trouble installing DESEQ2
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tran_tim ▴ 10
@tran_tim-9109
Last seen 8.2 years ago
United States

 

I have the following error while trying to install DESeq2 from bioconductor.  How do you fixeed this?

 

 

source('http://bioconductor.org/biocLite.R')
Bioconductor version 3.3 (BiocInstaller 1.22.3), ?biocLite for help
> biocLite('DESeq2')
BioC_mirror: https://bioconductor.org
Using Bioconductor 3.3 (BiocInstaller 1.22.3), R 3.3.1 (2016-06-21).
Installing package(s) ‘DESeq2’
trying URL 'https://bioconductor.org/packages/3.3/bioc/bin/windows/contrib/3.3/DESeq2_1.12.4.zip'
Content type 'application/zip' length 3937521 bytes (3.8 MB)
downloaded 3.8 MB

package ‘DESeq2’ successfully unpacked and MD5 sums checked
Warning: cannot remove prior installation of package ‘DESeq2’

The downloaded binary packages are in
    C:\Users\DiaCarta-3125\AppData\Local\Temp\RtmpOYTTFv\downloaded_packages
> library(DESeq2)
Error in library(DESeq2) : there is no package called ‘DESeq2’

deseq2 • 7.1k views
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@martin-morgan-1513
Last seen 4 months ago
United States

Probably DESeq2 is already in use by another R process, or the installed library has been partly corrupted.

Make sure there are no other R processes running.

Try remove.packages("DESeq2") and then restart R and biocLite("DESeq2").

If that does not work, use your operating system to navigate to the locations indicated by .libPaths() and find the DESeq2 directory. If the directory belongs to you, remove it by hand. If it belongs to an administrator, ask the administrator to help, perhaps following the steps outlined here (i.e., trying to remove and update within R, then outside R).

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