Can´t install GenomicRanges and rtracklayer
1
0
Entering edit mode
Johanna • 0
@b6b69938
Last seen 6 weeks ago
Germany

Hi everyone,

I am trying to install the two packages GenomicRanges and rtracklayer for a while now and it doesn´t work. I have the most recent version of R 4.2.0 and installing all other packages works. Heres the output, that comesup no matter what I try: Can someone help me?

 BiocManager::install()

'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details

replacement repositories:
    CRAN: https://cloud.r-project.org

Bioconductor version 3.15 (BiocManager 1.30.18), R 4.2.0 (2022-04-22)

**Installation paths not writeable, unable to update packages**

  path: /usr/lib/R/library
  packages:
    nlme, spatial, survival




I also tried two other codes, but they also didnt work: 

remove.packages(c("GenomicRanges", "rtracklayer"), lib = ("/home/xxx/R/x86_64-pc-linux-gnu-library/4.2"))
.libPaths()

biocLite(pkgs = c("rtracklayer", "IRanges", "GenomicRanges", type = "binary"))



> sessionInfo( )
R version 4.2.0 (2022-04-22)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 20.04.4 LTS
rtracklayer GenomicRanges Installation • 102 views
ADD COMMENT
0
Entering edit mode
@james-w-macdonald-5106
Last seen 1 day ago
United States

You can't just call BiocManager::install() and expect it to know what you want to install! You need to specify the packages you want as a character vector, like BiocManager::install(c("GenomicRanges","rtracklayer"))

Login before adding your answer.

Traffic: 209 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