Hi all,

I am trying to install goseq as specified here.

This is the commands I put in:

R
source("https://bioconductor.org/biocLite.R")
biocLite("goseq")

At the end of the installation, it prints this:

The downloaded source packages are in
        '/tmp/RtmpjEZDl1/downloaded_packages'
Warning messages:
1: In install.packages(pkgs = doing, lib = lib, ...) :
  installation of package 'RMySQL' had non-zero exit status
2: In install.packages(pkgs = doing, lib = lib, ...) :
  installation of package 'GenomicFeatures' had non-zero exit status
3: In install.packages(pkgs = doing, lib = lib, ...) :
  installation of package 'geneLenDataBase' had non-zero exit status
4: In install.packages(pkgs = doing, lib = lib, ...) :
  installation of package 'goseq' had non-zero exit status

R version 3.4.2 (2017-09-28) -- "Short Summer"

Bioconductor version 3.6

Thank you for your help,
Philipp

Work on the first error, and try to install RMySQL -- biocLite("RMySQL"). I guess you'll have an error indicating that this requires the a mysql client library to be installed, with instructions on how to do it.

Solve taht, and then work on the next -- GenomicFeatures. It might now install, or perhaps otherwise. Try to solve that problem, and if there are issues, report here with the output of the failed installation attempt.