minfi devel error
1
0
Entering edit mode
Asma rabe ▴ 290
@asma-rabe-4697
Last seen 6.1 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 • 1.1k views
ADD COMMENT
0
Entering edit mode
@martin-morgan-1513
Last seen 6 weeks 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?
 

ADD COMMENT
0
Entering edit mode

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?

ADD REPLY
0
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installed and available packages; my best guess about why biocLite() asked for version 1.13.0 was that this index was out-of-date, and that starting a new R session would force R to update the index.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.

ADD REPLY

Login before adding your answer.

Traffic: 964 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6