[BioC] AnnotationHub resource down?

James W. MacDonald jmacdon at uw.edu
Tue Nov 5 18:38:53 CET 2013


I am getting the following error and warning when using AnnotationHub:

 > hub <- AnnotationHub()
Error in value[[3L]](cond) :
   An error occured when parsing the JSON: Error in download.file(url, 
tmp, quiet = TRUE): cannot open URL 
'http://annotationhub.bioconductor.org/ah/2.13/getLatestSnapshotDate'
In addition: Warning message:
In download.file(url, tmp, quiet = TRUE) :
   cannot open: HTTP status was '0 (null)'

 > sessionInfo()
R version 3.0.2 (2013-09-25)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
  [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
  [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
  [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
  [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

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

other attached packages:
  [1] AnnotationHub_1.2.0  IRanges_1.20.4       hom.Rn.inp.db_2.10.1
  [4] org.Rn.eg.db_2.10.1  hom.Hs.inp.db_2.10.1 org.Hs.eg.db_2.10.1
  [7] org.Dr.eg.db_2.10.1  hom.Mm.inp.db_2.10.1 org.Mm.eg.db_2.10.1
[10] RMySQL_0.9-3         hom.Dr.inp.db_2.10.1 GO.db_2.10.1
[13] RSQLite_0.11.4       DBI_0.2-7            AnnotationDbi_1.25.2
[16] Biobase_2.22.0       BiocGenerics_0.8.0

loaded via a namespace (and not attached):
[1] BiocInstaller_1.12.0 compiler_3.0.2       GenomicRanges_1.14.3
[4] rjson_0.2.13         stats4_3.0.2         tools_3.0.2
[7] XVector_0.2.0
 >

Best,

Jim


-- 
James W. MacDonald, M.S.
Biostatistician
University of Washington
Environmental and Occupational Health Sciences
4225 Roosevelt Way NE, # 100
Seattle WA 98105-6099



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