Andronic | 29 Aug 17:14 2015
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Re: Having both R-current and R-devel installed on Ubuntu

Hi Dirk,
I too would need to get R-devel on my Ubuntu box (alongside an
existing R installation) to check my packages, especially given the
mayhem that awaits us when the new `R CMD check --as-cran` goes live.
( http://stat.ethz.ch/R-manual/R-devel/doc/html/NEWS.html )

I was wondering if the script that you posted on r-sig-debian a couple
years back was still valid. More however, I'd like to know if you ever
considered/worked on putting this script into proper 'debian'
packaging instructions? If such existed, it would be easy enough to
mirror the R repo on Launchpad and then provide daily builds of
r-devel on a PPA (in view of independent installation from stable R
packages).

Any ideas on this? Regards,
Liviu

On Wed, Aug 8, 2012 at 11:22 PM, Dirk Eddelbuettel <edd <at> debian.org> wrote:
>
> Hi Søren,
>
> On 8 August 2012 at 20:38, Søren Højsgaard wrote:
> | Dear List,
> |
> | Having used R on Windows for years, I have recently installed Ubuntu as a virtual machine. I admit that I am
quite new to the linux world.
>
> Good :)  It's even better once you "host" on Linux as Linux is generally
> better with limited resources.
>
(Continue reading)

Irucka Embry | 18 Aug 19:54 2015

Server certificate verification failed

Hi all, I have the following in my apt sources.list file: deb https://
/bin/linux/ubuntu trusty/

I issued the following command to obtain the public key:
sudo apt-key adv --keyserver keyserver.ubuntu.com --recv-keys E084DAB9

I am receiving the following error message though after updating the
Synaptic package manager:
Failed to fetch
https://cran.revolutionanalytics.com/bin/linux/ubuntu/trusty/Packages
server certificate verification failed. CAfile:
/etc/ssl/certs/ca-certificates.crt CRLfile: none

Any assistance that you can provide will be helpful.

Thank you.

Irucka Embry 

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Seb R | 18 Aug 10:11 2015
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Re: R Base installation not working

Hi Marius,
If you're really using Ubuntu 10.04 (lucid lynx), the r-base package 
does not exist anymore on the repository 
(http://packages.ubuntu.com/search?keywords=r-base).
You're version of Ubuntu is obsolete. If you want an Ubuntu LTS, you 
should upgrade to 14.04.

>> Message: 1
>> Date: Sat, 15 Aug 2015 16:19:33 +1000
>> From: Marius Barnsley <mariusbarnsley <at> gmail.com>
>> To: r-sig-debian <at> r-project.org
>> Subject: Re: [R-sig-Debian] R Base installation not working
>> Message-ID:
>>     <CAGhaHufAmO_ocOqWf2Ci1VY6TX1EsfVbkKnHYHSauw_bULrriw <at> mail.gmail.com>
>> Content-Type: text/plain; charset="UTF-8"
>>
>> I am using Ubuntu 10.04 and have tried to download R-base with the
>> following command:
>>
>> sudo apt-get install r-base
>>
>> and the following happens:
>>
>> Reading package lists... Done
>> Building dependency tree
>> Reading state information... Done
>> Package r-base is not available, but is referred to by another package.
>> This may mean that the package is missing, has been obsoleted, or
>> is only available from another source
>> E: Package r-base has no installation candidate
(Continue reading)

Dr Andrew Defries | 15 Aug 17:29 2015
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Re: R-SIG-Debian Digest, Vol 120, Issue 1

Hello,

Did you setup your sources as suggested here?

http://cran.us.r-project.org/bin/linux/

Sent from my iPhone

> On Aug 15, 2015, at 3:00 AM, r-sig-debian-request <at> r-project.org wrote:
> 
> Send R-SIG-Debian mailing list submissions to
>    r-sig-debian <at> r-project.org
> 
> To subscribe or unsubscribe via the World Wide Web, visit
>    https://stat.ethz.ch/mailman/listinfo/r-sig-debian
> or, via email, send a message with subject or body 'help' to
>    r-sig-debian-request <at> r-project.org
> 
> You can reach the person managing the list at
>    r-sig-debian-owner <at> r-project.org
> 
> When replying, please edit your Subject line so it is more specific
> than "Re: Contents of R-SIG-Debian digest..."
> 
> 
> Today's Topics:
> 
>   1. Re: R Base installation not working (Marius Barnsley)
> 
> 
(Continue reading)

Marius Barnsley | 15 Aug 08:19 2015
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Re: R Base installation not working

I am using Ubuntu 10.04 and have tried to download R-base with the
following command:

sudo apt-get install r-base

and the following happens:

Reading package lists... Done
Building dependency tree
Reading state information... Done
Package r-base is not available, but is referred to by another package.
This may mean that the package is missing, has been obsoleted, or
is only available from another source
E: Package r-base has no installation candidate

How do I get around this?

On 15 August 2015 at 15:54, Marius Barnsley <mariusbarnsley <at> gmail.com>
wrote:

> I am using Ubuntu 10.04 and have tried to download R-base with the
> following command:
>
> sudo apt-get install r-base
>
> and the following happens:
>
> Reading package lists... Done
> Building dependency tree
> Reading state information... Done
(Continue reading)

nospam@altfeld-im.de | 26 Jul 18:49 2015
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R3.2.1: tools::testInstalledBasic("both") fails since no tests are installed by default. Confirmed?

