OK, my apologies. As I said I wasn't certain what it does when CPUs is set to zero. So that isn't an issue. If you've got 2 WUs running at 50% CPU each then you are fully crunching... when your computer is not in use.

rriggs, if you are actively using that computer much at all... your settings are preventing you from getting much work done. You see you've told BOINC to wait until you've not used your computer for 3 minutes before it runs. Then it starts running. When you return to use your computer, you've told it to remove the applications from memory, and so any work it has performed since the last checkpoint will be lost. Since Rosetta typically checkpoints no more than every 20 minutes, if you have left your computer for 15 minutes, then you've crunched for 12 minutes (after waiting for the 3 minute delay before it starts) and then when you use your computer again, you are throwing away the 12 minutes of work. And so you later have to redo that 12 minutes of work.

Now, you also have a dual-core CPU. So you could be crunching 2 work units at the same time. But you have set BOINC to only use one. You can set the "On multiprocessors, use at most" setting to 2 and use both of them. I'm not positive what it does when you have that set to zero.

Now that you are viewing this message board, click the "Participants" link in the heading of the screen. In the "Preferences" section, click the link for "view or edit" of General preferences. Any changes made there require BOINC to update to the project to take effect. This is done from the projects tab of BOINC, select Rosetta, then click the update button.

The watchdog is trying to assure your computer doesn't get stuck in an unexpected loop on a work unit. If it notices no progress on a work unit in 5 restarts, then it ends it. Do you restart this computer frequently? Or have a number of other projects running in BOINC?

If you would, go to your General Preferences, and let us know what you have set for "Switch between applications every...minutes", and for "Leave applications in memory while preempted?". And is Rosetta your only BOINC project?