[BioC] (no subject)

[Bronwyn Carlisle]

Hi, I've been trying to install a number of Bioconductor packages and 
keep getting error messages.  Can someone tell me a)what I'm doing 
wrong, b)How to fix it.  I'm using a Mac G4 and OS X 10.3, on which I 
have installed RAqua. As I only installed it and the base Bioconductor 
package yesterday I am assuming I have the latest Bioc.R thing - can't 
figure out how to get it if not. On base install, XML and MAGEML did 
not install properly.

Example of me trying to install the database package :
 > getBioC(libName="database", relLevel="release", getAllDeps=TRUE)
Running getBioC version 1.2.46....
If you encounter problems, first make sure that
you are running the latest version of getBioC()
which can be found at: www.bioconductor.org/getBioC.R

Please direct any concerns or questions to 
bioconductor at stat.math.ethz.ch.

Please select an installation directory:
1:~/Library/RAqua/library
2:/Applications/StartR.app/RAqua.app/Contents/library
Selection: 2

Synching your local package management information ...
Packages which have been removed:
	XML
	MAGEML
	

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 XML from 
http://www.bioconductor.org//CRANrepository"
[1] "Download complete."
[1] "Installing XML"
Warning message:
Installation of package XML had non-zero exit status in: 
installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce)
[1] "Attempting to download AnnBuilder from 
http://www.bioconductor.org/repository/release1.3/package/Source"
[1] "Download complete."
[1] "Installing AnnBuilder"
Warning message:
Installation of package AnnBuilder had non-zero exit status in: 
installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce)
[1] "Attempting to download SAGElyzer from 
http://www.bioconductor.org/repository/release1.3/package/Source"
[1] "Download complete."
[1] "Installing SAGElyzer"
[1] "Installation complete"
[1] "Attempting to download Rdbi from 
http://www.bioconductor.org//CRANrepository"
[1] "Download complete."
[1] "Installing Rdbi"
[1] "Installation complete"
[1] "Attempting to download RdbiPgSQL from 
http://www.bioconductor.org/repository/release1.3/package/Source"
[1] "Download complete."
[1] "Installing RdbiPgSQL"
Warning message:
Installation of package RdbiPgSQL had non-zero exit status in: 
installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce)
 From URL:  http://www.bioconductor.org//CRANrepository
	XML version 0.95-4
	Rdbi version 0.1-2

 From URL:  
http://www.bioconductor.org/repository/release1.3/package/Source
	AnnBuilder version 1.3.3
	SAGElyzer version 1.3.0
	RdbiPgSQL version 1.0.2

Bronwyn Carlisle
Biochemistry Department
University of Otago
Dunedin
New Zealand

Tel 64 3 479 7704
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