[BioC] org.Hs.eg.db

[Uwe Ligges]

On 10.05.2010 22:44, James W. MacDonald wrote:
> Hi Uwe,
>
> Uwe Ligges wrote:
>> Hi,
>>
>> loading package "org.Hs.eg.db" fails for me these days, see below for
>> details. I guess this is related to the recent "AnnotationDbi" update
>> on BioC and this is the package's maintainer address I found ...
>
> What version of org.Hs.eg.db do you have? This isn't a problem for me.


Thanks for the answer.
My apologies, thought I reported it in my sessionInfo(). I have the most 
recent one: 2.4.1.

Since it apparently does not happen on other installations, I will debug 
later this day ...

Best wishes,
Uwe




>  > library(org.Hs.eg.db)
> Loading required package: AnnotationDbi
> 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
>  > sessionInfo()
> R version 2.11.0 Patched (2010-05-01 r51890)
> i386-pc-mingw32
>
> locale:
> [1] LC_COLLATE=English_United States.1252
> [2] LC_CTYPE=English_United States.1252
> [3] LC_MONETARY=English_United States.1252
> [4] LC_NUMERIC=C
> [5] LC_TIME=English_United States.1252
>
> attached base packages:
> [1] stats graphics grDevices datasets utils methods base
>
> other attached packages:
> [1] org.Hs.eg.db_2.4.1 RSQLite_0.9-0 DBI_0.2-5
> [4] AnnotationDbi_1.10.1 Biobase_2.8.0
>
> loaded via a namespace (and not attached):
> [1] tools_2.11.0
>
> Best,
>
> Jim
>
>
>>
>> Best wishes,
>> Uwe
>>
>>
>>
>>
>> > library("org.Hs.eg.db")
>> Error in stop(msg, " ", errors, domain = NA) :
>> no function to return from, jumping to top level
>> Error : .onLoad failed in loadNamespace() for 'org.Hs.eg.db', details:
>> call: is(object, Cl)
>> error: error in evaluating the argument 'drv' in selecting a method
>> for function 'dbConnect'
>> Error: package/namespace load failed for 'org.Hs.eg.db'
>>
>>
>> > sessionInfo()
>> R version 2.11.0 (2010-04-22)
>> i386-pc-mingw32
>>
>> locale:
>> [1] LC_COLLATE=German_Germany.1252 LC_CTYPE=German_Germany.1252
>> LC_MONETARY=German_Germany.1252
>> [4] LC_NUMERIC=C LC_TIME=German_Germany.1252
>>
>> attached base packages:
>> [1] stats graphics grDevices datasets utils methods base
>>
>> other attached packages:
>> [1] RSQLite_0.9-0 DBI_0.2-5 AnnotationDbi_1.10.1 Biobase_2.8.0
>> [5] lattice_0.18-5 fortunes_1.3-7
>>
>> loaded via a namespace (and not attached):
>> [1] grid_2.11.0
>>
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>