how to fix error in getGEO function?
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2.7 years ago

When I want to use the getGEO function to download GSE dataset with this code:

series <- "GSE85358" gset <- getGEO(series , GSEMatrix =TRUE, AnnotGPL=TRUE, destdir = "....." ) I encounter this error:

https://ftp.ncbi.nlm.nih.gov/geo/series/GSE2nnn/GSE2553/matrix/ Error in function (type, msg, asError = TRUE) : error:1407742E:SSL routines:SSL23_GET_SERVER_HELLO:tlsv1 alert protocol version

How can i fix it?

software error R • 1.7k views
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What is the output of sessonInfo()?

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Hello Mr. h.mon, sorry for that but I noticed that you're from Brazil. And I would like to know about your projects here, could you please send me an email? I can't see your email on your account on biostars :/

Best regards!

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Hello geocarvalho , I deleted your contact information from the post - if you really want it public, it is probably better to add it to your profile page.

I don't have projects, I am a mix of (IT / analysis / emotional) support staff - being reasonably good at the first two, while sucking big time at the third.

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h.mon LOL, I still thinking that you're a Jedi here! Any chance we can talk by email or chat?

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It seems that you have not the right setup for the https: downloads. Are you on windows or Linux?

Can you dload a file over https:// in R? For example, does the following command work inside your R?

download.file("https://ftp.ncbi.nlm.nih.gov/geo/series/GSE2nnn/GSE2553/matrix/GSE2553_series_matrix.txt.gz", destfile="tmp")