Posts by alo

1) Message boards : Rosetta@home Science : Algorithm Discussion (Message 11272) Posted 23 Feb 2006 by alo_dk Post: I'm looking for something aimed at programmers, but something's better than nothing. Another try at talking about the algorithem was here: Genes...
2) Message boards : Cafe Rosetta : Team Thread (Ads only, not for discussions) (Message 9888) Posted 26 Jan 2006 by alo_dk Post: If you are from Denmark or would like to join a nice hardworking team, then read more about BOINC@Denmark here Velkommen til BOINC@Denmark or Welcome to BOINC@Denmark. If you just want to join now, do it here. Our Forum is very active and we have lots of fun . We had a x-mas competition where a user won a bottle of snaps, for the best RAC improvement in November. And an other one is running right now! And we all love our webmaster
3) Message boards : Rosetta@home Science : RMSD of 1.07? (Message 9883) Posted 26 Jan 2006 by alo_dk Post:
4) Message boards : Rosetta@home Science : Bottleneck and Results (Message 9497) Posted 21 Jan 2006 by alo_dk Post: Has the "Genes as a method of cearching" approach been looked into yet?
5) Message boards : Number crunching : Recent Average Credit (Message 9318) Posted 19 Jan 2006 by alo_dk Post: If this is usefull for the Wiki too, please use it: This is based on my understanding of RAC and I hope it is close to the truth. :-) ------------------------------------- RAC is an "infinit sum" like this: 1 + 1/2 + 1/4 + 1/8 + 1/16 + 1/32 + 1/64 + 1/128... If we make a simple program that calculates this (in Basic) 10 x_now = 0 20 X_Fraction = 1 30 x_now = x_now + x_Fraction 40 x_Fraction = X_Fraction/2 50 goto 30 Each time the loop 30-40-50 runs a smaler fraction is added, but in each loop you only add 2 numbers. X_now holds the values (a sum) of every previous calculation. This is how the RAC works. RAC(new)=RAC(old)d(t)+ (1-d(t))credit(new) This part "RAC(old)d(t)" holds the result of all previous calculations of the RAC back to the very first RAc given based on the first credit. The value of the RAC(old) is multiplicated by a value "d(t)" less than 0.5. If RAC(old) is long ago "d(t)" will be very small (like .012). "(1-d(t))credit(new)" is the amount of credit added from the new credit, to RAC. As you can see it is multiplicated by "(1-d(t))". In the above example the value will be: (1- d(t)) = (1-.012)= .988 This means that the new credit will allmost exclusivly decided by the size of the new Credit. Like this: RAC(new)=RAC(old)d(t)+ (1-d(t))credit(new) RAC(new)=RAC(old).012+ .988credit(new) If, on the other hand, the last credit was very recent, the d(t) numbers would be different and the numbers could end up like this(I guess): RAC(new)=RAC(old)d(t)+ (1-d(t))credit(new) RAC(new)=RAC(old).488+ .512credit(new) ------------------------------------- I hope this makes RAC more easily understood. If I am very wrong, please correct me!
6) Message boards : Cafe Rosetta : Hellooooooooo (Message 9113) Posted 15 Jan 2006 by alo_dk Post: , hi from Denmark!
7) Message boards : Cafe Rosetta : Teammember recruiting thread (No. 1) (Message 9107) Posted 15 Jan 2006 by alo_dk Post: If you are from Denmark or would like to join a nice hardworking team, then read more about BOINC@Denmark here Velkommen til BOINC@Denmark or Welcome to BOINc@Denmark. If you just want to join now, do it here. Our Forum is very active and we have lots of fun . We had a x-mas competition where a user won a bottle of snaps, for the best RAC improvement in November. And we all love our webmaster
8) Message boards : Cafe Rosetta : Join 'Democratic Party' Team (Message 9077) Posted 15 Jan 2006 by alo_dk Post: Maybe USA can learn something from Denmark, one of the happiest people in the world ? About danish parlament More info here :-) from good old DK
9) Message boards : Rosetta@home Science : Screensaver needs to be more fluid please (Message 8495) Posted 6 Jan 2006 by alo_dk Post:
10) Message boards : Rosetta@home Science : Graphics WU Observation (Message 8312) Posted 4 Jan 2006 by alo_dk Post: I have sendt the above idea to the Q&A->Wish-list.
11) Questions and Answers : Wish list : Saving foldings to an online gallery (Message 8308) Posted 3 Jan 2006 by alo_dk Post: Sometimes I would like to be able to save the "Low Energy" window and sendt it(perhaps as a data-set)back to the Rosetta-server. Then some of the interesting or funny looking foldings could be collected in a gallery. If there is a limit of 3 Foldings per user per day, you can stop the gallery server from being misused. Foldings could be saved for 1 month or up to a space limit. Mabye some foldings could be marked important and stay for longer, if they are refered to in the forum. If the gallery server send back an e-mail to the user telling the number of the saved folding, you can then refer to it in later discussions in the forums. Just an idea for the graphics in v. 4.82 or later.
12) Message boards : Rosetta@home Science : Graphics WU Observation (Message 7948) Posted 30 Dec 2005 by alo_dk Post: Sometimes I would like to be able to save the "Low Energy" window and sendt it(perhaps as a data-set)back to the Rosetta-server. Then some of the interesting or funny looking foldings could be collected in a gallery. If there is a limit of 3 Foldings per user per day, you can stop the gallery server from being misused. Foldings could be saved for 1 month or up to a space limit. Mabye some could be marked important and stay for longer, if they are refered to in the forum. If the gallery server send back an e-mail to the user telling the number of the saved folding, you can then refer to it in later discussions in the forum. Just an idea for the graphics in v. 4.82 or later.
13) Message boards : Rosetta@home Science : Genes as a method of cearching (Message 7635) Posted 25 Dec 2005 by alo_dk Post: Thank you. I hope that you do. It would be fun to join. I will be keeping an eye on the progress on this thread.
14) Message boards : Rosetta@home Science : Genes as a method of cearching (Message 7624) Posted 25 Dec 2005 by alo_dk Post:
15) Message boards : Number crunching : BIG credit problem! User has a zillion credits! (Message 7621) Posted 25 Dec 2005 by alo_dk Post:
16) Message boards : Rosetta@home Science : Genes as a method of cearching (Message 7512) Posted 24 Dec 2005 by alo_dk Post: try it here: http://www.aridolan.com/ga/gaa/gaa.html me again :-)
17) Message boards : Rosetta@home Science : Genes as a method of cearching (Message 7480) Posted 24 Dec 2005 by alo_dk Post: To the programmers: One way of doing this: If you have a protein chain. You can take the angle(amino-x to amino-x+1)and call this data one gene. If you then take the best 1028 results, and save all the angles for each amino pair. This is the basic population. a. Next step is to pair them up, and mix the genes(angels for each amino-pair) makeing 16 new angel sets from each pair.(babies) b. Now comes testing witch ones are the best fit. This can be done in by "shaking" them in the rosetta programe and seeing how low an energy they fall to. c. When the results come back, keep the best 1024 results and let them be the next set of parents. repeat a-c. Just an example. Regards Anders
18) Message boards : Rosetta@home Science : Genes as a method of cearching (Message 7472) Posted 24 Dec 2005 by alo_dk Post: I have done a little java programing and came across this programming strategy. http://ai.bpa.arizona.edu/~mramsey/ga.html http://www.aic.nrl.navy.mil/galist/src/ Maybe you can use it as one of the methods in Rosetta? Thanx for a nice project. Regards Anders.

Posts by alo_dk