David Ibarra Gómez | 22 Oct 10:22 2014
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Problems to compile examples of RInside

Hello,

                I have some problems to migrate to R  >3.0 my devel machine (R.2.15.2). So I decided to start from scratch with
a brand new virtual machine.

Downloaded latest network install of debian testing, not stable (jessie/sid, SMP Debian 3.16.3-2
(2014-09-20) x86_64 GNU/Linux) installed only with ssh-server and basic utilities (no X).

Then I installed R by:

apt-get install r-base-dev

Then from R, I installed the needed (for me) packages by:

install.packages(c("Rcpp","RInside","forecast", "quadprog", "tseries", "fracdiff", "zoo", "RcppArmadillo","randomForest","RInside","lubridate","quantmod","nnet","caret"),type="source")

Session info extract (Rcpp and RInside libraries loaded):

R version 3.1.1 (2014-07-10)
Platform: x86_64-pc-linux-gnu (64-bit)

locale:
[1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8       LC_NAME=C
[9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:
(Continue reading)

Ali Youssef | 30 Sep 20:09 2014

Re: String Kernel for R 3.1.1


Dear all , 

May you inform me how  to use the function of gapweightkernel() from stringkernel Library . where the
library is not for R 3.1.1 . I am using R 3.1.1 .

sincerely 
 		 	   		   		 	   		  
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Miguel Angel Barros | 30 Sep 14:24 2014
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error in Ubuntu

Hello,
I've got this error while I'm try to install R on Ubuntu 12.04. The cran
that I used was from Argentina.
"E:Type 'http://cran.r-project.org/bin/linux/ubuntu' is not known on line
60 in source list /etc/apt/sources.list  "

So, please, Could everyone help me with this error.

Thank you so much

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Matthieu | 27 Sep 21:08 2014
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r-cran-rgdal: dependency on libgdal1 unsatisfied in ubuntu 12.04?

Hi

I am trying to install the rgdal package through r-cran-rgdal (I had 
added the ppa), and run into an error in Ubuntu 12.04:
r-cran-rgdal : Dépend: libgdal1 (>= 1.9.0) mais il n'est pas installable

in English, libgdal1 1.9 does not seem available in Ubuntu 12.04 (I 
think version 1.7) comes.

And indeed, a:
$sudo apt-get install  libgdal1

Gives also an error message, saying libgdal1 not available, but 
suggesting libgdal1h, although installing the latter does not solve 
anything.

I looked into several forums, tried to install from several  ppas, but 
was not able to get it working. Would someone have an idea how to 
install this unsatisfied dependency?

Thanks!

Matthieu

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Matt Dowle | 26 Sep 19:00 2014

configure: error: linking to Fortran libraries from C fails


Hi all,

Nice one for a Friday afternoon ...

I'm trying to follow this section of the manual :

http://cran.r-project.org/doc/manuals/r-devel/R-exts.html#Using-Undefined-Behaviour-Sanitizer

to build R-devel (as of a few hours ago: rev 66684) with 
-fsanitize=undefined,address.

My OS is Linux Mint Debian Edition.  To get gcc-4.9 I added Debian 
testing to my apt sources and ran :

    sudo apt-get install gcc-4.9, g++-4.9 gfortran-4.9

in the root of a clean Rtrunk.  I then started simple with just ASAN 
first of all :

./configure CC="gcc-4.9 -std=gnu99 -fsanitize=address" 
CFLAGS="-fno-omit-frame-pointer -O0 -g -Wall -pedantic -mtune=native" 
--without-recommended-packages --enable-strict-barrier 
--disable-byte-compiled-packages

This runs for a while and then returns the following error :

checking for dummy main to link with Fortran 77 libraries... unknown
configure: error: in `/home/mdowle/R/Rtrunk':
configure: error: linking to Fortran libraries from C fails
(Continue reading)

Pratibha Rana | 18 Sep 17:03 2014

difference between install from source and install from repositories

Hi,

What is the difference between the R installation from source and the R
installation from ubuntu repositories. Specifically when I install
R-3.1.1 on ubuntu 14.04 from sources ldflags and CXXFLAGS are different
that those from the installation from a repo.

Installation from sources:

R CMD config --ldflags

-Wl,--export-dynamic -fopenmp  -L/home/prana/prana_R/third-party/install/lib/R/lib -lR -lrt -ldl -lm

R CMD config CXXFLAGS

Installation from repo:

 R CMD config --ldflags

-Wl,--export-dynamic -fopenmp  -L/usr/lib/R/lib -lR -lpcre -llzma -lbz2 -lz -lrt -ldl -lm

R CMD config CXXFLAGS

-g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security
-D_FORTIFY_SOURCE=2 -g

These are the steps that I followed to install from sources

./configure  --enable-R-shlib --with-x=no --with-readline=no
--prefix=/home/prana/software/install/
(Continue reading)

Matt Dowle | 13 Sep 17:22 2014

Picking 'rgl' as source package instead of 'r-cran-rgl'

Hi,

$ more /etc/apt/sources.list.d/additional-repositories.list
deb http://www.stats.bris.ac.uk/R/bin/linux/debian wheezy-cran3/
deb-src http://www.stats.bris.ac.uk/R/bin/linux/debian wheezy-cran3/

$ sudo apt-get update

$ sudo apt-get install r-cran-rgl      # works great

$ sudo apt-get build-dep r-cran-rgl
Reading package lists... Done
Building dependency tree
Reading state information... Done
Picking 'rgl' as source package instead of 'r-cran-rgl'
E: Unable to find a source package for rgl

What have I done wrong?!

