[BioC] Download fails

Chris Bye chris_bye@wmi.usyd.edu.au
Mon, 17 Feb 2003 16:45:03 +1100

Dear list members,
     I have used Bioconductor fairly extensively over the past 6 months but have encountered a problem that i have been unable to overcome. I am using R 1.6.2, BioC 1.1 on Windows 2000. I have also installed and configured wget ...options(download.file.option="wget")... to input a proxy authentication password.
     I am able to install and update packages through CRAN, and also through bioconductor.org if I use download.file(), but getBioC() and many other functions for downloading files from the bioconductor web site fail. Can anyone tell me why and how to rectify the situation. Three examples are shown below.
Chris Bye

 > getBioC()
Running getBioC version 1.2.18....
If you encounter problems, first make sure that
you are running the latest version of getBioC()
which can be found at: www.bioconductor.org/getBioC.R

Please direct any concerns or questions to bioconductor@stat.math.ethz.ch.

Error in getBioC() : Your R is not currently configured to allow HTTP
connections, which is required for getBioC to work properly.
 > tmpLib <- tempfile()
 > dir.create(tmpLib)
 > syncLocalLibList(tmpLib)
 > getOption("repositories")
 > z <- 
unable to connect to 'www.bioconductor.org'.
Note: http://www.bioconductor.org/repository/sample/package does not 
seem to have a valid repository, skipping
 > ll <- "http://www.bioconductor.org/datafiles/wwwsources/Tll_tmpl.gz"
 > llSource <- fileFetcher(ll)
unable to connect to 'www.bioconductor.org'.
Error in urlOK() : The given URL is incorrect or the target site is not