Hello! I am doing undergraduate bioinformatics research this summer, and as I am new to R, I have had trouble trying to access some data.
I am trying to download from GSE62944 (according to here https://www.bioconductor.org/packages/devel/data/experiment/vignettes/GSE62944/inst/doc/GSE62944.html), but I am running into errors when I try to use ExperimentHub. I do not have a problem when I run
library (ExperimentHub), but when I try to run
eh = ExperimentHub(), I get the following problem
updating metadata: retrieving 1 resource Error: database is corrupt; remove it and try again database: ‘C:/Users/chris/Documents/AppData/.ExperimentHub/experimenthub.sqlite3’ reason: missing tables In addition: Warning message: download failed hub path: ‘http://experimenthub.bioconductor.org:3000/metadata/experimenthub.sqlite3’ cache path: ‘C:/Users/chris/Documents/AppData/.ExperimentHub/experimenthub.sqlite3’ reason: Couldn't connect to server
My output for
R version 3.3.1 (2016-06-21) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows 10 x64 (build 10586) locale:  LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252  LC_MONETARY=English_United States.1252 LC_NUMERIC=C  LC_TIME=English_United States.1252 attached base packages:  parallel stats graphics grDevices utils datasets methods base other attached packages:  devtools_1.12.0 ExperimentHub_0.99.9 AnnotationHub_2.4.2 BiocGenerics_0.18.0 BiocInstaller_1.22.3 loaded via a namespace (and not attached): Error in x[["Version"]] : subscript out of bounds In addition: Warning message: In FUN(X[[i]], ...) : DESCRIPTION file of package 'S4Vectors' is missing or broken
I would appreciate any help. Thank you.