[R-SIG-Mac] Bus error while updating packages

[Simon Urbanek]

I think I have traced the bug. It's fixed in 2.6.2 patched, but also  
just in time for the Mac 2.6.2 CRAN binary released today.

Cheers,
Simon


On Feb 7, 2008, at 9:58 PM, Michael Kubovy wrote:

> Can anyone suggest what I may be doing wrong?
>
> I had issued the command update.packages(), after which I went through
> the usual dialog:
>
> mixtools :
>  Version 0.2.0 installed in /Library/Frameworks/R.framework/Resources/
> library
>  Version 0.3.0 available at http://lib.stat.cmu.edu/R/CRAN
> Update (y/N/c)?  y
> …
> tsDyn :
>  Version 0.5-7 installed in /Library/Frameworks/R.framework/Resources/
> library
>  Version 0.6-0 available at http://lib.stat.cmu.edu/R/CRAN
> Update (y/N/c)?  y
> trying URL 'http://lib.stat.cmu.edu/R/CRAN/bin/macosx/universal/contrib/2.6/mixtools_0.3.0.tgz'
> Content type 'application/x-gzip' length 325712 bytes (318 Kb)
> opened URL
> ==================================================
> downloaded 318 Kb
> …
> trying URL 'http://lib.stat.cmu.edu/R/CRAN/bin/macosx/universal/contrib/2.6/tsDyn_0.6-0.tgz'
> Content type 'application/x-gzip' length 519954 bytes (507 Kb)
> opened URL
> ==================================================
> downloaded 507 Kb
>
>
>  *** caught bus error ***
> address 0x20, cause 'non-existent physical address'
>
> Traceback:
>  1: unlink(instPath, recursive = TRUE)
>  2: unpackPkg(foundpkgs[okp, 2], foundpkgs[okp, 1], lib,
> installWithVers)
>  3: .install.macbinary(pkgs = pkgs, lib = lib, contriburl =
> contriburl,     method = method, available = available, destdir =
> destdir,     installWithVers = installWithVers, dependencies =
> dependencies)
>  4: install.packages(update[instlib == l, "Package"], l, contriburl =
> contriburl,     method = method, available = available, ..., type =
> type)
>  5: update.packages()
>
> I am running
> R version 2.6.1 (2007-11-26)
> i386-apple-darwin8.10.1
>
> locale:
> en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
>
> _____________________________
> Professor Michael Kubovy
> University of Virginia
> Department of Psychology
> USPS:     P.O.Box 400400    Charlottesville, VA 22904-4400
> Parcels:    Room 102        Gilmer Hall
>         McCormick Road    Charlottesville, VA 22903
> Office:    B011    +1-434-982-4729
> Lab:        B019    +1-434-982-4751
> Fax:        +1-434-982-4766
> WWW:    http://www.people.virginia.edu/~mk9y/
>
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>