Posts by Jonathan Brier

1) Message boards : Number crunching : Rosetta tasks not leaving memory (Message 75001)
Posted 27 Jan 2013 by Profile Jonathan Brier
Post:
I've upgraded the driver on my laptop to 310.90 (Optimus M310 GPU) on BOINC 6.12.34 and don't have a problem with Rosetta tasks, so that would suggest it's either:

* Only later versions of BOINC (7+)
* Only projects that are crunching with the GPU on other projects
* Intermittent

I'll try upgrading BOINC later too.

Danny


Well the Rosetta tasks not leaving memory are on computers running a 6.x.x version of BOINC... the Charity Engine installer is different.

The NVIDIA gpu driver is an interesting speculation and I will follow up with those who reported and see if they are all NVIDIA.

Even if the issue is intermittent there is some underlying cause either BOINC, Rosetta, or other program or design causing these issues.

Any other thoughts and testing results are appreciated. The discussion on this in Charity Engine is: http://www.charityengine.com/forum/show-topic/1109 and http://www.gridrepublic.org/joomla/index.php?option=com_smf&Itemid=26&topic=338.msg1365#new for GridRepublic/PTP.

We are in email communication with the rosetta@home team. They are looking into this issue.
2) Message boards : Number crunching : Rosetta tasks not leaving memory (Message 74923)
Posted 18 Jan 2013 by Profile Jonathan Brier
Post:
I am on the support team for GridRepublic, Progress Thru Processors, and Charity Engine.

Over the past few months we received a few support inquiries from a few Windows users regarding Rosetta tasks not leaving memory. Seeing this repeating it seems to be more than a fluke. Exiting BOINC does not always remove the processes from the task manager/memory. Restarting the computer is the only solution. Have any others seen this or know what might cause this? I know that Rosetta mini caused this a few times based on screenshots.

The second issue we see often is the "exit with zero status" for Rosetta tasks in the account log. Normally resetting the project manually fixes this, but working to reduce this manual intervention is desired. It does appear others have reported this such as http://boinc.bakerlab.org/rosetta/forum_thread.php?id=6110.

Help on how to diagnose the cause or any help I can be to help track this down would be appreciated.
3) Message boards : Number crunching : 3.43 is causing pop-ups (Message 74458)
Posted 17 Nov 2012 by Profile Jonathan Brier
Post:
Could you guys possibly send abort commands, from the server, for 3.43 jobs? There are many computers that aren't monitored 24x7 by people.



Chris Miles, a graduate student in the lab, has been doing our application updates. He's the one to thank for getting a fix up as soon as we identified the issues (with help from everyone here!).

Thanks!


Yes, you have to be patient and ideally let the boinc client take care of getting new jobs. However, you should manually kill and abort 3.43 jobs on Windows 64 bit platforms.




The run time limit on one of our test machines was less than 3 days (depends on the client benchmarks) so these jobs should flush out eventually.


I agree with KSMooney about the server task abort. Please setup a process that ensures quality work units only in the pipeline is essential. Removal of bad work units and applications should occur upon their detection. Letting units just "flush out" is not something a nontechnical audience handles well and not removing these issues causes the perception of volunteer computing to suffer.

At GridRepublic and Charity Engine we receive complaints and many support tickets when issues are let to flush through projects. Taking advantage of the server cancel mechanism is important for guaranteeing user experience once a problem is detected. This makes our brands suffer and lowers the potential devices available to Rosetta@home and other projects as it can damage the overall system's perspective.

Misbehaving work units is a reason why Charity Engine removed Rosetta@home as a back-fill research project. We need projects that ensure only high quality units run on the volunteer machines and any misbehaving units are removed at first sign of an issue. There were instances where work units were not exiting properly on machines and taking up too much RAM... never did figure out the source of the issue.
4) Message boards : Number crunching : MD5 Hash Fail on large number of WU (Message 71799)
Posted 14 Dec 2011 by Profile Jonathan Brier
Post:
[/quote]
What antivirus software are you running?[/quote]

Norton 360 v 5.1.0.29
5) Message boards : Number crunching : MD5 Hash Fail on large number of WU (Message 71767)
Posted 8 Dec 2011 by Profile Jonathan Brier
Post:
I'm not sure why out of all projects Rosetta@home is having troubles with sending my client work. There are many MD5 failures when trying to download. Is something going on with the servers or what?