Thanks, Matt
Sebastian P. Luque | 14 Aug 23:05 2014
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littler autoloader issue

Hi,

I'm not sure when this started occurring, but now I get:

---<--------------------cut here---------------start------------------->---
$ r -e 'quantile(rnorm(1e5))'
Error in (function (name, package, ...)  : 
  autoloader did not find 'quantile.default' in 'stats'
---<--------------------cut here---------------end--------------------->---

I'm using the latest Debian sid R and littler packages.  Any ideas?

Cheers,

--

-- 
Seb
Luís de Sousa | 11 Aug 17:37 2014
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Is the R package for Ubuntu compiled as a shared library?

Dear all,

I have R 3.1.1 installed on Ubuntu 14.04 from the CRAN repo. Days ago
I decided to give a try to the Eclipse extension for R (StatET). This
extension requires the R packages "rj" and "rj.gd", but these fail to
install no matter what. There is a long thread going on at the StatET
mail-list, the latest details in this message:

http://article.gmane.org/gmane.comp.ide.eclipse.statet/165

Yesterday a user sent a message saying he encountered the same error
after compiling R without the shared library flag (--enable-R-shlib):

http://article.gmane.org/gmane.comp.ide.eclipse.statet/168

So the question comes down to: is the R version packaged for Ubuntu
14.04 compiled with this option or not?

Any other hints that may help solving this problem are also welcome.

Thank you,

Luís

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Keith S Weintraub | 7 Aug 17:55 2014
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Cran instructions for adding mirrors

Folks,
I used the cran instructions for installing R on Linux Mint Maya (here: http://cran.r-project.org/bin/linux/debian/).

Things went well but I got the following error messages:

> ERROR###ERROR###ERROR###ERROR###ERROR###ERROR###ERROR
> W:Failed to fetch
http://cran.mirrors.hoobly.com/dists/raring-backports/main/binary-i386/Packages  404  Not Found
> , W:Failed to fetch
http://cran.mirrors.hoobly.com/dists/raring-backports/restricted/binary-i386/Packages  404 
Not Found
> , W:Failed to fetch
http://cran.mirrors.hoobly.com/dists/raring-backports/universe/binary-i386/Packages  404  Not Found
> , E:Some index files failed to download. They have been ignored, or old ones used instead.

Is there a problem with the "hoobly" mirror (PA), the instructions, Linux Mint Maya update manager or with me?

Here is my sources.list file:

> deb http://packages.linuxmint.com/ maya main upstream import
> deb http://archive.ubuntu.com/ubuntu/ precise main restricted universe multiverse
> deb http://archive.ubuntu.com/ubuntu/ precise-updates main restricted universe multiverse
> deb http://security.ubuntu.com/ubuntu/ precise-security main restricted universe multiverse
> deb http://archive.canonical.com/ubuntu/ precise partner
> # deb http://packages.medibuntu.org/ precise free non-free
> 
> # deb http://archive.getdeb.net/ubuntu precise-getdeb apps
> # deb http://archive.getdeb.net/ubuntu precise-getdeb games
> 
> # Added by KW
(Continue reading)

Raghav Jha | 2 Aug 12:38 2014
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Getting problem while installing R on ubuntu 14.04LTS

Sir/Madam

When I was installing R on my system I got error message like this:

Err http://www.stats.bris.ac.uk/R/bin/linux/ubuntu/ trusty/ r-base-core
3.1.1-1trusty0
  Connection failed
Err http://in.archive.ubuntu.com/ubuntu/ trusty/main automake all
1:1.14.1-2ubuntu1
  Connection failed [IP: 91.189.91.15 80]
E: Failed to fetch
http://in.archive.ubuntu.com/ubuntu/pool/main/a/automake-1.14/automake_1.14.1-2ubuntu1_all.deb
Connection failed [IP: 91.189.91.15 80]

E: Failed to fetch
http://www.stats.bris.ac.uk/R/bin/linux/ubuntu/trusty/r-base-core_3.1.1-1trusty0_amd64.deb
Connection failed

E: Unable to fetch some archives, maybe run apt-get update or try with
--fix-missing?

I am unable to find solution for this problem . Please help.

Thanks & Regards
Raghav Jha

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Gmane