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Jim1348
Veteran Cruncher USA Joined: Jul 13, 2009 Post Count: 1066 Status: Offline Project Badges: ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() |
According to the Rosetta@home scientists, the software isn't suitable for GPU's OK, I hadn't seen that mentioned here yet. Another area that would seem ripe for GPUs is climate research, but they say on Climateprediction.net that is not suitable either. I guess we will have to wait for a new generation of software entirely. |
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
Ha ha, and there I was reading of 9GB models being run at one project. Don't know of a GPU that has this, or the bandwidth to exchange all that data back to RAM and storage, but those with 32GB system ram were commenting that their octo showed jobs being frozen "waiting for memory" when trying to run more than 3 of those [they have not discovered <max_concurrent> yet.] Think multi-threading would be the better solution, to not have devices end up in RAM cram.
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Former Member
Cruncher Joined: May 22, 2018 Post Count: 0 Status: Offline |
Yeah, I looked at the Vina code a bit and found that the current step relied on the results from the previous step.. which is incremental/sequential and best suited for a single thread (If I'm reading that code correctly). The algorthm itself would most likely need to change in order to take advantage of GPU "data parallelism".
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rilian
Veteran Cruncher Ukraine - we rule! Joined: Jun 17, 2007 Post Count: 1460 Status: Offline Project Badges: ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() |
I'm in favor of having research on ageing. +100500 :) |
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Falconet
Master Cruncher Portugal Joined: Mar 9, 2009 Post Count: 3297 Status: Offline Project Badges: ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() |
Yeah, I looked at the Vina code a bit and found that the current step relied on the results from the previous step.. which is incremental/sequential and best suited for a single thread (If I'm reading that code correctly). The algorthm itself would most likely need to change in order to take advantage of GPU "data parallelism". VINA is used in DSFL, SN2S and GFAM. Rosetta is the one used in HPF2 ![]() - AMD Ryzen 5 1600AF 6C/12T 3.2 GHz - 85W - AMD Ryzen 5 2500U 4C/8T 2.0 GHz - 28W - AMD Ryzen 7 7730U 8C/16T 3.0 GHz |
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ngmwcg
Cruncher Joined: Jan 2, 2010 Post Count: 18 Status: Offline Project Badges: ![]() ![]() ![]() ![]() |
dpenfoldbrown I couldn't agree with you more that it is more useful to dedicate limited resources to tasks that can achieve broad benefit rather than targeting specific diseases or issues.
With that said, I want to double down on my suggestions for the Mole Rat and Jelly fish as those should produce broadly interesting and hopefully useful data not only for aging but other considerations as well. I also thinking aging is a pretty broad area to study as it is the root cause or factor in the many if not the majority of health issues. In general, it is the role of government, big companies, NGO's and big high risk funding to produce tools and data that will ultimately make it easy and inexpensive for startups and small companies to develop biological tests, treatments, drugs, etc... This is what happened in the computing space. Once big money was spent to develop low cost PCs and development software, the web and app movements took off. Thanks, -NGM |
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Falconet
Master Cruncher Portugal Joined: Mar 9, 2009 Post Count: 3297 Status: Offline Project Badges: ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() |
dpenfoldbrown I couldn't agree with you more that it is more useful to dedicate limited resources to tasks that can achieve broad benefit rather than targeting specific diseases or issues. With that said, I want to double down on my suggestions for the Mole Rat and Jelly fish as those should produce broadly interesting and hopefully useful data not only for aging but other considerations as well. I also thinking aging is a pretty broad area to study as it is the root cause or factor in the many if not the majority of health issues. In general, it is the role of government, big companies, NGO's and big high risk funding to produce tools and data that will ultimately make it easy and inexpensive for startups and small companies to develop biological tests, treatments, drugs, etc... This is what happened in the computing space. Once big money was spent to develop low cost PCs and development software, the web and app movements took off. Thanks, -NGM The project is ending soon... ![]() - AMD Ryzen 5 1600AF 6C/12T 3.2 GHz - 85W - AMD Ryzen 5 2500U 4C/8T 2.0 GHz - 28W - AMD Ryzen 7 7730U 8C/16T 3.0 GHz |
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