[BioC] johnson.all.pairs.sp (RBGL) causes R to hang with certain graphs

[Seth Falcon]

"Dan Bebber" <danbebber at forestecology.co.uk> writes:

> Hello,
>
> when I apply johnson.all.pairs.sp to certain graphs, R hangs.
> The R window can still be resized, minimized etc. and the "stop current 
> computation" button can be pressed (though nothing happens).
> The computation can be interrupted by attempting to close R, then pressing 
> "cancel" when the "save workspace" dialogue opens. However, R then becomes 
> unstable and shuts down without warning.
> The error also causes R to shut down occassionally.
> I have this problem with 2 of 35 graphs I am analysing.
>
> I can provide an example of a test graph if anyone would be kind enough to 
> test this on their system.
>
> System is:
> Microsoft Windows XP Pro, SP2
> Dual Pentium Xeon processors
> 2Gb Ram
>
> Software is:
> R 2.3.0
> RBGL 1.7.10

Please try updating to the current release of RBGL, version 1.8.1
available here:
http://bioconductor.org/packages/1.8/bioc/html/RBGL.html

If you see the same behavior, then a reproducible case would be most
welcome.

Best,

+ seth