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Jonathan Sive
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30
@jonathan-sive-3640
Last seen 10.2 years ago
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 âaffyQCReportâ
* removing â/home/POGBDOM/regmjs9/R/x86_64-unknown-linux-gnu-
library/2.10/affyQCReportâ
The downloaded packages are in
â/tmp/Rtmpp2hkWJ/downloaded_packagesâ
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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