Question

Not able to install any Bioconductor 3.18 package [unable to access index]

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Lorena Pantano ▴ 140

@lorena-pantano-6001

Last seen 6 months ago

Boston

I was trying to install some Bioconductor packages today but I am facing this error:

> BiocManager::install("BiocNeighbors")
'getOption("repos")' replaces Bioconductor standard repositories, see 'help("repositories", package =
"BiocManager")' for details.
Replacement repositories:
    CRAN: https://cran.rstudio.com/
Warning: unable to access index for repository https://bioconductor.org/packages/3.18/bioc/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.18/bioc/src/contrib/PACKAGES'

It seems the URL needed to install packages are not longer available? I tried in two different computers, laptop (M2 chip) and cluster (linux centos7). It doesn't matter the package, I tried a few. Anybody is facing the same issue?

Thanks

Install • 2.4k views

ADD COMMENT • link updated 6 months ago by merv ▴ 140 • written 6 months ago by Lorena Pantano ▴ 140

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I am experiencing the same problem, I tried with all the advices I found in similar posts but nothing seems to work

ADD REPLY • link 6 months ago bravaccinimirea • 0

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Try the mirror suggestion for now: can't open mghp.osn.xsede.org

ADD REPLY • link 6 months ago ATpoint ★ 4.6k

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It works with "Germany (Gottingen)"! Thanks!

ADD REPLY • link 6 months ago Konstantin • 0

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I solved the problem installing the latest R version (4.4.0)

ADD REPLY • link 6 months ago mgdrnl • 0

score 2 · Answer 1 · 2024-05-23

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shepherl 4.1k

@lshep

Last seen 2 days ago

United States

An outage was reported at the location we store the Bioconductor archives. We are in process of temporarily activating a different backup location to resolve the issue. We are sorry for any inconvenience this has caused. Access should be restored

ADD COMMENT • link 6 months ago shepherl 4.1k

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Thanks! I can confirm it is working now - had been broken since sometime yesterday.

ADD REPLY • link 6 months ago merv ▴ 140