Question

Error in installing bioconductor

1

Entering edit mode

amin.afzalifar ▴ 10

@aminafzalifar-20983

Last seen 4.9 years ago

I used

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install()

for installing "bioconductor" but I encountered this error:

Error: invalid version specification ‘Bioconductor version cannot be validated; no internet connection?’
In addition: Warning messages:
1: In file(con, "r") : InternetOpenUrl failed: 'à¿q'
2: In file(con, "r") : InternetOpenUrl failed: 'pen the ð¥Xn'

Can anybody help me?

bioconductor • 1.8k views

ADD COMMENT • link updated 4.9 years ago by Martin Morgan 25k • written 4.9 years ago by amin.afzalifar ▴ 10

0

Entering edit mode

Likely the code is trying to execute the following line

config <- readLines("https://bioconductor.org/config.yaml")

and failing. What happens when you execute the line above? Please also provide the output of sessionInfo() in a new R session where the above line was attempted; here's mine:

> config <- readLines("https://bioconductor.org/config.yaml")
> sessionInfo()
R version 3.6.0 Patched (2019-04-26 r76431)
Platform: x86_64-apple-darwin17.7.0 (64-bit)
Running under: macOS High Sierra 10.13.6

Matrix products: default
BLAS:   /Users/ma38727/bin/R-3-6-branch/lib/libRblas.dylib
LAPACK: /Users/ma38727/bin/R-3-6-branch/lib/libRlapack.dylib

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

loaded via a namespace (and not attached):
[1] compiler_3.6.0

ADD REPLY • link 4.9 years ago Martin Morgan 25k