[R-sig-Debian] [Solved] Re: Problems in installing R -packages

[Henri Losoi]

Solved! 

Upgraded to 2.15, working better. My shared servers just running wrong
R version, sorry noise. Thank you for your input.

h

On Mon, Aug 27, 2012 at 08:10:20AM -0500, Dirk Eddelbuettel wrote:
> 
> On 27 August 2012 at 15:20, Henri Losoi wrote:
> | Hallo!
> | 
> | @Johannes: Nein, ich habe das nicht gemacht [1]. Jakson Aquino, der Autor
> | des Vimcom, hat Ubuntu 12.04 mit R 12.15 benutzt, kein Problem mit noexec.
> | 
> | @ALL: The author of Vimcom was unable to comment about the problem
> | with R 2.11. He has only tested R 2.15, not 2.11 that I am running.
> 
> Why would you want to run R 2.11 which is two years out of date?  
> 
> Why do you expect us to support an outdated version?
> 
> Dirk
> 
> | I consulted some people in Freenode's channels such as R and Vim where we
> | spotted some errors with built-vars [2]. For example, the "-lpthreads"
> | -flag missing on the line 15 of the latter example and some err dumps
> | [3], also some in my twitter -account close to the tweets.
> | 
> | We are now stuck to the last err-dump [3], apparently a problem with
> | linking and gcc. If you know the solution to the problem, please, send
> | the patches to Jakson [4][5] because the problem is still with the
> | Vim-R-plugin, thank you.
> | 
> | -- 
> | M.f.G.
> | Henri Losoi
> | 
> | References
> | [1] https://twitter.com/heoaLov/status/240054739402891264
> | [2] https://twitter.com/heoaLov/status/238923344550981633
> | [3] http://koti.kapsi.fi/~he/SO/err_vimcom
> | [4] http://www.vim.org/scripts/script.php?script_id=2628
> | [5] http://www.vim.org/scripts/script.php?script_id=2628
> | 
> | On Mon, Aug 27, 2012 at 11:00:33AM +0200, Johannes Ranke wrote:
> | > Henry,
> | > 
> | > On my end (Debian squeeze), vimcom installs fine (see below).
> | > 
> | > However, if I remount my /home directory using the "noexec" option and set the 
> | > lib argument in install.packages to a place on /home, I get a similar error 
> | > message (in German...), about R not being able to load the shared object.
> | > 
> | > So my question would be, did you mount your /home drive using the noexec 
> | > option?
> | > 
> | > Kind regards,
> | > 
> | > Johannes
> | > 
> | > 
> | > ranke at time:~$ R
> | > 
> | > R version 2.15.1 (2012-06-22) -- "Roasted Marshmallows"
> | > Copyright (C) 2012 The R Foundation for Statistical Computing
> | > ISBN 3-900051-07-0
> | > Platform: x86_64-pc-linux-gnu (64-bit)
> | > 
> | > R ist freie Software und kommt OHNE JEGLICHE GARANTIE.
> | > Sie sind eingeladen, es unter bestimmten Bedingungen weiter zu verbreiten.
> | > Tippen Sie 'license()' or 'licence()' für Details dazu.
> | > 
> | > R ist ein Gemeinschaftsprojekt mit vielen Beitragenden.
> | > Tippen Sie 'contributors()' für mehr Information und 'citation()',
> | > um zu erfahren, wie R oder R packages in Publikationen zitiert werden können.
> | > 
> | > Tippen Sie 'demo()' für einige Demos, 'help()' für on-line Hilfe, oder
> | > 'help.start()' für eine HTML Browserschnittstelle zur Hilfe.
> | > Tippen Sie 'q()', um R zu verlassen.
> | > 
> | > > install.packages("vimcom")
> | > Installiere Paket(e) nach ‘/usr/local/lib/R/site-library’
> | > (da ‘lib’ nicht spezifiziert)
> | > versuche URL 'http://cran.r-project.org/src/contrib/vimcom_0.9-2.tar.gz'
> | > Content type 'application/x-gzip' length 16039 bytes (15 Kb)
> | > URL geöffnet
> | > ==================================================
> | > downloaded 15 Kb
> | > 
> | > * installing *source* package ‘vimcom’ ...
> | > ** Paket ‘vimcom’ erfolgreich entpackt und MD5 Summen überprüft
> | > ** libs
> | > gcc -std=gnu99 -I/usr/share/R/include -DNDEBUG      -fpic  -O3 -pipe  -g  -c 
> | > vimcom.c -o vimcom.o
> | > gcc -std=gnu99 -shared -o vimcom.so vimcom.o -L/usr/lib64/R/lib -lR
> | > installiert nach /usr/local/lib/R/site-library/vimcom/libs
> | > ** R
> | > ** preparing package for lazy loading
> | > ** help
> | > *** installing help indices
> | > ** building package indices
> | > ** testing if installed package can be loaded
> | > 
> | > * DONE (vimcom)
> | > 
> | > Die heruntergeladenen Quellpakete sind in 
> | >         ‘/tmp/RtmpReyLfN/downloaded_packages’
> | > 
> | > 
> | > On Friday 24 August 2012 01:58:41 Henri Losoi wrote:
> | > > Hello,
> | > > err dump [1], perhaps related [2]. Also
> | > > 
> | > > 	$ sudo chown -R xyz:staff ~/R
> | > > 	# sudo su; su xyz; groups
> | > > 	web-content staff
> | > > 
> | > > Not just vim-R-plugin -problem anymore, more pkg -installation -prob,
> | > > doubting perms/group -issue but fixed them in accordance by Dirk's hints.
> | > > 
> | > > What is the problem in installing packages?
> | 
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> -- 
> Dirk Eddelbuettel | edd at debian.org | http://dirk.eddelbuettel.com