Hi,
It might be a simple question but how is it possible to load a bioc data set like colonCA? As a user, I installed Biobase, BiocInstaller and colonCA in my environment. Then, when I load Biobase (library Biobase) and colonCA (data colonCA), I get the following message

Warning message:
In data(colonCA) : data set ‘colonCA’ not found

When I load with (data colonCA, lib.loc = "path to colonCA"), I get the messages


Warning messages:
1: In find.package(package, lib.loc, verbose = verbose) :
  there is no package called
 ‘stats’
2: In find.package(package, lib.loc, verbose = verbose) :
  there is no package called ‘graphics’
3: In find.package(package, lib.loc, verbose = verbose) :
  there is no package called ‘grDevices’
4: In find.package(package, lib.loc, verbose = verbose) :
  there is no package called ‘utils’
5: In find.package(package, lib.loc, verbose = verbose) :
  there is no package called ‘datasets’
6: In find.package(package, lib.loc, verbose = verbose) :
  there is no package called ‘methods’
7: In find.package(package, lib.loc, verbose = verbose) :
  there is no package called ‘base’
8: In data(colonCA, lib.loc = "path to colonCA") :
  data set ‘colonCA’ not found
> 

which searches the packages that are in

/usr/lib/R/library/

Alternatively, I installed colonCA in /usr/lib/R/library/ as root but got the same msg

data set ‘colonCA’ not found

Look forward to your solution

Carol

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