Problem using load_raw() function in crossmeta R package
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8 months ago
michael.s • 0

I have previously downloaded all the raw files from GEO in the wd. Then, I run the following code:

> library(crossmeta)
> # specify where data will be downloaded
> data_dir <- file.path(getwd())
> # gather all GSEs
> gse_names  <- c("GSE88", "GSE89", "GSE3167")
> get_raw(gse_names, data_dir)
> esets <- load_raw(gse_names, data_dir)

After get_raw, the .cel files are successfully extracted from .tar raw files. But, after load_raw I get the following error message:

https://ftp.ncbi.nlm.nih.gov/geo/series/GSEnnn/GSE88/matrix/
Error in function (type, msg, asError = TRUE)  : 
  error:1407742E:SSL routines:SSL23_GET_SERVER_HELLO:tlsv1 alert protocol version
Error in (function (classes, fdef, mtable)  : 
  unable to find an inherited method for function ‘annotation’ for signature ‘"character"’

My session info are:

R version 4.0.3 (2020-10-10)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19041)
crossmeta_1.16.1    GEOquery_2.58.0     Biobase_2.50.0
crossmeta R meta-analysis • 257 views
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