My computer is running BOINC 6.12.24 (x64) Windows 64bit.

Sample of the tasks that have failed:
http://boinc.bakerlab.org/rosetta/result.php?resultid=468563290
http://boinc.bakerlab.org/rosetta/result.php?resultid=468555222
http://boinc.bakerlab.org/rosetta/result.php?resultid=468549743
http://boinc.bakerlab.org/rosetta/result.php?resultid=468547561


Log of a download failure:
12/7/2011 12:12:54 PM | LHC@home 1.0 | Finished download of w5_weak7a_collision_err_bb__2__s__64.31_59.32__18_20__6__34.5_1_sixvf_boinc120265.zip
12/7/2011 12:15:20 PM | rosetta@home | Sending scheduler request: To fetch work.
12/7/2011 12:15:20 PM | rosetta@home | Requesting new tasks for CPU
12/7/2011 12:15:22 PM | rosetta@home | Scheduler request completed: got 1 new tasks
12/7/2011 12:15:24 PM | rosetta@home | Started download of ab_11_29__optpps__T5781.pdb.gz
12/7/2011 12:15:24 PM | rosetta@home | Started download of ab_11_29__optpps__T5781.fasta.gz
12/7/2011 12:15:26 PM | rosetta@home | Finished download of ab_11_29__optpps__T5781.pdb.gz
12/7/2011 12:15:26 PM | rosetta@home | Finished download of ab_11_29__optpps__T5781.fasta.gz
12/7/2011 12:15:26 PM | rosetta@home | Started download of ab_11_29__optpps__T5781.psipred_ss2.gz
12/7/2011 12:15:26 PM | rosetta@home | Started download of ab_11_29__optpps__aaT578103_05.200_v1_3.gz
12/7/2011 12:15:27 PM | rosetta@home | Finished download of ab_11_29__optpps__T5781.psipred_ss2.gz
12/7/2011 12:15:27 PM | rosetta@home | Started download of ab_11_29__optpps__aaT578109_05.200_v1_3.gz
12/7/2011 12:15:49 PM | rosetta@home | Temporarily failed download of ab_11_29__optpps__aaT578109_05.200_v1_3.gz: HTTP error
12/7/2011 12:15:50 PM | rosetta@home | Started download of ab_11_29__optpps__aaT578109_05.200_v1_3.gz
12/7/2011 12:15:51 PM | | Project communication failed: attempting access to reference site
12/7/2011 12:15:52 PM | | Internet access OK - project servers may be temporarily down.
12/7/2011 12:15:55 PM | climateprediction.net | Restarting task hadcm3n_t35x_1940_40_007447475_3 using hadcm3n version 607
12/7/2011 12:16:02 PM | rosetta@home | Finished download of ab_11_29__optpps__aaT578109_05.200_v1_3.gz
12/7/2011 12:16:06 PM | rosetta@home | Temporarily failed download of ab_11_29__optpps__aaT578103_05.200_v1_3.gz: HTTP error
12/7/2011 12:16:07 PM | rosetta@home | Started download of ab_11_29__optpps__aaT578103_05.200_v1_3.gz
12/7/2011 12:16:09 PM | | Project communication failed: attempting access to reference site
12/7/2011 12:16:09 PM | | Internet access OK - project servers may be temporarily down.
12/7/2011 12:16:12 PM | rosetta@home | Finished download of ab_11_29__optpps__aaT578103_05.200_v1_3.gz
12/7/2011 12:16:12 PM | rosetta@home | [error] MD5 check failed for ab_11_29__optpps__aaT578103_05.200_v1_3.gz
12/7/2011 12:16:12 PM | rosetta@home | [error] expected 8e2a1d491f9600923e429bbaf68b114e, got b67bd326bad6b1cd754d3201faa7bb69
12/7/2011 12:16:12 PM | rosetta@home | [error] Checksum or signature error for ab_11_29__optpps__aaT578103_05.200_v1_3.gz
12/7/2011 12:17:03 PM | PrimeGrid | Computation for task pps_sr2sieve_38484983_0 finished
6) Message boards : Cafe Rosetta : Progress Thru Processors (Message 62804)
Posted 6 Aug 2009 by Profile Jonathan Brier
Post:
Grid republic is biased.
Even when you add RAH it shows a box with a red symbol whereas Einstein has a green symbol.


