After release of Bioconductor 1.9, I had "faithfully" installed it site-wide, using the usual biocLite(lib= <...>) # default packages added by a few specific biocLite(<mypkg>, ...) However, today one of our users told me should couldn't use the 'affy' package --- which I can confirm --- because 'affy' on loading tries to load/attach "affyio", (and its DESCRIPTION has a 'Depends: ..... affyio' entry) but 'affyio' has not been installed by the above procedure. I believe the buglet lies in http://bioconductor.org/installScripts/2.4/biocinstall.R but am really a bit puzzled... Martin
[Bioc-devel] biocinstall.R bug(?) : "lite" not installing affyio
2 messages · Martin Maechler
Hmm, when I now rerun biocLite(), 'affyio' *is* installed. So, either, I the installation on Oct.5 I did had been interrupted for some reason and there was never a bug, or the bug was present only very initially. Sorry for the noise. Martin
"Martin" == Martin Maechler <maechler at stat.math.ethz.ch>
on Fri, 20 Oct 2006 10:44:16 +0200 writes:
Martin> After release of Bioconductor 1.9,
Martin> I had "faithfully" installed it site-wide, using the usual
Martin> biocLite(lib= <...>) # default packages
Martin> added by a few specific
Martin> biocLite(<mypkg>, ...)
Martin> However, today one of our users told me should couldn't use
Martin> the 'affy' package --- which I can confirm ---
Martin> because 'affy' on loading tries to load/attach "affyio",
Martin> (and its DESCRIPTION has a 'Depends: ..... affyio' entry)
Martin> but 'affyio' has not been installed by the above procedure.
Martin> I believe the buglet lies in
Martin> http://bioconductor.org/installScripts/2.4/biocinstall.R
Martin> but am really a bit puzzled...