[BioC] Error loading Affymetrix Human Genome U133plus2 Set annotation data

[Lei Huang]

Dear listers,

I received an error message when trying to load library(hgu133plus2.db)

> library(hgu133plus2.db)
Loading required package: AnnotationDbi
Loading required package: Biobase

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Loading required package: DBI
Error in sqliteFetch(rs, n = -1, ...) :
  RSQLite driver: (RS_SQLite_fetch: failed first step: disk I/O error)
Error : .onLoad failed in 'loadNamespace' for 'hgu133plus2.db'
Error: package/namespace load failed for 'hgu133plus2.db'
> sessionInfo()
R version 2.9.0 (2009-04-17)
x86_64-redhat-linux-gnu

locale:
LC_CTYPE=en_US.iso88591;LC_NUMERIC=C;LC_TIME=en_US.iso88591;LC_COLLATE=en_US.iso88591;LC_MONETARY=C;LC_MESSAGES=en_US.iso88591;LC_PAPER=en_US.iso88591;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.iso88591;LC_IDENTIFICATION=C

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

other attached packages:
[1] RSQLite_0.7-3       DBI_0.2-4           AnnotationDbi_1.6.1
[4] Biobase_2.4.1

However I can successfully load library(hgu133a.db) and others. I logged
in as root to run the same command and got the same error. After looking
up Bioconductor mailing list archives I found few clue about this issue.
Could anyone give me a hint on solving the problem?

Thanks a lot,

Lei Huang
Bioengineering/Bioinformatics Program
University of Illinois at Chicago
821 S Wood Street, RM103
Chicago, IL 60612