[BioC] utils required for EBarrays

[A.J. Rossini]

As I tried to write clearly in my last email about the upcoming
release, you MUST use the Devel branch of R with packages in the devel
branch of Bioconductor.

best,
-tony


<Arne.Muller at aventis.com> writes:

> Hello,
>
> I'm running BioC 1.3 and R 1.8.1. I've tried  to install the EBarrays
> pacckage from the devel branch, but get the following error:
>
>> install.packages2('EBarrays', force=T)
> Note: You did not specify a download type.  Using a default value of: Source 
> This will be fine for almost all users
>  
> [1] "Attempting to download EBarrays from
> http://www.bioconductor.org/repository/devel/package/Source"
> [1] "Download complete."
> [1] "Installing EBarrays"
> * Installing *source* package 'EBarrays' ...
> ** libs
> gcc -I/tgx/soft/lib/R/include  -I/usr/local/include -D__NO_MATH_INLINES
> -mieee-fp  -fPIC  -g -O2 -c ebarrays.c -o ebarrays.o
> gcc -shared -L/usr/local/lib -o EBarrays.so ebarrays.o
> -L/tgx/soft/lib/R/bin -lR
> ** R
> ** data
> ** demo
> ** inst
> ** save image
> Error: Requires utils to run properly
> In addition: Warning message: 
> There is no package called 'utils' in: library(package, character.only =
> TRUE, logical = TRUE, warn.conflicts = warn.conflicts,  
> Execution halted
> /tgx/soft/lib/R/bin/INSTALL: line -116:  2881 Broken pipe             cat
> "/tgx/soft/lib/R/library/EBarrays/R/EBarrays"
> ERROR: execution of package source for 'EBarrays' failed
> ** Removing '/tgx/soft/lib/R/library/EBarrays'
> Warning message: 
> Installation of package EBarrays had non-zero exit status in:
> installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce) 
>>From URL:  http://www.bioconductor.org/repository/devel/package/Source
> 	EBarrays version 1.0-17
>
> I cannot find the utils package, where is it locatd in the BioC repositories?
> Can I install EBarrays without installing the complete develompent branch?
>
> 	kind regards + thank for your help,
>
> 	Arne
>
> --
> Arne Muller, Ph.D.
> Toxicogenomics, Aventis Pharma
> arne dot muller domain=aventis com
>
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>

-- 
rossini at u.washington.edu            http://www.analytics.washington.edu/ 
Biomedical and Health Informatics   University of Washington
Biostatistics, SCHARP/HVTN          Fred Hutchinson Cancer Research Center
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