I’m trying to install GeneR library (http://www.bioconductor.org/packages/release/bioc/html/GeneR.html):
I’m using win7 and the newest R 2.14.2.
Error during installation:
> source("http://bioconductor.org/biocLite.R")
trying URL 'http://www.bioconductor.org/packages/2.9/bioc/bin/windows/contrib/2.14/BiocInstaller_1.2.1.zip'
Content type 'application/zip' length 32947 bytes (32 Kb)
opened URL
downloaded 32 Kb
package ‘BiocInstaller’ successfully unpacked and MD5 sums checked
The downloaded packages are in
C:\Users\Bluev\AppData\Local\Temp\RtmpQJYYaS\downloaded_packages
BiocInstaller version 1.2.1, ?biocLite for help
> biocLite("GeneR")
BioC_mirror: 'http://www.bioconductor.org'
Using R version 2.14, BiocInstaller version 1.2.1.
Installing package(s) 'GeneR'
Old packages: 'lattice', 'Matrix', 'rpart'
Update all/some/none? [a/s/n]: a
trying URL 'http://cran.fhcrc.org/bin/windows/contrib/2.14/lattice_0.20-6.zip'
Content type 'application/zip' length 704272 bytes (687 Kb)
opened URL
downloaded 687 Kb
trying URL 'http://cran.fhcrc.org/bin/windows/contrib/2.14/Matrix_1.0-5.zip'
Content type 'application/zip' length 3278758 bytes (3.1 Mb)
opened URL
downloaded 3.1 Mb
trying URL 'http://cran.fhcrc.org/bin/windows/contrib/2.14/rpart_3.1-52.zip'
Content type 'application/zip' length 200827 bytes (196 Kb)
opened URL
downloaded 196 Kb
package ‘lattice’ successfully unpacked and MD5 sums checked
package ‘Matrix’ successfully unpacked and MD5 sums checked
package ‘rpart’ successfully unpacked and MD5 sums checked
The downloaded packages are in
C:\Users\Bluev\AppData\Local\Temp\RtmpQJYYaS\downloaded_packages
Warning message:
In getDependencies(pkgs, dependencies, available, lib) :
package ‘GeneR’ is not available (for R version 2.14.2)
How to install this library?
Are you equipped to install from source? The Bioconctor page for GeneR does not indicate a Windows binary to be available. The Rtools directory is in any CRAN below the /bin/windows/ node. For example: http://probability.ca/cran/bin/windows/Rtools/