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

----- Original Message ----- > From: "James W. MacDonald" <jmacdon at="" uw.edu=""> > To: Bioconductor at r-project.org > Sent: Tuesday, November 5, 2013 9:38:53 AM > Subject: [BioC] AnnotationHub resource down? > > 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 > Yes it is down. We are working to get it back up as soon as possible. Thanks Dan > > -- > James W. MacDonald, M.S. > Biostatistician > University of Washington > Environmental and Occupational Health Sciences > 4225 Roosevelt Way NE, # 100 > Seattle WA 98105-6099 > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor >