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

[Christian Kohler]

Dear Martin,

thanks a lot for your quick reply; I'll try out your suggestions.

Best
Christian


Martin Morgan wrote:
> 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
>>
>>
>>
> 
> 


-- 

Christian Kohler
Institute of Functional Genomics
Computational Diagnostics
University of Regensburg (BioPark I)
D-93053 Regensburg (Germany)

Tel. +49 941 943 5055
Fax  +49 941 943 5020
christian.kohler at klinik.uni-regensburg.de