[BioC] Installation Problems

[Rishi Sinha [guest]]

Hello!

I was recently just trying to install bioconductor using the source() and then biocLite() commands, but the only problem was that it wasn't able to access:

"http://brainarray.mbni.med.umich.edu/bioc/bin/windows/contrib/2.15"

Upon going to "http://brainarray.mbni.med.umich.edu/bioc/bin/windows/contrib/", I found that the v2.15 has been removed and only v3.0 is there now.

To download that, how should I change the commands? Or will you guys update it soon?

Also, after using biocLite(), it prompts me about whether I would like to update all/some/none packages (a/s/n), but it doesn't respond to any inputs ('a', 'all', etc.) and I'm forced to quit it using 'esc'. Any idea what the problem might be??

Thanks!

 -- output of sessionInfo(): 

> biocLite()
BioC_mirror: http://bioconductor.org
Using Bioconductor version 2.11 (BiocInstaller 1.8.3), R version 2.15.
Installing package(s) 'Biobase' 'IRanges' 'AnnotationDbi'
Warning: unable to access index for repository http://brainarray.mbni.med.umich.edu/bioc/bin/windows/contrib/2.15
Warning: package ‘Biobase’ is in use and will not be installed
trying URL 'http://bioconductor.org/packages/2.11/bioc/bin/windows/contrib/2.15/IRanges_1.16.6.zip'
Content type 'application/zip' length 2048190 bytes (2.0 Mb)
opened URL
downloaded 2.0 Mb

trying URL 'http://bioconductor.org/packages/2.11/bioc/bin/windows/contrib/2.15/AnnotationDbi_1.20.7.zip'
Content type 'application/zip' length 4200978 bytes (4.0 Mb)
opened URL
downloaded 4.0 Mb

package ‘IRanges’ successfully unpacked and MD5 sums checked
package ‘AnnotationDbi’ successfully unpacked and MD5 sums checked

The downloaded binary packages are in
	C:\Users\Rishi\AppData\Local\Temp\RtmpmETHDq\downloaded_packages
Warning: unable to access index for repository http://brainarray.mbni.med.umich.edu/bioc/bin/windows/contrib/2.15
Old packages: 'cluster', 'foreign', 'KernSmooth', 'lattice', 'Matrix', 'mgcv',
  'nnet', 'rpart', 'snow', 'survival', 'XML'
Update all/some/none? [a/s/n]: all
Update all/some/none? [a/s/n]: all
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: a
Update all/some/none? [a/s/n]: s
Update all/some/none? [a/s/n]: s
Update all/some/none? [a/s/n]: d
Update all/some/none? [a/s/n]: d
Update all/some/none? [a/s/n]: n
Update all/some/none? [a/s/n]: 

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