Posts by Venturini Dario[VENETO]

1) Message boards : Cafe Rosetta : BOINC.Italy launches CASP.ITA! (Message 66556)
Posted 12 Jun 2010 by Profile Venturini Dario[VENETO]
Post:
Going well so far:

2) Message boards : Cafe Rosetta : BOINC.Italy launches CASP.ITA! (Message 66428)
Posted 2 Jun 2010 by Profile Venturini Dario[VENETO]
Post:
To help Rosetta during CASP, BOINC.Italy has launched a competition between its own members called CASP.ITA!
("Caspita!" is an actual italian word which could be translated, more or less, "whoa!")

We thought about making it a world-wide competition (like the recent Pentathlon) but started planning too late.

Anyway, we hope to be helpful to the project and wishes BakerLab's team the best of luck in their partecipation to the CASP.

In bocca al lupo!
3) Message boards : Rosetta@home Science : CASP9 (Message 66086)
Posted 12 May 2010 by Profile Venturini Dario[VENETO]
Post:
Certainly correct, good catch Sid. If all of the tasks you download are CASP9 tasks, then a large download buffer defeats the purpose of the shorter deadline.


So, do we really need to set cache at 0, connection "always on" and "target run time" at 12 hours, else our WUs will be useless?
4) Message boards : Rosetta@home Science : DISCUSSION of Rosetta@home Journal (4) (Message 65968)
Posted 5 May 2010 by Profile Venturini Dario[VENETO]
Post:
Will the energy WUs be handled by a separate application?
And if so, will users be able to choose which applications they receive WUs for?
And who owns the IP rights for what R@H might develop / discover in this sub-project?


I support those questions. In my team alone there are at least other 5 users with the same doubts.



Currently we do not plan to run many energy WUs on rosetta@home -- it will likely be less than 1% of the total. if later these calculations become more CPU demanding we will figure out how to give users the ability to choose. the IP rights for all of our research belong to public institutions like the university of washington.


Thanks a lot for the answer David, your (and the rest of the lab's team) participation in the forum and involvement with the users is what makes Rosetta my favourite BOINC project :)

Plus, the answer is satisfactory and reasonable :ok:
5) Message boards : Rosetta@home Science : DISCUSSION of Rosetta@home Journal (4) (Message 65937)
Posted 3 May 2010 by Profile Venturini Dario[VENETO]
Post:
Will the energy WUs be handled by a separate application?
And if so, will users be able to choose which applications they receive WUs for?
And who owns the IP rights for what R@H might develop / discover in this sub-project?


I support those questions. In my team alone there are at least other 5 users with the same doubts.
6) Message boards : Number crunching : Rosetta 5.98 BETA???? (Message 65369)
Posted 19 Feb 2010 by Profile Venturini Dario[VENETO]
Post:
What the...?

I received a WU called "rossman3x3_k blablabla" with the application Rosetta Beta 5.98.

BETA???

I supposed beta work went to Ralph users... did I miss anything?

P.S. Not debating, just curious ;)
7) Message boards : Number crunching : Problems with Minirosetta 1.80 (Message 62021)
Posted 30 Jun 2009 by Profile Venturini Dario[VENETO]
Post:
Folks, please do not take % complete and time to completion as any indication of a Rosetta problem. It is simply an estimate that your BOINC manager is making. This takes a number of factors in to account, including the speed of your machine, and time it took your last task to complete. So if your last task ran long, the % on the next task MAY (or MAY NOT) reflect that, or part of that information. BOINC tries not to presume all tasks are the same and sometimes looks at the last several tasks runtime as a frame of reference.

If you restart a task, you should be looking at the elapsed time change as the indication of what checkpoint (if any) the task was able to restart from.


Agreed with that, but I think I have enough experience to understand when there is a problem and when not.

I'll write some more elements down:

1) the WU arrived yesterday at 12.52.
2) all of my WUs are started within a few hours from their arrival because I don't have any cache and the PC is set to always connected
Therefore 3) that WU started being crunched yesterday in the middle of the afternoon
4) I turned off the PC for the night when that WU had reached 54% percentage of completion (yes I'm a nerd and I check how work is going in my PC)
5) I restarted it today and saw that WU being crunched but making no progress
6) I checked the graphic and saw nothing (see posted image #1 in my previous post)
7) I waited a few minutes and saw the WU's percentage dropping to 5%. Checked the CPU time and it said 25 minutes (while it ran for hours the day before)
8) I reported to your thread

Also

9) the WU is still running, percentage is inreasing but time is long overdue. Should have been 4 hours, it's already 5 1/2 and the progress bar indicates 55,22%. As you can see, I (and BOINC) made a fairly accurate prevision because at this speed it will end in 9 hours. Of course the watchdog will kill it after 8 but hey, not that I can do anything about it.
10) I am trying to see the graphics of that WU but the window pops up without syncing to the WU. The graphics' window blocks and I have to terminate it from the task manager.

So now

11) I'm going to let that WU run until completion and hope that you will find something useful in the output, being it for medicine or for the improvement of the application.

