[BioC] unable to install mogene10stv1cdf

[James W. MacDonald]

Hi Ming,

On 12/15/2010 1:42 PM, Ming Zheng wrote:
> Hi,
>
>
>
> I need to install the mogene10stv1cdf package to analyze the mouse gene 1.0
> ST array. I used the command specified on bioconductor page
> (source("http://www.bioconductor.org/biocLite.R");
> biocLite("mogene10stv1cdf");), but I got the following error message:
>
> __________________________________________________________________
>
> Running biocinstall version 2.3.14 with R version 2.8.0

It's because you are living in 2008, whereas everybody else is in 2010 ;-D

If you update to R-2.12.0, then this will work out for you.

Best,

Jim


>
> Your version of R requires version 2.3 of Bioconductor.
>
> Warning in install.packages(pkgs = pkgs, repos = repos, dependencies =
> dependencies,  :
>
>    argument 'lib' is missing: using '/usr/lib64/R/library'
>
> Warning message:
>
> In install.packages(pkgs = pkgs, repos = repos, dependencies = dependencies,
> :
>
>    Package mogene10stv1cdf is not available
>
> __________________________________________________________________
>
>
>
> Here is the sessionInfo:
>
>> sessionInfo()
>
> R version 2.8.0 (2008-10-20)
>
> x86_64-redhat-linux-gnu
>
>
>
> locale:
>
> LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8
> ;LC_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADD
> RESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C
>
>
>
> attached base packages:
>
> [1] splines   tools     stats     graphics  grDevices utils     datasets
>
> [8] methods   base
>
>
>
> other attached packages:
>
>   [1] limma_2.16.5         simpleaffy_2.18.0    genefilter_1.22.0
>
>   [4] survival_2.35-8      geneplotter_1.20.0   annotate_1.20.1
>
>   [7] xtable_1.5-6         AnnotationDbi_1.4.3  lattice_0.17-15
>
> [10] affyPLM_1.18.1       preprocessCore_1.4.0 gcrma_2.14.1
>
> [13] matchprobes_1.14.1   affy_1.20.2          Biobase_2.2.2
>
>
>
> loaded via a namespace (and not attached):
>
> [1] affyio_1.10.1      DBI_0.2-5          grid_2.8.0
> KernSmooth_2.23-3
>
> [5] RColorBrewer_1.0-2 RSQLite_0.8-3
>
>
>
> Thanks a lot!
>
>
>
> Ming
>
>
>
>
> 	[[alternative HTML version deleted]]
>
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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
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