[R-sig-Debian] Non-zero exit status for survival package

[Patrick Richardson]

Fair enough Dirk,

The sarcasm isn't warranted, however the console output is below. I
apologize for the paucity of information in my previous post, however
the error message I get from R (shown below in it "entirety") is also
sparse in its information.


R version 2.11.0 (2010-04-22)
Copyright (C) 2010 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

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> install.packages("survival")
Warning in install.packages("survival") :
  argument 'lib' is missing: using '/usr/local/lib/R/site-library'
trying URL
'http://R-Forge.R-project.org/src/contrib/survival_2.35-9.tar.gz'
Content type 'application/x-gzip' length 672383 bytes (656 Kb)
opened URL
==================================================
downloaded 656 Kb

The downloaded packages are in
	‘/tmp/RtmpxVKTiu/downloaded_packages’
Warning message:
In install.packages("survival") :
  installation of package 'survival' had non-zero exit status
> 


On Sun, 2010-05-09 at 14:30 -0500, Dirk Eddelbuettel wrote:
> On 9 May 2010 at 17:54, xplaner800 at comcast.net wrote:
> | I'm using 64-bit Karmic. I've tried to install many packages (including, survival, impute, samr) and others, all with the same resulting message of terminating with non-zero exit status. 
> 
> Our mid-reading machine is currently undergoing maintenance so unless
> you actually show us __the error message you are getting__ there is not much
> we can do to help.
> 
> For what it is worth, many of us use Ubuntu or Debian daily on i386 and amd64
> or other systems and we regularly install packages.  You'll get there too,
> but you to do a little better so that we can help you.
> 
> There is are FAQs on-line about 'how to ask good questions', see
> e.g. http://catb.org/~esr/faqs/smart-questions.html for one such guide.
> 
> Dirk
>  
> 
> | Patrick 
> | ----- Original Message ----- 
> | From: "Michael Rutter" <mar36 at psu.edu> 
> | To: r-sig-debian at r-project.org 
> | Sent: Sunday, May 9, 2010 10:51:02 AM GMT -05:00 US/Canada Eastern 
> | Subject: Re: [R-sig-Debian] Non-zero exit status for survival package 
> | 
> | Patrick, 
> | 
> | Can you give an example of a package that you have tried to install?  Or 
> | you using 32 or 64-bit Karmic? 
> | 
> | Thanks, 
> | Michael 
> | 
> | On 05/09/2010 10:35 AM, Patrick Richardson wrote: 
> | > I'm running R 2.11 on Karmic. I'm having difficulty installing quite a 
> | > few packages with the returned error message of "installation of package 
> | > "[whatever the packages happens to be]" had non-zero exit status. I know 
> | > this message sometimes is caused by incorrect or missing java packages 
> | > and the like. I generally don't have issues with the installation of R 
> | > or R packages but I don't know where to start on this. I have looked to 
> | > ensure that I have fortran and C++ compilers installed. I want to (if I 
> | > can) avoid indiscriminately installing packages "until it starts 
> | > working". I'm not sure how to go about troubleshooting this. Could 
> | > anyone lend a hand, please? 
> | > 
> | > Thanks, 
> | > Patrick 
> | > 
> | >> sessionInfo() 
> | > R version 2.11.0 (2010-04-22) 
> | > x86_64-pc-linux-gnu 
> | > 
> | > locale: 
> | >   [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C 
> | > LC_TIME=en_US.UTF-8 
> | >   [4] LC_COLLATE=en_US.UTF-8     LC_MONETARY=C 
> | > LC_MESSAGES=en_US.UTF-8 
> | >   [7] LC_PAPER=en_US.UTF-8       LC_NAME=C 
> | > LC_ADDRESS=C 
> | > [10] LC_TELEPHONE=C             LC_MEASUREMENT=en_US.UTF-8 
> | > LC_IDENTIFICATION=C 
> | > 
> | > attached base packages: 
> | > [1] stats     graphics  grDevices utils     datasets  methods 
> | > base 
> | > 
> | > loaded via a namespace (and not attached): 
> | > [1] tools_2.11.0 
> | > 
> | >> capabilities() 
> | >      jpeg      png     tiff    tcltk      X11     aqua http/ftp  sockets 
> | > libxml     fifo   cledit 
> | >      TRUE     TRUE     TRUE     TRUE     TRUE    FALSE     TRUE     TRUE 
> | > TRUE     TRUE     TRUE 
> | >     iconv      NLS  profmem    cairo 
> | >      TRUE     TRUE     TRUE     TRUE 
> | > 
> | > _______________________________________________ 
> | > R-SIG-Debian mailing list 
> | > R-SIG-Debian at r-project.org 
> | > https://stat.ethz.ch/mailman/listinfo/r-sig-debian 
> | 
> | -- 
> | Dr. Michael A. Rutter 
> | School of Science 
> | Penn State Erie, The Behrend College 
> | Station Road 
> | Erie, PA 16563 
> | http://math.bd.psu.edu/faculty/rutter 
> | 
> | _______________________________________________ 
> | R-SIG-Debian mailing list 
> | R-SIG-Debian at r-project.org 
> | https://stat.ethz.ch/mailman/listinfo/r-sig-debian 
> | 
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> | 
> | 
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