Posts by Cureseekers~BioInf

1) Message boards : Number crunching : Rosetta gets only 60% of cpu power (AMD 64, 64bit linux) (Message 11342) Posted 24 Feb 2006 by Cureseekers~BioInf Post: Maybe source code needs te become public to build a faster version? the source code is avaliable, see the BOINC web site The source for BOINC is indeed avaliable. But according to this: url: http://boinc.berkeley.edu/anonymous_platform.php When you want to use the app_info.xml file: "This model is possible only with projects that make their application source code available." With applecation, they ment Rosetta. And as far is i know, the source of seti is public, and the source of rosetta is not. ah, sorry, thought you ment boinc when you said The score for rosetta are only based on the variables time and cpu score. So, the problem lies with the compiler. Maybe source code needs te become public to build a faster version? because the benchmarks are from boinc, not the science apps i'm guessing you know the source for boinc is completely seperate from the apps, and you can use a custom compiled boinc client, witht the standard apps (and custom apps with the standard client) the app_info.xml mechanism is to be able to use your own apps and get around the fact that they won't be signed with the correct key so i suppose it depends which you want to make faster? Indeed. I want to make the BOINC benchmark faster. Not the rosetta client. But there is the problem, i already have an 64Bit linux boinc version, wich is much faster then the 32 bit one, but cant get the app_info.xml working. I want to figure out why!
2) Message boards : Number crunching : Rosetta gets only 60% of cpu power (AMD 64, 64bit linux) (Message 10659) Posted 11 Feb 2006 by Cureseekers~BioInf Post: Maybe source code needs te become public to build a faster version? the source code is avaliable, see the BOINC web site The source for BOINC is indeed avaliable. But according to this: url: http://boinc.berkeley.edu/anonymous_platform.php When you want to use the app_info.xml file: "This model is possible only with projects that make their application source code available." With applecation, they ment Rosetta. And as far is i know, the source of seti is public, and the source of rosetta is not.
3) Message boards : Number crunching : Rosetta gets only 60% of cpu power (AMD 64, 64bit linux) (Message 10632) Posted 10 Feb 2006 by Cureseekers~BioInf Post: okay, i just figured out why are the scores are lower. Its for the very simple reason: The benchmark scores are lower than on equal windows systems. Our 3500+ scores 3300/5300, while on a windows system a system like this wil score 3300/9000. The score for rosetta are only based on the variables time and cpu score. So, the problem lies with the compiler. Maybe source code needs te become public to build a faster version?
4) Message boards : Number crunching : Stats of 1 machine? (Message 8950) Posted 13 Jan 2006 by Cureseekers~BioInf Post: I have some Linux commandline based computers working for Rosetta. But i cant see the daily output from these machines. (cant connect to them remotely)There is only an 'daily average' on the info page, but sometimes this is far from reality. If you clik om the results link for the computer in question, you get al list of all running and returned results. There is a way to build a script for this, and extract the resuls pro day from the site. After that you can creat some graphical output or just save it in Excel or something. But are there any other solutions around? Or is there someone who already created this? I really like to see the output of every computer, so if they fail i can see it within one day.... For illustration, i mean stats of this kind a page: http://boinc.bakerlab.org/rosetta/results.php?hostid=119950
5) Message boards : Number crunching : Rosetta gets only 60% of cpu power (AMD 64, 64bit linux) (Message 8948) Posted 13 Jan 2006 by Cureseekers~BioInf Post: There's really no point in running an "optimized" core client. Or... you use a 3rd party boinc client (like Trux's) that has some extra functionality which you need. In general, these 3rd party boinc clients are "optimized". okay, but iam already using these cores. I used the one from crunch3r. But still only 300 points a day instead of 600 points. Why's that? Besides, http://boinc.truxoft.com/, is only for windows.... Someone an idea? But still only 300 points a day instead of 600 points. Why's that? (A64-3500+, 24/7 95%cpu)
6) Message boards : Number crunching : Rosetta gets only 60% of cpu power (AMD 64, 64bit linux) (Message 8548) Posted 7 Jan 2006 by Cureseekers~BioInf Post: There's really no point in running an "optimized" core client. Or... you use a 3rd party boinc client (like Trux's) that has some extra functionality which you need. In general, these 3rd party boinc clients are "optimized". okay, but iam already using these cores. I used the one from crunch3r. But still only 300 points a day instead of 600 points. Why's that? Besides, http://boinc.truxoft.com/, is only for windows....
7) Message boards : Number crunching : Rosetta gets only 60% of cpu power (AMD 64, 64bit linux) (Message 8437) Posted 5 Jan 2006 by Cureseekers~BioInf Post: okay, the 60% cpu usage problems seems to be solved. they are now normally running at 99.9% cpu. But another problem appeared. Because we running on a linux system , whe better use a optimized client. Computer: ID: 127773 average credit: 302.74 total: 3,605.78 CPU:AuthenticAMD AMD Athlon(tm) 64 Processor 3500+ Linux 2.6.11 We used the 5.2.14 sse2 version from Crunch3R. http://www.guntec.de/Crunch3r/boincx86.html. That gives the highest benchmark scores. The original is about 2 times slower. right now the score is: Measured floating point speed 3306.57 million ops/sec Measured integer speed 5292.8 million ops/sec Everything seems to be in order (HL1 someone?), but the average credit is way too low. A windows system based pc will return 600 points a day. Is there a solution for this problem? I tried more optimized clients, even compiled my own, but the all dont work. Client keeps saying "Message from server: platform 'x86_64-unknown-linux-gnu' not found" I added an app_info.xml file, with some content i made up (probably not right...) But after that, its says excited everytime. So that wasnt an option ether way. Anyone else knows a way to get ~600 points a day?
8) Message boards : Number crunching : Rosetta gets only 60% of cpu power (AMD 64, 64bit linux) (Message 7755) Posted 27 Dec 2005 by Cureseekers~BioInf Post: I have an AMD Athlon 64 3500+ running on Newest Linux version Debian(64bit). I downloaded the boinc client for linux and runned some benchmarks. The clients scores 3300/5300, Scores are okay. But when the client starts to really crunh some proteins, the processor usage stays at 60% max. (and this for several hours) The process never got more cpu time. Its the only process that takes some time, so there is ~40% cpu time unused. Have you any idea how this comes? Iam not an Linux expert so dont get to complicated ;) Ive tried several clients, but none of them seems to claim more then 60% cpu. Is this a linux 64 bit problem? or is it something else? And can you give boinc some priority like the windows version? (nice doesnt seems to work here). This is a screenshot of the TOP process on linux: [img]http://www.bioinf.nl/~bonsai/dailyscreenshot/top.JPG [/img]