[BioC] package availability for R3.01

[E.M. Lodder]

Hi all,

I'm afraid that doesn't answer my question, both packages are available through the bioconductor website:

http://bioconductor.org/packages/2.6/data/annotation/html/illuminaMousev2BeadID.db.html
and
http://bioconductor.org/packages/release/data/annotation/html/hgu133plus2.db.html

but give this same error message when installing:

> Warning message:
> package 'illuminaMousev2BeadID.db' is not available (for R version
> 3.0.1)

any more ideas?

Elisabeth


-----Original Message-----
From: bioconductor-bounces at r-project.org [mailto:bioconductor-bounces at r-project.org] On Behalf Of Marc Carlson
Sent: woensdag 4 september 2013 22:21
To: bioconductor at r-project.org
Subject: Re: [BioC] package availability for R3.01

Hi Elisabeth,

That package "illuminaMousev2BeadID.db"  is not a bioconductor package and I don't think it ever has been a bioconductor package.  Perhaps someone in the past made a custom package for you and then named it that?  In any case, you can look at this vignette if you need to repeat that process:

http://www.bioconductor.org/packages/release/bioc/vignettes/AnnotationForge/inst/doc/SQLForge.pdf


As for the "hgu133plus2.db" package, you can get that package using
biocLite() as it is a bioconductor package.  If you want to see a list of all the annotation packages for the latest release you can find it here:

http://www.bioconductor.org/packages/release/BiocViews.html#___AnnotationData



   Marc




On 09/04/2013 12:39 PM, E.M. Lodder wrote:
> Hi All,
>
> Just a quick question I just updated my R to 3.01 and wanted to reinstall some of the packages I was using.
> Now I do get the following error message:
>
>>      source("http://bioconductor.org/biocLite.R")
>>      biocLite("illuminaMousev2BeadID.db")
> BioC_mirror: http://bioconductor.org
> Using Bioconductor version 2.12 (BiocInstaller 1.10.3), R version 3.0.1.
> Installing package(s) 'illuminaMousev2BeadID.db'
> Warning message:
> package 'illuminaMousev2BeadID.db' is not available (for R version
> 3.0.1)
>> library("hgu133plus2.db",character.only = TRUE)
> Error in library("hgu133plus2.db", character.only = TRUE) :
>    there is no package called 'hgu133plus2.db'
>> library("illuminaMousev2BeadID.db", character.only = TRUE)
> Error in library("illuminaMousev2BeadID.db", character.only = TRUE) :
>    there is no package called 'illuminaMousev2BeadID.db'
> Any ideas on how to fix this? Or should I just operate with two different versions of R in parallel for the moment?
>
> Thanks!
>
> Elisabeth
> ________________________________
>
> AMC Disclaimer : http://www.amc.nl/disclaimer
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives:
> http://news.gmane.org/gmane.science.biology.informatics.conductor

_______________________________________________
Bioconductor mailing list
Bioconductor at r-project.org
https://stat.ethz.ch/mailman/listinfo/bioconductor
Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
________________________________

AMC Disclaimer : http://www.amc.nl/disclaimer