From: David Winsemius <dwinsemius at comcast.net>
Date: Sun, 1 Mar 2009 12:39:07 -0500
To: Loren Engrav <engrav at u.washington.edu>
Cc: "r-sig-mac at stat.math.ethz.ch" <r-sig-mac at stat.math.ethz.ch>
Subject: Re: [R-SIG-Mac] Error: package 'affyio' is not installed for
'arch=x86_64'
It's a bit difficult to comment about what sort of quasirandom event
may have affected the integrity of your device, but here is a theory
based on my experience: If you updated from binaries (32 bit) that
were on the Bioconductor server, then you may have overwritten your
compiled source 64 bit versions. It is rather easy to do that without
noticing if you are using the GUI Installer. (The fix is also very
easy.)
--
David Winsemius
On Mar 1, 2009, at 12:11 PM, Loren Engrav wrote:
Greetings
SessionInfo()
R version 2.8.0 Patched (2008-11-06 r46845)
i386-apple-darwin9.5.0
locale:
en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] tools stats graphics grDevices utils datasets
methods
base
other attached packages:
[1] affy_1.20.0 affyio_1.10.1 Biobase_2.2.2 maanova_1.12.0
loaded via a namespace (and not attached):
[1] preprocessCore_1.4.0
And MacOS X 10.5.6
Last Nov I ran some 64bit stuff, no problem, and have not installed
removed
any R or BioC stuff since then
Now I need to rerun and for several packages I get
package 'xxx' is not installed for 'arch=x86_64'
So I do
source ("http://www.bioconductor.org/biocLite.R")
biocLite (c("xxx", "yyy", "zzz"), type="source")
And reload them
And then things work
My question: where how why did my 64bit stuff go?
Thank you