Dear R-SIG-Debian team,

I have installed R3.2.1 as described at cran.r-project.org
on my Ubuntu 14.04 using the Ubuntu packages for R (r-base and
r-base-dev) from the package URL

deb http://<my.favorite.cran.mirror>/bin/linux/ubuntu trusty/

I wanted to test the installation using the R commands:

    Sys.setenv(LC_COLLATE = "C", LANGUAGE = "en")
    library("tools")
    testInstalledBasic("both")

"testInstalledBasic()" failed with the error message:

    Error in setwd(file.path(R.home(), "tests")) : 
      cannot change working directory

"R.home()" results in

    [1] "/usr/lib/R"

I looked into this folder and could not find test sub folder "tests"
where the base tests are supposed to be stored.

My questions:

1. Can you please confirm that the "tests" sub folder is no part of the
   packages? Otherwise I have to diagnose an installation problem on
(Continue reading)

Miroslava Kavgic | 22 Jul 04:11 2015
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Installing randomForest under Red Hat Linux 6

Hello,

I'm trying to install randomForest package under Red Hat (Acenet
environment).

I've typed the command: install.packages("randomForest") but this command
is not recognized.

Any suggestions?

Many thanks,
Regards,
Miroslava

--

-- 
Miroslava Kavgic, PhD
Postdoctoral Fellow
Renewable Energy Storage Laboratory
Dalhousie University, Mechanical Engineering

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Austin Putz | 14 Jun 00:46 2015
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Re: Cannot install R on Ubuntu 14.04 LTS

This issue has been solved. I didn't change to trusty when I updated
Ubuntu.

I now have the following lines in my /etc/apt/sources.list file:

deb http://cran.utstat.utoronto.ca/bin/linux/ubuntu trusty/

and

deb http://mirror.pnl.gov/ubuntu/ trusty-backports main restricted universe

I also installed the keys described on http://mirror.las.iastate.edu/CRAN/
but I'm not sure if I needed them or not.

Thanks for the help.

Austin

On Sat, Jun 13, 2015 at 5:33 PM, Michael Rutter <mar36 <at> psu.edu> wrote:

> Austin,
>
> You need to cc r-sig-debian in order to see the replies.  I would just do
> one wrap-up email so people can see that there was a solution.
>
> Thanks,
> Michael
>
> On 06/13/2015 05:58 PM, Austin Putz wrote:
>
(Continue reading)

Austin Putz | 13 Jun 22:17 2015
Picon

Cannot install R on Ubuntu 14.04 LTS

Hello everyone,

I've spent the last 2 days trying to install base R on my Ubuntu 14.04 LTS
machine. I even just wiped my entire computer and reinstalled the operating
system thinking that was the problem (since some people have problems
updating R).

So far I've tried to follow this link exactly that has instructions:

http://mirror.las.iastate.edu/CRAN/

Since I just reinstalled Ubuntu I figured I would have no problems. I was
just wondering if anyone else has had this happen to them. I was getting an
error while doing sudo apt-get update that said:

....public key not available iastate... NO_PUBKEY 51716619E084DAB9

So I followed that link above and installed the keys (as far as I know).

The current error while trying sudo apt-get install r-base (not installed
previously, fresh OS) is:

------------------------------------------------------------------------------------------------------------------------
Sat Jun 13 : ~ $ sudo apt-get install r-base
Reading package lists... Done
Building dependency tree
Reading state information... Done
Some packages could not be installed. This may mean that you have
requested an impossible situation or if you are using the unstable
distribution that some required packages have not yet been created
(Continue reading)

Abed W. Ayyad | 31 May 08:48 2015
Picon

Re: Installing TMAP in R Studio on Linux Mint

Copied and sent from another address:

On 31 May 2015 at 09:43, Abed W. Ayyad <imraualkays <at> gmail.com> wrote:

> To the R-Sig-Debian list:
>
> Hello, this is my first post to the list and I hope that making it short
> and swift does not make it come across as abrupt or rude.
>
> I'm having trouble installing the TMAP package on R-Studio on my build of
> Linux Mint. I was able to narrow this down to the lack of the libgeos-dev
> library, which I tried to install via the terminal, but I constantly get
> the "unable to locate package" error. I've also changed/added repositories
> several times over the past week or so.
>
> Is there anything that can be done for this problem? Has the libgeos-dev
> library been taken off of the repositories?
>
> Best regards,
>
> Abed Ayyad
>
> --
> For very rudimentary descriptive statistics on Doha:
> http://notesfromdoha.blogspot.com/
>

--

-- 
For very rudimentary descriptive statistics on Doha:
http://notesfromdoha.blogspot.com/
(Continue reading)

Sean Southard | 11 May 22:49 2015
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Foreach %dopar% operator incorrectly load balancing

Dear R-SIG-Debian,

I am using R version 3.1.2 with rstudio-server 0.98.113 on debian build
3.2.0-4-amd64 #1 SMP Debian 3.2.68-1+deb7u1 x86_64 GNU/Linux.

I often use the %dopar% operator in from the foreach package to run code in
parallel. However, the only other use on the box seemingly installed a few
items and suddenly %dopar% will use far more than the number of cores I am
specifying and seems to load balance between all of them. The issue with
this is that it doesn't actually seem to perform non-trivial tasks at all
anymore.

This is an example of testing code I've been using for testing the %dopar%
 loop.

library(iterators)
library(foreach)
library(doParallel)
library(Parallel)
nCores <- 4

cl <- makeCluster(nCores)
registerDoParallel(cl)
trials = 100000

x <- iris[which(iris[,5] != "setosa"),c(1,5)]
    t2 <- system.time({
    r2 <- foreach(icount(trials), .combine=cbind) %dopar% {
    ind <- sample(100,100,replace= TRUE)
    results1 <- glm(x[ind,2]~x[ind,1],family=binomial(logit))
(Continue reading)


Gmane