The decompress message suggests that you did not shut down your R session
subsequent to reinstallation of package.  Please shut it down and restart
and reattach package and send any subsequent errors.  The DBSCHEMA issue is
known, related to transition to next release.  There are workarounds if
necessary but the approach you've taken should work once you get around the
'internal error', which I believe just requires a restart of R.

On Wed, Apr 7, 2010 at 10:39 AM, Mayte Suarez-Farinas <
farinam@mail.rockefeller.edu> wrote:

> Hi
>
> I have been getting an error  in packages db family.
> First I was getting "Error in checkDBSCHEMA(dbconn, "GO_DB") :
>  invalid DB schema version (found 2.0, expected 2.1)"
> I decided to reinstall R with version 2.10.1 and reinstall all packages
> again.
> still I have problems with GO.
> I reinstalled through the Package Manager and by using biocLite directly.
> It installed fine but when I load it I got the following error:
>
> library(GO.db)
> Error in get(hookname, envir = env, inherits = FALSE) :
>  internal error -3 in R_decompress1
> Error: package/namespace load failed for 'GO.db'
>
> I hope someone can guide me...
> Best
> Mayte
>
>  sessionInfo()
> R version 2.10.1 (2009-12-14)
> x86_64-apple-darwin9.8.0
>
> locale:
> [1] en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] RSQLite_0.7-3       DBI_0.2-5           AnnotationDbi_1.9.8
> Biobase_2.6.1
>
> loaded via a namespace (and not attached):
>  [1] affy_1.24.2          affyio_1.14.0        annotate_1.24.1
>  Biostrings_2.14.12
>  [5] gcrma_2.18.1         genefilter_1.28.2    IRanges_1.4.16
> preprocessCore_1.8.0
>  [9] simpleaffy_2.22.0    splines_2.10.1       survival_2.35-7
>  tools_2.10.1
> [13] xtable_1.5-6
>
>
>
>
> Mayte Suarez-Farinas
> Research Associate, The Rockefeller University
> Biostatistician, The Rockefeller University Hospital
> 1230 York Ave, Box 178,
> New York, NY, 10021
> +1(212) 327-8213
>
> _______________________________________________
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>

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