[BioC] Error loading GO.db
Anne Deslattes Mays
ad376 at georgetown.edu
Thu Jun 6 08:39:48 CEST 2013
Dear annotation team,
Thanks for the awesome work you do -- I try to load biocLite("ReportingTools") and get an error regarding GO.db
GO.db says it depends upon AnnotationDbi
I load biocLite("AnnotationDbi")
I try to load biocLite("GO.db") and get an error
> biocLite("GO.db")
BioC_mirror: http://bioconductor.org
Using Bioconductor version 2.12
(BiocInstaller 1.10.1), R version 3.0.0.
Installing package(s) 'GO.db'
trying URL 'http://bioconductor.org/packages/2.12/data/annotation/bin/macosx/contrib/3.0/GO.db_2.9.0.tgz'
Content type 'application/x-gzip' length 25061115 bytes (23.9 Mb)
opened URL
==================================================
downloaded 23.9 Mb
The downloaded binary packages are in
/var/folders/q_/snn7m1m53y161gssz9flysm00000gn/T//RtmppQR5na/downloaded_packages
> library(GO.db)
Error : .onLoad failed in loadNamespace() for 'GO.db', details:
call: get(name, envir = asNamespace(pkg), inherits = FALSE)
error: object '.setDummyField' not found
Error: package or namespace load failed for ‘GO.db’
Best regards,
Anne
Here is my sessionInfo
R version 3.0.0 (2013-04-03)
Platform: x86_64-apple-darwin10.8.0 (64-bit)
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] parallel stats graphics grDevices utils datasets methods
[8] base
other attached packages:
[1] affy_1.38.1 BiocInstaller_1.10.1 RSQLite_0.11.4
[4] DBI_0.2-7 AnnotationDbi_1.22.6 Biobase_2.20.0
[7] BiocGenerics_0.6.0
loaded via a namespace (and not attached):
[1] affyio_1.28.0 annotate_1.38.0 AnnotationForge_1.2.1
[4] Category_2.26.0 edgeR_3.2.3 genefilter_1.42.0
[7] graph_1.38.2 grid_3.0.0 GSEABase_1.22.0
[10] IRanges_1.18.1 limma_3.16.5 preprocessCore_1.22.0
[13] RBGL_1.36.2 splines_3.0.0 stats4_3.0.0
[16] survival_2.37-4 tools_3.0.0 XML_3.95-0.2
[19] xtable_1.7-1 zlibbioc_1.6.0
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