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jonathan_li@agilent.com

2002-Jul-09 17:39 UTC

[R] RE: mvtnorm package installation failure

Hi,

Thank you for the tip.

I tried to re-intall R from Debian "stable", in which R's version
is 1.4.0. And the installation
of "mvtnorm" works. 

I then re-installed R yet again from Debian "unstable" (woody), in
which R's version is 1.5.1.
The installation of "mvtnorm" fails again with the same error message.
Another package that
failed with the same error message is "mclust". 
>From these phenomena, I suspect that the problem is with the Debian version
of R 1.5.1. Can someonepoint out a fix?  

Thanks in advance.

Regards,
Jonathan

Jonathan Qiang Li, Ph.D.
Statistician
Agilent Labs
Palo Alto, CA
USA


-----Original Message-----
From: Torsten Hothorn [mailto:Torsten.Hothorn at rzmail.uni-erlangen.de]
Sent: Sunday, June 30, 2002 11:55 PM
To: Jonathan Li
Subject: Re: mvtnorm package installation failure

> Hi, I want to thank you in advance for any assistance you may give: I
> had
> trouble installing the mvtnorm package. Here is the error message I
> encountered:
> 
> R CMD INSTALL mvtnorm
> * Installing *source* package 'mvtnorm' ...
> ** libs
> gcc -shared  -o mvtnorm.so mvt.o   -L/usr/lib/gcc-lib/i386-linux/2.95.4
> -lreadline -ldl -lncurses -lg2c-pic -lm -L/usr/lib/R/bin -lR
> /usr/bin/ld: cannot find -lreadline
> collect2: ld returned 1 exit status
> make: *** [mvtnorm.so] Error 1
> ERROR: compilation failed for package 'mvtnorm'
> 
> I am using Debian Linux 2.20 on a Intel machine. R version is 1.5.0.
> I have not seen this kind of error before. Any hint is highly
> appreciated!
looks like an R installation problem. did you compile R yourself and what
did `make check' say?

Torsten
> 
> Best Regards,
> Jonathan
> 
> 
> -- 
> Jonathan Q. Li, PhD
> Agilent Technologies Laboratory
> Palo Alto, California, USA
> -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-
r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html
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A.J. Rossini

2002-Jul-09 17:56 UTC

head link

[R] RE: mvtnorm package installation failure

>>>>> "jonathan" == jonathan li <jonathan_li at
agilent.com> writes:
    jonathan> Hi,
    jonathan> Thank you for the tip.

    jonathan> I tried to re-intall R from Debian "stable", in which
R's version is 1.4.0. And the installation
    jonathan> of "mvtnorm" works. 

    jonathan> I then re-installed R yet again from Debian
"unstable" (woody), in which R's version is 1.5.1.
    jonathan> The installation of "mvtnorm" fails again with the
same error message. Another package that
    jonathan> failed with the same error message is "mclust". 

    >> From these phenomena, I suspect that the problem is with the Debian
version of R 1.5.1. Can someone
    jonathan> point out a fix?  


It's not Debian:

>
install.packages("mvtnorm","/home/faculty/rossini/lib/R")trying URL `http://cran.r-project.org/src/contrib/PACKAGES'
Content type `text/plain; charset=iso-8859-1' length 78331 bytes
opened URL
.......... .......... .......... .......... ..........
.......... .......... ......
downloaded 76Kb

trying URL
`http://cran.r-project.org/src/contrib/mvtnorm_0.5-5.tar.gz'
Content type `application/x-tar' length 23578 bytes
opened URL
.......... .......... ...
downloaded 23Kb

* Installing *source* package 'mvtnorm' ...
** libs
g77   -fPIC  -g -O2 -c mvt.f -o mvt.o
gcc -shared  -o mvtnorm.so mvt.o
-L/usr/lib/gcc-lib/i386-linux/2.95.4 -lreadli 
ne -ldl -lncurses -lg2c-pic -lm -L/usr/lib/R/bin -lR
** R
** help
 >>> Building/Updating help pages for package `mvtnorm'
     Formats: text html latex example 
  Mvnorm                            text    html    latex   example
  mvtnorm-internal                  text    html    latex
  pmvnorm                           text    html    latex   example
  pmvt                              text    html    latex   example
* DONE (mvtnorm)

* DONE (INSTALL)

Delete downloaded files (y/N)? u
The packages are in /tmp/RinstdirR552dS66334873> 

I think you might need the readline devel package.  Maybe try 

        apt-get install libreadline4-dev

to install things?  (or you might need 

        apt-get install libreadline4

?)

best,
-toniy



    jonathan> Thanks in advance.

    jonathan> Regards,
    jonathan> Jonathan

    jonathan> Jonathan Qiang Li, Ph.D.
    jonathan> Statistician
    jonathan> Agilent Labs
    jonathan> Palo Alto, CA
    jonathan> USA


    jonathan> -----Original Message-----
    jonathan> From: Torsten Hothorn [mailto:Torsten.Hothorn at
rzmail.uni-erlangen.de]
    jonathan> Sent: Sunday, June 30, 2002 11:55 PM
    jonathan> To: Jonathan Li
    jonathan> Subject: Re: mvtnorm package installation failure


    >> Hi, I want to thank you in advance for any assistance you may give:
I
    >> had
    >> trouble installing the mvtnorm package. Here is the error message I
    >> encountered:
    >> 
    >> R CMD INSTALL mvtnorm
    >> * Installing *source* package 'mvtnorm' ...
    >> ** libs
    >> gcc -shared  -o mvtnorm.so mvt.o  
-L/usr/lib/gcc-lib/i386-linux/2.95.4
    >> -lreadline -ldl -lncurses -lg2c-pic -lm -L/usr/lib/R/bin -lR
    >> /usr/bin/ld: cannot find -lreadline
    >> collect2: ld returned 1 exit status
    >> make: *** [mvtnorm.so] Error 1
    >> ERROR: compilation failed for package 'mvtnorm'
    >> 
    >> I am using Debian Linux 2.20 on a Intel machine. R version is
1.5.0.
    >> I have not seen this kind of error before. Any hint is highly
    >> appreciated!

    jonathan> looks like an R installation problem. did you compile R
yourself and what
    jonathan> did `make check' say?

    jonathan> Torsten

    >> 
    >> Best Regards,
    >> Jonathan
    >> 
    >> 
    >> -- 
    >> Jonathan Q. Li, PhD
    >> Agilent Technologies Laboratory
    >> Palo Alto, California, USA
    >> 
    jonathan>
-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-
    jonathan> r-help mailing list -- Read
http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html
    jonathan> Send "info", "help", or
"[un]subscribe"
    jonathan> (in the "body", not the subject !)  To:
r-help-request at stat.math.ethz.ch
    jonathan>
_._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._._


-- 
A.J. Rossini				Rsrch. Asst. Prof. of Biostatistics
U. of Washington Biostatistics		rossini at u.washington.edu	
FHCRC/SCHARP/HIV Vaccine Trials Net	rossini at scharp.org
-------------- http://software.biostat.washington.edu/ ----------------
FHCRC: M: 206-667-7025 (fax=4812)|Voicemail is pretty sketchy/use Email
UW:   Th: 206-543-1044 (fax=3286)|Change last 4 digits of phone to FAX
(my tuesday/wednesday/friday locations are completely unpredictable.)



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r-help mailing list -- Read http://www.ci.tuwien.ac.at/~hornik/R/R-FAQ.html
Send "info", "help", or "[un]subscribe"
(in the "body", not the subject !)  To: r-help-request at
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