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unable to retreive references #4

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kristycyw opened this issue Jan 19, 2023 · 0 comments
Open

unable to retreive references #4

kristycyw opened this issue Jan 19, 2023 · 0 comments

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@kristycyw
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Hi, I wanted to try this method of gapfilling but am encountering persistent errors retrieving references:

library('g2f')
all <- getReference(organism = "all",sep = ";")
OK
Downloading reactions ... Error in curl::curl_fetch_memory(url, handle = handle) :
OpenSSL SSL_read: error:0A000126:SSL routines::unexpected eof while reading, errno 0
eco <- getReference(organism = "eco",sep = ";")
Validating selected organism ... Error in download.file("rest.kegg.jp/list/organism", paste0(kegg_download, :
download from 'rest.kegg.jp/list/organism' failed
In addition: Warning message:
In download.file("rest.kegg.jp/list/organism", paste0(kegg_download, :
URL 'https://rest.kegg.jp/list/organism': status was 'Failure when receiving data from the peer'

I am on ubuntu and using the latest openssl (3.0.2) and nginx (1.22)

As there is no help file for this library, is there a manual way to insert reference reactions or can this issue be fixed?

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