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LanDroid
Prince
Joined: 11 Jun 2002
Posts: 4476
Location: Cincinnati, OH U.S.
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 Posted: Sun Apr 29, 2012 8:08 pm Post subject: CPU Project of the Month May 2012 => CASP10 Competition |
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| Quote: | The main goal of CASP is to obtain an in-depth and objective assessment of our current abilities and inabilities in the area of protein structure prediction. To this end, participants will predict as much as possible about a set of soon to be known structures. These will be true predictions, not ‘post-dictions’ made on already known structures.
CASP10 will particularly address the following questions:
Are the models produced similar to the corresponding experimental structure?
Is the mapping of the target sequence onto the proposed structure (i.e. the alignment) correct?
Have similar structures that a model can be based on been identified?
Are comparative models more accurate than can be obtained by simply copying the best template?
Has there been progress from the earlier CASPs?
What methods are most effective?
Where can future effort be most productively focused?
http://predictioncenter.org/casp10/ |
This is a competition between several Boinc projects vs. independent labs. What does all this mean in practical terms? KWSN should start crunching Rosetta WU's on May 1. (FYI: Boinc Synergy has also selected Rosetta as PotM next month.) POEM will join this competition later in the 2nd half of May, so we'll need to keep an eye on that as well. |
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Sir Papa Smurph
Cries like a little girl
Joined: 18 Jul 2006
Posts: 4430
Location: Michigan
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| Posted: Mon Apr 30, 2012 9:32 am Post subject: |
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So, do I need to register with Casp? or just start running Rosetta?
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stooper101
Prince
Joined: 16 May 2009
Posts: 1248
Location: Cheese Country
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| Posted: Mon Apr 30, 2012 1:58 pm Post subject: |
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I don't think we register individually. It's a competition between projects and other entities like Universities, corporations, etc. who wish to compete (I think). For example, Rossetta will be competing and we will be helping rossetta (or insert any other project that is competing and we participate in).
It would be interesting to track our progress as related to Boinc Synergy
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Plomos
Prince
Joined: 26 Apr 2011
Posts: 859
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| Posted: Mon Apr 30, 2012 2:10 pm Post subject: |
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you simply need to run rosetta WU's. They will most likely show up with CASP10 in the unit name. They have already been running some CASP9 units to get ready for the competition.
On another related note is anyone getting crashes from POEM WUs? By that i mean my shrubber restarted itself when trying to start a POEM unit. Rosetta units run fine
Edit: I posted the POEM issue on their board as well to see what admins there say.
A correction to the way CASP10 WUs will be shown.
| Quote: | | If your work unit starts with the label rb you're running a CASP 10 target! rb is short for Robetta which is our publicly available server for structure prediction. |
Refer here for more
| Code: | | http://boinc.bakerlab.org/rosetta/forum_thread.php?id=5963#72941 |
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Mifun
Duke
Joined: 08 Jan 2012
Posts: 265
Location: Russia
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| Posted: Mon Apr 30, 2012 8:26 pm Post subject: |
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| Plomos wrote: | | On another related note is anyone getting crashes from POEM WUs? By that i mean my shrubber restarted itself when trying to start a POEM unit. Rosetta units run fine |
Works fine.
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Blurf
Prince
Joined: 03 Jan 2011
Posts: 1090
Location: Upstate NY
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| Posted: Mon Apr 30, 2012 9:13 pm Post subject: |
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Both my machines are on Rosetta
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LanDroid
Prince
Joined: 11 Jun 2002
Posts: 4476
Location: Cincinnati, OH U.S.
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| Posted: Tue May 01, 2012 9:03 am Post subject: |
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Rosetta starting stats:
19th Place
98,957,656 Total Points
65,065 RAC 19th Place
71,634 shrubbed yesterday
1,755,076 crunched last 28 days
19th Place Formula Boinc
Milestones:
Windisch passed 400,000
LanDroid passes 60,000
Ian passes 40,000
Sir Mifun Fat in a Right Place passes 200 |
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Sir Cracked of the Mind
Guest
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| Posted: Tue May 01, 2012 10:35 am Post subject: |
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OK im running it now.
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Nuadormrac
Prince
Joined: 13 Sep 2009
Posts: 506
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| Posted: Tue May 01, 2012 2:12 pm Post subject: |
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Seems if I let the WUs run to 8 hours, they terminate with an error that the work unit hit the end of the task, with all decoys processed Setting the time duration to less then, so they complete before starting the last model they complete sucessfully though; go figure.
And it seems Rosseta is now even more stingy with their credits, granting even LESS then their app claims for credit based on the work done. Most projects give a bit of an inflationary return on credits, from the claim, not a deflationary value.... I guess when the next phase of this completes, we should jump over prompto, so our credit return won't be minimilized to such an extent....
