Folding@Home - Binding of a Ligand (small molecule drug) to Proteins

Stanford University Biotechnology Dept ^ | Jan 03, 2008 | Peter Kasson

[DocRock]

According to Extreme Overclocking stats... we have achieved the status of the 50th most productive team in the world!

[DocRock]

ping

[HKMk23]

I posted my first WU exactly 20 months ago, and just broke the 100,000 mark TODAY!

WOO HOO!!

Next target is 500WU!

P-ding!!

[dfwddr]

BTTT

[LearnsFromMistakes]

the version I had running won’t restart for me - the beta expired. I still have it running on 1 pc, but my other pc is doing nothing. I didn’t see another beta out there - what next?

[HKMk23]

Two suggestions:

1. Roll back to an earlier non-beta executable.
Download the earlier executable and replace the timed-out beta executable with that earlier one. You MIGHT need to also delete your cfg file and run the executable with the “-configonly” switch to ensure it is set up properly. [Since it’s a text file, you could as easily rename the cfg file with a txt extension so you don’t lose the information in it.]

2. Get more specific help at the FAH Forums: http://foldingforum.org/

Good luck!

[LearnsFromMistakes]

OK, got it. Thanks.

I thought the beta was something special, didn’t pay much attention to what I was doing... Good to have these cores going again, just have to patch my stuff at home now.

Wish I could get my macbook started. Fastest PC I have, but we use it too much...

I am able to play games on my Pentium D while using both cores - and the games (usually) run pretty well. Don’t know if I am actually getting any folding done while playing, but they keep running and don’t seem to kill my game...

[colinhester]

Anyone know if an Intel P4 Hyper-thread chip can run two F@H programs? I picked up an old IBM for next to nothin’ and loaded F@H. Everything works fine, except I’m only at 50% CPU usage.

Should be getting WU sent back for this and two new systems within a few days. Got to get my numbers back up!

Thanks......Colin

[HKMk23]

Take a shot at doing what I describe up-thread in post 35.

I don't have two separate processors, I have a single dual-core chip, so I'm thinking that the same strategy MIGHT work with a hyper-threading CPU, also.

-- OR --

Take a jog over to the folding forums and see what folks over there have to say about it.

[colinhester]

That looks like it. I’ll give it a try. Thank you very much......Colin

[texas booster]

HKMk23 described the process correctly. Follow his instructions and you’ll do fine.

In all fairness a P4 Hyper threaded CPU is not a dual core CPU. Ir WILL run two instances of F@H but not any faster than running one F@H (according to the experts). Has to do with the chip architecture and the level 1 cache.

Use of two kernals in one P4HT is discouraged because it takes each kernal longer to complete, and slightly slows the science down.

I have done it and find that I receive a few more points off the box. Go figure.

Thanks to all for keeping this thread alive while I fly to a different city every day.

[colinhester]

Thanks for the insight. I think I’ll leave well enough alone for now. I did get F@H installed on one more computer today.

I’m going to ask my father to install on his new PC. I wonder if the units will still count, since he’s a card-carrying member of the Arkansas Democrat Party :) .....

[EasySt]

If you are folding on a PlayStation 3, and have not stopped and started your client in the last week or two, you might wish to do so now. There is a client update out for the PS3 folding application to V. 1.31, which fixes some network issues...

[texas booster]

Folding@Home FAQ for new users:

What is Folding@Home? A Stanford University project to find out how proteins fold.

Why it's important: Proteins folding wrong causes all kinds of diseases, like Alzheimer's, Parkinson's, and forms of cancer. Folding@Home uses novel computational methods and large scale distributed computing, to simulate timescales thousands to millions of times longer than previously achieved. Through Folding@home, scientists now have the horsepower to study the mechanics of protein folding. With its ability to share the workload among hundred of thousands of computers economically, Folding@home can help scientists understand how proteins snap, or don't, into their predestined shapes - and may help to explain the origins of diseases such as Alzheimer's and apparently unrelated diseases. We're fueling research that could end all that.

How does it work?: You download a safe, tested program (see link below) that is certified by Stanford University. It gets work from Stanford, runs calculations using your spare computer power, and sends the results back to the University.

Is it safe? Yes! Folding@Home rarely effects computer performance in any way and won't compromise your privacy in any way. It only uses the computing power you aren't using so it doesn't slow down other programs.

How do I get started folding for Team FreeRepublic?:
1.) Download the folding program from Stanford University's folding download page (Folding@home Client Download). Type in your desired user-name.
2.) Type in 36120 for the team number. THIS IS VERY IMPORTANT - if you get the number wrong, you won't be folding for team FreeRepublic!
3.) The third question asks, "Launch automatically at machine startup, installing this as a service?" - We recommend you answer YES. Otherwise you will have to manually start the program after every reboot.

How can my computer help? Even if they were given exclusive access to all of the world's supercomputers, Stanford still wouldn't have as much processing power as they get from the supercluster of people's desktop systems Folding@home relies on. Modern supercomputers are essentially a cluster of hundreds of processors linked by fast networking. But Stanford needed the power of hundreds of thousands of processors, not just hundreds.

There's no reason to not get involved! It's free, easy, and you can know you're helping every minute without lifting a finger.

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List of Relevant Folding Links
Why Fold - Watch This !!

Another Folding Clip

The Inner Life of a Cell

Folding@home Client Download

FreeRepublic.com Folder Stats

Extreme Overclockers Stats for FreeRepublic

Another Stats Page

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Competition (Not!!) Dummies ..Daily Kos

Dummie Folding Threads #7 #8 #9#10#11 #12
Hey DUmmies, can't ya'll post a new thread at least once a year?

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Other Useful Stuff - Links

How much are those work units worth? And what are they?
All Projects Listed
Point Summary for Workunits

Stat Image Generator

Fahmon Third Party Monitoring Software

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Past FreeRepublic Folding threads

#1 #2 #3 #4 #5 #6 #7 #8 #9 #10 #11 #12 #13 #14 #15 #16 #17 #18 #19 #20 #21 #22 #23 #24 #25 #26 #27 #28 #29 #30 #31 #32 #33 #34 #35 #36 #37 #38 #39 #40 #41 #42 #43 #44 #45 #46 #47

[NY.SS-Bar9]

Next month looks like a 3-way horse race to be the next “millionaire”.