Dear List

I'm having difficulties download Bioconductor onto an OpenSUSE 11.1 system.
Many of the Biobase component packages install fine, but the full set won't download, nor will other Bioconductor packages eg GEOquery.

Below is the final bit of the ouptput including error messages - the RCurl package seems to be a problem.

Any ideas how to get round this?

Thanks
Jonathan Sive


Warning in library(pkg, character.only = TRUE, logical.return = TRUE, lib.loc = lib.loc) :
  there is no package called 'affy'
Error : package 'affy' could not be loaded
ERROR: lazy loading failed for package ‘affyQCReport’
* removing ‘/home/POGBDOM/regmjs9/R/x86_64-unknown-linux-gnu-library/2.10/affyQCReport’

The downloaded packages are in
	‘/tmp/Rtmpp2hkWJ/downloaded_packages’
There were 13 warnings (use warnings() to see them)
> warnings()
Warning messages:
1: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'affyio' had non-zero exit status
2: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'XML' had non-zero exit status
3: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'RCurl' had non-zero exit status
4: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'affy' had non-zero exit status
5: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'biomaRt' had non-zero exit status
6: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'affydata' had non-zero exit status
7: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'annaffy' had non-zero exit status
8: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'gcrma' had non-zero exit status
9: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'vsn' had non-zero exit status
10: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'affyPLM' had non-zero exit status
11: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'genefilter' had non-zero exit status
12: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'simpleaffy' had non-zero exit status
13: In install.packages(pkgs = pkgs, repos = repos, ...) :
  installation of package 'affyQCReport' had non-zero exit status






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