minfi devel error
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Asma rabe ▴ 290
@asma-rabe-4697
Last seen 4.3 years ago
Japan

Hi,

I am trying to download devel version of minfi , I got an error due to dependency error of bump hunter library

Any idea?

################

biocLite("minfi")
BioC_mirror: https://bioconductor.org
Using Bioconductor 3.4 (BiocInstaller 1.23.5), R 3.3.0 (2016-05-03).
Installing package(s) 'minfi'
also installing the dependency 'bumphunter'

downloaded 0 bytes

Error in download.file(url, destfile, method, mode = "wb", ...) : 
  cannot download all files
In addition: Warning message:
In download.file(url, destfile, method, mode = "wb", ...) :
  URL 'https://bioconductor.org/packages/3.4/bioc/src/contrib/bumphunter_1.13.0.tar.gz': status was '404 Not Found'
Warning in download.packages(pkgs, destdir = tmpd, available = available,  :
  download of package 'bumphunter' failed


 
bumphunter • 692 views
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@martin-morgan-1513
Last seen 5 days ago
United States

The available package (from the table at the bottom of the devel package 'landing page') is version 1.13.1. Perhaps the database of available packages in your R session is stale. Can you try to install bumphunter in a new R session?
 

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Thanks Martin. It works. I installed minfi/bump hunter in a separate R session. In addition, I restarted the old R session to load the library.

I do not fully understand the database of available packages in my R session is stale?

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Entering edit mode

R builds an index of installed and available packages; my best guess about why biocLite() asked for version 1.13.0 was that this index was out-of-date, and that starting a new R session would force R to update the index. In truth I really don't have a good explanation for why R tried to install the incorrect version of bumphunter.

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