[BOINC] [生命科学类] Rosetta@home

Youth

Good news for dial up users--starting tomorrow, the data files sent out with each work unit will be MUCH smaller. David Kim found for the work unit

t287_HOMOLOG_ABRELAX_hom001_

the input files have dropped in size from 6.6MB to 2.3MB. I hope this helps!!

任务包的大小也大幅降低了...最近程序的改进真是不小:)

Youth

http://boinc.bakerlab.org/rosetta/forum_thread.php?id=1177

For people who would like to learn more about our research, but don't want to deal with the umm filled long video, there is an article which is basically a transcript of a talk I gave at the royal society in london last year at http://depts.washington.edu/bakerpg/: click on "publications" and then on "2006"; it is called "Prediction and design of macromolecular structures and interactions"

如果想对项目研究内容了解更多，可以看这篇文章：
http://depts.washington.edu/bakerpg/papers/Baker--v361-p459.pdf

windin

要能啃下这种篇幅的英语，估计我专4早出来了。暴汗。。。。

windin

最近内存占用反而大了。

Youth

我最近的都在100M出头，少量增加的话可能是由于所计算的蛋白质结构也相应较大

windin

我的图拉丁赛扬彻在这次升级后彻底不能用了。汗，那台僵尸机永远死在世界的某个角落了。

Firenet

引用 windin 在 2006-5-21 09:52 时的帖子:
我的图拉丁赛扬彻在这次升级后彻底不能用了。汗，那台僵尸机永远死在世界的某个角落了。

参加其他的项目啊。。。

windin

远程机，连不上了。怀疑死掉了，除非有好心人按一下重起。

Youth

We have shortened the deadline for workunits from two weeks to one week, to keep up with the tight CASP7 schedule. We will increase the deadline back to two weeks at the end of the summer, after CASP7.

由于CASP7的进度比较紧张，我们已经将任务包的完成期限由两周缩减为一周。在CASP7结束也就是夏天过去后完成期限将恢复到两周。

Youth

We have changed the workunit buffer size from 65,000 workunits to 20,000 workunits. This is so that CASP7 targets experience a smaller lag time between being queued and being sent out.

我们已经将任务包缓存的大小从65000减少到了20000个任务包，目的是为了减少CASP7任务从进入队列到分发出去的时间差。

Youth

http://boinc.bakerlab.org/rosetta/forum_thread.php?id=1177

Posted 29 May 2006 6:23:07 UTC

I wrote an internal benchmark for Rosetta last week, and Rom now has a version that uses this to compute credits. Rom suggests however that we wait until after CASP to deploy it because it may take a few iterations to make it acceptable to everybody. I don't know how difficult it will be to "get it right", but I'd like to start testing it on Ralph soon.

....


D. Baker上周为Rosetta写了一个内部的基准测试，新程序将可以利用这个测试结果来计算积分。不过新程序应该要到CASP结束后才开始正式使用（不久就会在Ralph项目开始测试），因为需要进行一定的反复测试以产生对大家来说都可以接受的积分。

Youth

CASP7 is really heating up! You can see the list of targets at

http://predictioncenter.gc.ucdav ... ter.org;page=casp7/

查看所有的预测目标。

We made submissions for the first two that were due yesterday (targets 284 and 287). if you have 287 work units still remaining on your computer you can delete them. Please keep all others running!

284和287号目标已经提交，如果大家机器还有287的任务，可以中止掉了：）

CASP7 is turning out to be an even more extensive test of rosetta@home than we expected! A much larger fraction of the proteins than we expected based on previous CASPS are both relatively small and completely unrelated to any protein of known structure. These targets are perfect for the methodology we have been developing at rosetta@home since last september when the project began. Things are exciting now, but imagine what it will be like in a couple of months when the true structures are released and rosetta developers, rosetta@home participants, and the whole world can see how good (hopefully!) the predictions are.

CASP7的内容有些出乎意料，Rosetta@home之前的研究重点都是些相对较小的、和已知结构的那些蛋白质完全不相同的，因此最后的结果将相当令人期待。

zeke

支持~~虽然刚参与~但也觉得非常有意思~

Youth

Welcome to all of our new participants! I have only very sporadic internet access as I'm out of town this next week, but I look forward to interacting with all of you here when I return. I was absolutely delighted to see the large increases of the last few days; they will really help accomplish the goals of the project! Thanks again to all of you, David.

David Baker就最近激增的用户数表示感谢。

// 昨天又增加了1k用户，看来平面媒体的宣传效果还是不错的

Youth

We have updated rosetta apps to version 5.22. This version has some new debugging features as well as the support for Intel Mac platform. Please read details here.

计算程序升级到5.22版本。

升级说明:
1. We have put in a symbol store to give us more debugging
information. We'll only get this information back, though, if you
have the latest BOINC release, available here. If you have the time, please download it!
This will be our number one debugging tool.

2. Apps that can't find the appropriate libraries to display graphics
(for whatever reason) will now not display graphics. Hopefully, this
will help with some of the rare cases where graphics is triggering
errors.

3. We removed the excessive print statements to stdout.txt that were
filling up some users's disks for a particular kind of workunit.

4. We we made some fixes to the graphics, like removing the ghost
"Accepted Energy" and making sure all protein pictures are properly
centered.

5. There have been some fixes to clean up how different threads (e.g.
rosetta itself, graphics, the watchdog) shut down at the end of the
run. We expect this to reduce errors.

6. A version for Mac Intel machines has been released!