Thanks! That worked. I've installed these packages (or the hgu133a versions)
in the past using biocLite. So, I assumed they were part of bioconductor.

On Thu, Mar 31, 2011 at 8:54 PM, Vincent Carey
<stvjc@channing.harvard.edu>wrote:

> This is not a Bioconductor package, so biocLite will not work.  I had
> success with
>
> > install.packages("hgu133plus2hsentrezgprobe", repos="
> http://nugo-r.bioinformatics.nl/2.7/bioc/")
>
> > sessionInfo()
> R version 2.13.0 Under development (unstable) (2011-03-01 r54628)
> Platform: x86_64-apple-darwin10.4.0/x86_64 (64-bit)
>
> locale:
> [1] C
>
> attached base packages:
> [1] stats     graphics  grDevices datasets  tools     utils     methods
> [8] base
>
> other attached packages:
> [1] weaver_1.17.0   codetools_0.2-8 digest_0.4.2
>
>
> On Thu, Mar 31, 2011 at 7:48 PM, Obi Griffith <olgriffith@lbl.gov> wrote:
>
>> Hi all,
>>
>> I am trying to install libraries: "hgu133plus2hsentrezgprobe" and
>> "hgu133plus2hsentrezg.db".
>>
>> I tried:
>> > biocLite("hgu133plus2hsentrezg.db")
>> Using R version 2.11.1, biocinstall version 2.6.9.
>> Installing Bioconductor version 2.6 packages:
>>
>> But, get the error:
>> Error : package 'AnnotationDbi' 1.10.2 was found, but >= 1.12.0 is
>> required
>> by 'hgu133plus2hsentrezg.db'
>>
>> I tried updating 'AnnotationDbi'. But it seems this is the most up to date
>> version for R version 2.11.1, Bioconductor version 2.6.
>>
>>
>> So, I installed the most current version of R (2.12.2). Now, AnnotationDbi
>> is at the required version (1.12.0). But, when I go to install
>> 'hgu133plus2hsentrezg.db':
>> > biocLite("hgu133plus2hsentrezgprobe")
>> Using R version 2.12.2, biocinstall version 2.7.4.
>> Installing Bioconductor version 2.7 packages:
>>
>> I get the following error:
>> package ‘hgu133plus2hsentrezgprobe’ is not available
>>
>>
>> This seems like a catch-22. To get the required AnnotationDbi for
>> 'hgu133plus2hsentrezg.db' I need to install a version of R/Bioconductor
>> that
>> no longer contains the 'hgu133plus2hsentrezg.db'.
>>
>> Any suggestions?
>>
>> --
>> Obi L. Griffith, PhD
>> Post-doctoral fellow
>> Lawrence Berkeley Laboratory
>> Life Sciences Division, Cancer & DNA Damage Responses
>> One Cyclotron Rd.
>> Mailstop: 977-250
>> Berkeley, CA 94720
>> (510) 495-2841
>> www.obigriffith.org
>>
>>        [[alternative HTML version deleted]]
>>
>>
>> _______________________________________________
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>>
>
>


-- 
Obi L. Griffith, PhD
Post-doctoral fellow
Lawrence Berkeley Laboratory
Life Sciences Division, Cancer & DNA Damage Responses
One Cyclotron Rd.
Mailstop: 977-250
Berkeley, CA 94720
(510) 495-2841
www.obigriffith.org

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