Sorry guys, I got it to work. I had a typo in the install.packages(). I should use repos=NULL instead of repos="null". Ying
 From: ying_chen@live.com
To: bioconductor@r-project.org
Date: Wed, 27 Mar 2013 14:49:15 -0400
Subject: [BioC]  BSgenome.Dmelanogaster.UCSC.dm3 package for R 3.0.0 beta?

Hi guys, Is there a BSgenome.Dmelanogaster.UCSC.dm3 package for R 3.0.0 beta? I tried one under BioC devel (http://www.bioconductor.org/packages/2.12/data/annotation/html/BSgenome.Dmelanogaster.UCSC.dm3.html), but had no success. > install.packages("BSgenome.Dmelanogaster.UCSC.dm3_1.3.19.tar.gz",repos="null",type="source")
Warning: unable to access index for repository null/src/contrib
Warning message:
package ‘BSgenome.Dmelanogaster.UCSC.dm3_1.3.19.tar.gz’ is not available (for R version 3.0.0 beta) 
> sessionInfo()
R version 3.0.0 beta (2013-03-24 r62395)
Platform: x86_64-w64-mingw32/x64 (64-bit)locale:
[1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252   
[3] LC_MONETARY=English_United States.1252 LC_NUMERIC=C                          
[5] LC_TIME=English_United States.1252    attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     loaded via a namespace (and not attached):
[1] tools_3.0.0
> 
Thanks, Ying 		 	   		  
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