[BioC] Error: invalid DB schema version (found 2.0, expected 2.1)

[Martin Morgan]

On 05/31/2010 09:07 AM, Christian Kohler wrote:
> Dear Bioconductors,
> 
> I tried to install the 'bovinebtentrezg.db' from the brainarray repository but I failed with the error shown below:
> 
>> R CMD INSTALL bovinebtentrezg.db_12.1.0.tar.gz
> * installing *source* package 'bovinebtentrezg.db' ...
> ** R
> ** inst
> ** preparing package for lazy loading
> Loading required package: Biobase
> 
> Welcome to Bioconductor
> 
>   Vignettes contain introductory material. To view, type
>   'openVignette()'. To cite Bioconductor, see
>   'citation("Biobase")' and for packages 'citation(pkgname)'.
> 
> Loading required package: DBI
> ** help
> *** installing help indices
> ** building package indices ...
> ** testing if installed package can be loaded
> Error : .onLoad failed in loadNamespace() for 'bovinebtentrezg.db', details:
>   call: checkDBSCHEMA(dbconn, "BOVINECHIP_DB")
>   error: invalid DB schema version (found 2.0, expected 2.1)
> ERROR: loading failed
> * removing '../data/bovinebtentrezg.db'
> 

Generally, this error indicates an incompatibility between package
versions, and one would update packages as described at

  http://bioconductor.org/docs/install/

and then follow normal installation procedures

  > biocLite('bovinebtentrezg.db')

In this case, I think the brainarray packages have not (yet) been
updated to the current version of R / Bioc, so the only solution
available is to use these packages with R-2.10 / BioC 2.5 (using
biocLite from within R-2.10).

Martin

> 
> Here is my sessionInfo()-Output:
> ==============================
>> sessionInfo()
> R version 2.11.1 (2010-05-31)
> x86_64-unknown-linux-gnu
> 
> locale:
> [1] C
> 
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
> 
> other attached packages:
> [1] AnnotationDbi_1.10.1 Biobase_2.8.0
> 
> loaded via a namespace (and not attached):
> [1] DBI_0.2-5     RSQLite_0.8-4
> 
> 
> 
> I crawled Google and the Bioconductor mailing-list archive but unfortunately did not found a solution for my problem.
> Could you please give me a hint on how to proceed?
> 
> Thank you very much.
> 
> Best Christian
> 
> 
> 


-- 
Martin Morgan
Computational Biology / Fred Hutchinson Cancer Research Center
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PO Box 19024 Seattle, WA 98109

Location: Arnold Building M1 B861
Phone: (206) 667-2793