[BioC] gcrma and unable to access brainarray.mbni.med.umich.edu...

[James W. MacDonald]

Loren Engrav wrote:
> When I run gcrma I get
> 
>> AB_gcrmaNumhom2 <- gcrma(AA_ReadAffyNumhom, fast = FALSE)
> Warning: unable to access index for repository
> http://brainarray.mbni.med.umich.edu/bioc/bin/macosx/leopard/contrib/2.9
> Warning: unable to access index for repository
> http://brainarray.mbni.med.umich.edu/bioc/bin/macosx/leopard/contrib/2.9
> trying URL 
> 'http://bioconductor.org/packages/2.4/data/annotation/bin/macosx/leopard/con
> trib/2.9/porcinecdf_2.4.0.tgz'
> Content type 'application/x-gzip' length 1879945 bytes (1.8 Mb)
> opened URL
> ==================================================
> downloaded 1.8 Mb
> 
> If I try to go to 
> <http://brainarray.mbni.med.umich.edu/bioc/bin/macosx/leopard>
> Safari say "page cannot be found"
> 
> Ignore this? Or do I now have a problem?

Ignore it, unless you want to use MBNI packages (which it seems you do 
not want to do).

Best,

Jim


> 
> =======================================
>> sessionInfo()
> R version 2.9.0 (2009-04-17)
> x86_64-apple-darwin9.6.0
> 
> locale:
> en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
> 
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
> 
> other attached packages:
> [1] porcineprobe_2.4.0  AnnotationDbi_1.6.0 porcinecdf_2.4.0    gcrma_2.16.0
> Biostrings_2.12.1   IRanges_1.2.0
> [7] affy_1.22.0         Biobase_2.4.1
> 
> loaded via a namespace (and not attached):
> [1] affyio_1.12.0        DBI_0.2-4            preprocessCore_1.6.0
> RSQLite_0.7-1        splines_2.9.0
> [6] tools_2.9.0 
> ===================
> 
> Thank you
> 
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-- 
James W. MacDonald, M.S.
Biostatistician
Douglas Lab
University of Michigan
Department of Human Genetics
5912 Buhl
1241 E. Catherine St.
Ann Arbor MI 48109-5618
734-615-7826