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  • problems installing package goseq

    I have been having trouble installing the package goseq. I followed the instructions, but got the following message:

    > source("http://bioconductor.org/biocLite.R")
    > biocLite("goseq",dependencies=TRUE)
    Using R version 2.10.1, biocinstall version 2.5.11.
    Installing Bioconductor version 2.5 packages:
    [1] "goseq"
    Please wait...

    Warning message:
    In getDependencies(pkgs, dependencies, available, lib) :
    package ‘goseq’ is not available

    Any suggestions? I am not particularly familiar with the language R, so I don't know how to dig deeper to solve the issue.

    Thanks!

  • #2
    Hi PFS,

    goseq requires a newer version of R than the one you are using. If you update to the latest version and try again everything should work.

    Cheers,

    Matt

    Comment


    • #3
      I am also having a problem installing goseq.


      Warning messages:
      1: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ...) :
      installation of package ‘XML’ had non-zero exit status
      2: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ...) :
      installation of package ‘RCurl’ had non-zero exit status
      3: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ...) :
      installation of package ‘biomaRt’ had non-zero exit status
      4: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ...) :
      installation of package ‘rtracklayer’ had non-zero exit status
      5: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ...) :
      installation of package ‘GenomicFeatures’ had non-zero exit status
      6: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ...) :
      installation of package ‘geneLenDataBase’ had non-zero exit status
      7: In install.packages(pkgs = pkgs, lib = lib, repos = repos, ...) :
      installation of package ‘goseq’ had non-zero exit status
      8: installed directory not writable, cannot update packages 'foreign', 'MASS',
      'mgcv', 'nlme', 'survival'
      > library(goseq)
      Error in library(goseq) : there is no package called ‘goseq’
      >

      Could you please help me to find a resolution.

      Thanks.

      Comment

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