There are different colors for every project which is displayed by Progress Thru Processors. The Red for Rosetta@home, Orange for Climate Predication.net, and Purple for Africa@home (aka malariacontrol.net).

The remaining projects not currently displayed by Progress Thru Processors are all the same color which is more of a blue-green on my screen.

There is no intended bias behind this.
7) Message boards : Cafe Rosetta : Progress Thru Processors (Message 62775)
Posted 5 Aug 2009 by Profile Jonathan Brier
Post:

No Linux support. Epic FAIL!


This is just a public beta meaning things still need work.

There is a Linux work around and that is to

{1} Go to GridRepublic and sign up. specify Linux as platform. Follow the instructions.

{2} When done, go back to Facebook and add the app:

http://apps.facebook.com/processors/new.php

{3} In the first question on the registration page, check "No, I am a
GridRepublic user", enter the email + password you used in step #1 above,
and then follow the on-screen instructions....
8) Message boards : Rosetta@home Science : Rosetta@home and other projects need help updating info (Message 56472)
Posted 25 Oct 2008 by Profile Jonathan Brier
Post:
GridRepublic

This account manager just released its community features which there already is an outline for content, but GridRepublic needs help of the BOINC community to help fill it out as they spend their time and effort continuing development and refinement of the site and beginning public outreach and partnerships to provide awareness for volunteer computing as a whole.

If you would like to work on outreach too the communities feature has an advocacy section where you can post and share discussions and files.

Also if you are a skilled web programmer, designer, or just interested in other ways you can help check out the developer section under the new community features added on October 24, 2008. They are a big step forward and we look forward to more improvements and strides in public awareness.
9) Message boards : Number crunching : Using University Computers (Message 45885)
Posted 10 Sep 2007 by Profile Jonathan Brier
Post:
Actually my goal of this year was to pursue that exact goal at MSU.

This past Thursday I contacted the High Performance Computing Center and the people in charge of the school network. The director of the HPCC happened to be one of my previous professors and has responded with a very positive reaction. Sadly they said that they do not have the resources human or hardware currently to set up anything and need to have more researcher's demand for it before they will be able to expedite any acquisitions.

I am working with getting him in Contact with Dr. David Anderson so they can pursue things further and possibly help with BOINC's development. Just waiting on hearing back now.

My approach was to send a very professional email. I did research into what the goals of the HPCC were and other information you can find on the web and made sure to emphasize how it would be beneficial to them and how it would benefit the school. Highlighting features of BOINC and providing links to those features. I also plan on sending some to campus professors and researchers.

I am also using this same technique to contact groups on campus. I hope to meet with them to give a presentation on how they can help out causes that interest/relate to them. I plan on designing some BOINC Polo's and T-shirts for my own wear to make the presentations and putting up some posters/fliers on campus.
10) Message boards : Rosetta@home Science : CAN YOU HELP ROSETTA?? (Message 40058)
Posted 29 Apr 2007 by Profile Jonathan Brier
Post:
I recently submitted a question/comment to dicoverychannel.com if they were going to cover any topics of how the average Joe could become involved in science and placed the suggestion to check out BOINC and Rosetta@home.

I also created a Group on www.facebook.com called "BOINC Researchers" (http://msu.facebook.com/group.php?gid=2208317473) and working on advocating Rosetta@home and BOINC in general.
11) Message boards : Rosetta@home Science : How can we bring more users to the Rosetta project? (Message 29573)
Posted 18 Oct 2006 by Profile Jonathan Brier
Post:
I've Started a group on Facebook.com similar to and growing like myspace.com called "Boinc Researchers" and trying to advocate to others that they should help, but I can only do so much. I need more members that also will let others that I do not know and invite them. So far 161 members, but similar group "My Screensaver Cures Diseases" has 1,334 members as of today. Both groups are growing fast.
12) Message boards : Cafe Rosetta : Inspiring Others to CRUNCH Rosetta! (Message 29571)
Posted 18 Oct 2006 by Profile Jonathan Brier
Post:
Within the past two weeks I have started a small yet growing movement to inform the users of www.facebook.com similar to myspace about the ablility for them to participate in research with BOINC. Rosetta is the most popular so far. I've created a group on the site called "Boinc Researchers" and am incourageing everyone to join and to help out in the promotion. My goal is to inform students about this program, because they usually leave their computers on in their rooms durring the day and over night and why not put them to some good use!






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