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Minirosetta 2.10

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Mike Tyka

Joined: Oct 20 05
Posts: 96
ID: 5612
Credit: 2,190
RAC: 0
Message 65733 - Posted 12 Apr 2010 18:35:26 UTC

This is the first update for some time, we've added a lot of functionality, maybe Sarel can comment in more detail ?

Please post bug reports here !


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http://beautifulproteins.blogspot.com/
http://www.miketyka.com/

Sarel Profile

Joined: May 11 06
Posts: 51
ID: 81994
Credit: 81,712
RAC: 0
Message 65737 - Posted 13 Apr 2010 0:43:47 UTC

As David mentioned in his recent posts (see link below), we've recently identified a redesigned protein that binds specifically to influenza. We're all very excited about this result and experimental tests are under way. Importantly, this design came from one of the previous batches of ProteinInterfaceDesign protocols that I sent out during January and February and this would not have been possible if it weren't for your contributions! I'm very excited to see whether we can get more designs that bind so effectively to influenza!

The current update has some features that will help us sample different scaffolds more efficiently. I've submitted a small-scale run to Rosetta @ Home to see that all of the protocols run well on your computers and will gradually increase their size over the next few weeks. Please report any problems. Many thanks!

Link to David's blog entry: http://boinc.bakerlab.org/forum_thread.php?id=1177&nowrap=true#65709

If you have any questions and comments on the influenza binder please post them here:
http://boinc.bakerlab.org/forum_thread.php?id=4477
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Paul D. Buck Profile

Joined: Sep 17 05
Posts: 815
ID: 269
Credit: 1,812,737
RAC: 0
Message 65745 - Posted 15 Apr 2010 8:15:39 UTC

I woke to a crash of this task that put a pop-up dialog box on my computer that had to be dismissed. In the mean time, the task was "locked" so my computer was sub-optimal in running ... in essence I had an idle core ... un-good ...

svincent

Joined: Dec 30 05
Posts: 202
ID: 44923
Credit: 4,404,794
RAC: 6,286
Message 65751 - Posted 16 Apr 2010 14:59:12 UTC

Task 331986155 gave Compute Error on Mac.

Starting watchdog...
Watchdog active.
terminate called after throwing an instance of 'std::bad_alloc'
what(): std::bad_alloc
SIGABRT: abort called

+ tons of debug info

BiggerBetterDeal

Joined: Nov 13 09
Posts: 1
ID: 358241
Credit: 185,349
RAC: 0
Message 65759 - Posted 17 Apr 2010 4:38:48 UTC

I have had tasks the last two evenings that have ended with computation errors and have forced an exception end to the C++ Runtime environment. I could send the event log if it would help in debug (posting now without checking first to see if you already specified what to provide you - will look now after the fact)- running XP SP3 on a Dual Core processor with 4GB RAM.

Sarel Profile

Joined: May 11 06
Posts: 51
ID: 81994
Credit: 81,712
RAC: 0
Message 65764 - Posted 17 Apr 2010 15:55:31 UTC

The crashes with bad alloc all come from the same set of runs, which share in common a different type of input file. I'm not sure what's causing the crash so in the meantime, I've eliminated these runs from the queue. Work units that have already been sent out will still run (and it looks like the crashes are rare events) but they should be ending within the next day or two. I'll let you know before I relaunch this type of job what was the problem. Thanks, Sarel.
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svincent

Joined: Dec 30 05
Posts: 202
ID: 44923
Credit: 4,404,794
RAC: 6,286
Message 65799 - Posted 21 Apr 2010 22:37:18 UTC

Task 332824621 (t469__boinc_rosetta_cm_loopbuild_threading_tex_IGNORE_THE_REST_19621_1890_0) gave a Validate Error on Mac. "Too many error results" according to the Workunit Log.

A wingman ran into the same problem on W7.

Message boards : Number crunching : Minirosetta 2.10


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