[BioC] Error loading rat2302.db

[James W. MacDonald]

Hi Mike,

On 11/15/2012 2:07 PM, Mike [guest] wrote:
> Every time I try to load rat2302.db I get the same error:
>
>> library("rat2302.db")
> Error : .onLoad failed in loadNamespace() for 'rat2302.db', details:
>    call: sqliteExecStatement(con, statement, bind.data)
>    error: RS-DBI driver: (error in statement: no such table: chrlengths)
> Error: package/namespace load failed for ‘rat2302.db’

Looks like you might have a borked package. Did you try re-installing?

I get:

 > library(rat2302.db)
Loading required package: org.Rn.eg.db


 > sessionInfo()
R version 2.15.1 (2012-06-22)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=C LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

attached base packages:
[1] stats graphics grDevices utils datasets methods base

other attached packages:
[1] rat2302.db_2.8.1 org.Rn.eg.db_2.8.0
[3] BiocInstaller_1.8.3 affycoretools_1.31.2
[5] KEGG.db_2.8.0 GO.db_2.8.0
[7] AnnotationDbi_1.20.2 affy_1.36.0
[9] pd.hugene.1.0.st.v1_3.8.0 RSQLite_0.11.2
[11] DBI_0.2-5 limma_3.14.1
[13] oligo_1.22.0 Biobase_2.18.0
[15] oligoClasses_1.20.0 BiocGenerics_0.4.0

Best,

Jim


>
>
> I have looked everywhere on the message boards and internet with no luck finding a solution. Any help is greatly appreciated!
>
> Best,
> Mike
>
>   -- output of sessionInfo():
>
>> sessionInfo()
> R version 2.15.1 (2012-06-22)
> Platform: i386-pc-mingw32/i386 (32-bit)
>
> locale:
> [1] LC_COLLATE=English_United States.1252  LC_CTYPE=English_United States.1252    LC_MONETARY=English_United States.1252 LC_NUMERIC=C                           LC_TIME=English_United States.1252
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] org.Hs.eg.db_2.8.0   RSQLite_0.11.2       DBI_0.2-5            AnnotationDbi_1.20.2 Biobase_2.18.0       BiocGenerics_0.4.0
>
> loaded via a namespace (and not attached):
> [1] IRanges_1.16.4  parallel_2.15.1 stats4_2.15.1
>
> --
> Sent via the guest posting facility at bioconductor.org.
>
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-- 
James W. MacDonald, M.S.
Biostatistician
University of Washington
Environmental and Occupational Health Sciences
4225 Roosevelt Way NE, # 100
Seattle WA 98105-6099