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World Community Grid Forums
Category: Completed Research
Forum: Human Proteome Folding - Phase 2
Thread: Running out of new work April 26th? |
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Thread Status: Active Total posts in this thread: 30
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uplinger
Former World Community Grid Tech Joined: May 23, 2005 Post Count: 3952 Status: Offline Project Badges: 
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We have some batches beyond nh. Not running out of work just yet :)
We have built on our servers up to batch NJ714. -Uplinger |
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martin64
Senior Cruncher Germany Joined: May 11, 2009 Post Count: 445 Status: Offline Project Badges: 
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We have built on our servers up to batch NJ714. -Uplinger Huh, last minute upgrade.  Good to know that the project is going on (for another 18-20 days). On the other hand, it would be a sign of respect to share with the crunchers some info about the type of work being done...  Regards, Martin  |
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
We have built on our servers up to batch NJ714. -Uplinger Huh, last minute upgrade. Good to know that the project is going on (for another 18-20 days). On the other hand, it would be a sign of respect to share with the crunchers some info about the type of work being done... Regards, Martin I was wondering the same thing, since the last post from Patrick Winters said they don't have anything planned after NH. |
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
Hello,
I see there's been some worry. We've been stalling starting any large experiments in anticipation of our next big initiative. I've been developing more work units as necessary, folding Candidatus Desulforudis audaxviator (an interesting bacterium). From Wikipedia: it has survived for millions of years on chemical food sources that derive from the radioactive decay of minerals in the surrounding rock, making it one of the few organisms known that does not depend on sunlight for nourishment and the only species known to be alone in its ecosystem The current plan, to keep you all informed, is to annotate proteins from the Human Microbiome Project. Compiling the protein sets for this data is proving to be extremely complicated. With such a huge number of sequence reads, we want to make sure we target proteins that are truly novel for the WCG. This is going to be a major undertaking and may result in some new publicity from IBM. With that in mind I don't want to give too much away, but I can assure you we will roll it out with plenty of information. We have a huge backlog of work here at the lab preparing our manuscript, but things are looking very good. We may continue to produce work units on an "as needed" basis until we can finalize things for the microbiome project. I'll try to keep you all informed. -- Patrick |
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Sekerob
Ace Cruncher Joined: Jul 24, 2005 Post Count: 20043 Status: Offline |
Thanks for that Patrick.
----------------------------------------Was there word on the beta tested 6.17 version? Think there are quite a few that want to give this research a set-and-forget access on there science selection list, but if 40% or more for some goes belly up, it's not satisfying, regardless of the WCG policies on giving credit for errored out work. Thanks.
WCG
----------------------------------------Please help to make the Forums an enjoyable experience for All! [Edit 1 times, last edit by Sekerob at Apr 26, 2010 6:33:23 PM] |
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martin64
Senior Cruncher Germany Joined: May 11, 2009 Post Count: 445 Status: Offline Project Badges:
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Hi Patrick,
----------------------------------------thanks a lot for the info - this sounds great. So no more threat of running out of WUs.  Regards, Martin |
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rilian
Veteran Cruncher Ukraine - we rule! Joined: Jun 17, 2007 Post Count: 1443 Status: Offline Project Badges: 
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Patrick, thanks for update!
----------------------------------------Very interesting bacterium, that may lead to understanding of life appearing on Earth! ---------------------------------------- [Edit 1 times, last edit by rilian at Apr 26, 2010 7:01:34 PM] |
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
Bacteria like Desulforudis audaxviator are great because they perform all sorts of metabolic reactions that we don't normally see in model organisms. Things in this category are under investigation for breaking down toxic waste, producing biofuels, etc. We'll continue to fold proteomes that have either direct interest to us or general benefit to the community, but with the microbiome project we'll be able to re-focus on human health. You have many more bacterial cells on and in you than you are composed of yourself. They have wide ranging health effects, and it will be incredibly interesting to annotate the protein space.
I can't say much for the beta Rosetta version IBM has been working on. They are all incredibly hard working and intelligent people; so I would bet that they've isolated the problem. As a computer programmer, I can understand the difficulty, but when you realize that the WCG has compiled Rosetta to run an so many architectures and environments it feels impossible. Rosetta is a complicated piece of software that has grown organically over the years. Hats off to IBM for coming up with a beta fix. |
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uplinger
Former World Community Grid Tech Joined: May 23, 2005 Post Count: 3952 Status: Offline Project Badges:
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Thanks for that Patrick. Was there word on the beta tested 6.17 version? Think there are quite a few that want to give this research a set-and-forget access on there science selection list, but if 40% or more for some goes belly up, it's not satisfying, regardless of the WCG policies on giving credit for errored out work. Thanks. Sek, the slow part of the link was me on the beta test. The results on the beta test were not 100% complete so I was waiting on that before sending them the results. They recently have received the results and I have asked them to evaluate them and let us know if the results look good. We need to give them time to evaluate the results to make sure everything science wise is still good. Thanks, -Uplinger |
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martin64
Senior Cruncher Germany Joined: May 11, 2009 Post Count: 445 Status: Offline Project Badges:
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We have some batches beyond nh. Not running out of work just yet :) We have built on our servers up to batch NJ714. -Uplinger We are flying through the batches, reaching NJ714 mid next week. So what's next? Give us food!  Regards, Martin |
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