[BioC] getBioC() doesn't work, download.file() and url() do

Seth Falcon sfalcon at fhcrc.org
Wed Mar 16 16:50:14 CET 2005

Hi Robert,

Robert King <Robert.King at newcastle.edu.au> writes:
> http access behind a proxy.  I have proxy behaviour set up with wget.
> Here is the success with download.file ...
> Here is the failure with getBioC() - I have the function from download.file() 
> and then source()

I think you've identified a bug in the getBioC script.  Although the
method argument is honored for the package downloads, it is not
honored for testing connectivity.

We will fix this.  In the meantime, I can offer a couple of
suggestions to get you going:

1. You can tell R about your proxy setup and this should allow getBioC
   to function.  Read the help for download.file.  I believe there are
   a handful of environment variables that must be set.


2. Download the reposTools package from the Bioconductor website,
   install it manually, and then use the install.packages2 function to
   install desired Bioc packages.  

+ seth

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