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Plomos
Prince
Joined: 26 Apr 2011
Posts: 859
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| Posted: Tue May 01, 2012 4:18 pm Post subject: |
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As for the issue with the work units not completing with a larger buffer David Baker from rosetta has this to say
| Quote: | | for CASP we need results back within a day or two, as our approach is iterative: we analyze the results after one day and send out another set of wu based on these results for two days of computing, then collect the results and submit to CASP. so please do set your buffer to a shorter time, and let us know if you are running out of wu. thanks! |
As for the low credit I've seen it drop off on my own units as well so not sure what is up there.
You can find more about CASP here
| Code: | | http://boinc.bakerlab.org/rosetta/forum_thread.php?id=5963 |
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Gemjunkie
Prince
Joined: 03 Jul 2010
Posts: 3519
Location: Earth, lately
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| Posted: Tue May 01, 2012 6:46 pm Post subject: |
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So what's with the 10 day deadline? 
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Plomos
Prince
Joined: 26 Apr 2011
Posts: 859
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| Posted: Tue May 01, 2012 7:00 pm Post subject: |
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That's been brought up by someone in the same thread as above but hasn't been answered yet. so idk
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LanDroid
Prince
Joined: 11 Jun 2002
Posts: 4476
Location: Cincinnati, OH U.S.
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| Posted: Tue May 01, 2012 8:42 pm Post subject: |
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Rosetta needs CASP10 results back in a day or two, therefore ignore the deadline and set your cache for 1 to 1.5 days. I notice the WU's seem to have a date stamp like "RB_04_29....." so get 'em cranked accordingly. Perhaps the 04_29's I'm finishing tonight are already too late? Damit!
I am sorry, but after documenting numerous Boinc point stats, here ya go:
https://www.youtube.com/watch?v=9KAGwNtI26w
You either believe in the value of the project or you don't. |
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Blurf
Prince
Joined: 03 Jan 2011
Posts: 1090
Location: Upstate NY
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| Posted: Wed May 02, 2012 9:51 am Post subject: |
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I'm aborting all non-CASP WU's I get from Rosetta.
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stooper101
Prince
Joined: 16 May 2009
Posts: 1248
Location: Cheese Country
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| Posted: Wed May 02, 2012 9:56 am Post subject: |
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I've been having bad luck with Rosetta WUs failing under boinc 7.0.25 (a known issue on Rosetta). But I need 7.x boinc for POEM, so I don't want to revert back to 6.x. I installed 7.0.26 and am trying it now, so cross your fingers!
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Sir Cracked of the Mind
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| Posted: Thu May 03, 2012 11:29 am Post subject: Points mean Prizes |
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The credit on this is looking very low, I will give it another 24 hours but if it dont improve im off to garden elsewhere..
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Plomos
Prince
Joined: 26 Apr 2011
Posts: 859
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| Posted: Thu May 03, 2012 1:29 pm Post subject: |
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The credit depends on how many models you are able to run through for each WU. If you login to your account on the rosetta site and click on tasks and then task details for one of the completed units you should see something like
DONE :: 9 starting structures 10246.5 cpu seconds
This process generated 9 decoys from 9 attempts
near the bottom of the stderr out section. A decoy is equal to a model, so this task got through 9 models before it ended. I got 34 credits for this one. In theory, the more decoys/models you get through the more credit you should get.
How many are you getting through per WU?
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Mifun
Duke
Joined: 08 Jan 2012
Posts: 265
Location: Russia
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| Posted: Thu May 03, 2012 3:41 pm Post subject: |
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granted credit: 114.67
DONE :: 44 starting structures 10580.7 cpu seconds
This process generated 44 decoys from 44 attempts
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Sir Papa Smurph
Cries like a little girl
Joined: 18 Jul 2006
Posts: 4430
Location: Michigan
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| Posted: Thu May 03, 2012 5:58 pm Post subject: |
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| Quote: | DONE :: 1 starting structures 10575.2 cpu seconds
This process generated 43 decoys from 43 attempts |
so how come I only get 73 credits from this one?
| Quote: |
Granted credit 73.36 |
Just under 3 hours for 73 credits... now I remember why I stopped running Rosetta....
6.5 hours on DistrRTgen gave me 1080 credits.
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a.k.a. Licentious of Borg.........Resistance Really is Futile.......
and a Really Hoopy Frood who always knows where his Towel is...
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Blurf
Prince
Joined: 03 Jan 2011
Posts: 1090
Location: Upstate NY
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| Posted: Thu May 03, 2012 6:40 pm Post subject: |
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Yeah I'm not happy with this at all......
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