P.S. Oh and about the checkpoint thing: the elapsed time for that WU changed from 5 hours to 25 minutes. Is it meant to be this way?
8) Message boards : Number crunching : Problems with Minirosetta 1.80 (Message 62018)
Posted 30 Jun 2009 by Profile Venturini Dario[VENETO]
Post:
Another real_core with a strange behaviour:

This is when I turned the PC on this morning (54% completed because it ran yesterday for some hours)



And this is 2 minutes later (5% because somehow it resetted itself, including CPU time)



Btw now it's at 6% after 37 minutes, which means it will need some 16 x 37 minutes to reach 100%, which means more than 8 hours, when the target time is set at 4.

I'm having this errors both on my laptop (Core2Duo 7700, Vista Home Premium, BOINC 6.4.5) and my desktop (Amd 3800x2, Ubuntu 9.04 64bit, BOINC 6.6.28)
9) Message boards : Number crunching : Problems with Minirosetta 1.80 (Message 62017)
Posted 30 Jun 2009 by Profile Venturini Dario[VENETO]
Post:
2 more real_core ran far over the 4 hours boundary, both ended after 8 hours, one successful, the other one errored out:

mar 30 giu 2009 09:51:33 CEST|rosetta@home|Output file real_core_1.5_low200_beta_low200_start_hb_t368__IGNORE_THE_REST_13036_638_0_0 for task real_core_1.5_low200_beta_low200_start_hb_t368__IGNORE_THE_REST_13036_638_0 absent

Error is always code -161
10) Message boards : Number crunching : Problems with Minirosetta 1.80 (Message 61993)
Posted 28 Jun 2009 by Profile Venturini Dario[VENETO]
Post:
dom 28 giu 2009 22:30:23 CEST|rosetta@home|Output file real_core_1.5_low200_beta_low200_start_hb_t322__IGNORE_THE_REST_13290_313_0_0 for task real_core_1.5_low200_beta_low200_start_hb_t322__IGNORE_THE_REST_13290_313_0 absent

This WU errored out after 8 hours of crunching (supposed to be 4)

To me it seems like the "real_core" ones have a fairly high failure rate...
11) Message boards : Number crunching : Problems with Minirosetta 1.80 (Message 61961)
Posted 26 Jun 2009 by Profile Venturini Dario[VENETO]
Post:
Venturini, are you allowing BOINC to use 100% of CPU? And all of the available CPUs? Is the machine busy working on other applications that are running?


All of the cores (2) are dedicated to BOINC, both running 100%, and the only other application running is Word (I'm writing schemes for my next university exams) plus the background ones (antivirus and so on) ;)

Plus, I have only Rosetta on this PC (and WCG, but it's set to no new task).

OS is Windows Vista Home Premium, BOINC is 6.6.28, CPU is a Intel 7700.

And, btw, call me Dario, Venturini is my surname ;)


Here you go, completed, reported and validated succesfully

http://boinc.bakerlab.org/rosetta/result.php?resultid=261619500
12) Message boards : Number crunching : Problems with Minirosetta 1.80 (Message 61956)
Posted 26 Jun 2009 by Profile Venturini Dario[VENETO]
Post:
Venturini, are you allowing BOINC to use 100% of CPU? And all of the available CPUs? Is the machine busy working on other applications that are running?


All of the cores (2) are dedicated to BOINC, both running 100%, and the only other application running is Word (I'm writing schemes for my next university exams) plus the background ones (antivirus and so on) ;)

Plus, I have only Rosetta on this PC (and WCG, but it's set to no new task).

OS is Windows Vista Home Premium, BOINC is 6.6.28, CPU is a Intel 7700.

And, btw, call me Dario, Venturini is my surname ;)
13) Message boards : Number crunching : Problems with Minirosetta 1.80 (Message 61952)
Posted 26 Jun 2009 by Profile Venturini Dario[VENETO]
Post:
adrianxw, please click the task from the task list and click the properties button. Does it show more then 10 hours of CPU time as well? (because the task list now shows "elapsed time" with the new BOINC version).

If you unsuspend the task (and get it running again, perhaps by suspending other tasks for a moment), is it using CPU time?

If it has more then 10 hours of actual CPU time, I would suggest aborting the task.


I also have a WU that got stuck, luckily I noticed after just 4 hours.

Here's a screenshot of the properties of that WU, as you can see that CPU time is just 1 hour + while Run time is 4 hours +



Suspending --> Resuming didn't work to "unstuck" it, until I removed the flag from "keep WU's in memory when suspended". After that, suspending --> resuming made it work again from the percentage reached before the stop (43,43%)
14) Message boards : Number crunching : Problems with web site (Message 58866)
Posted 17 Jan 2009 by Profile Venturini Dario[VENETO]
Post:
It's not actually a problem with the site, but I just wanted to point out that the date of the news is wrong... it keeps saying "2008" :asd:
15) Message boards : Number crunching : minirosetta v1.19 bug thread (Message 53100)
Posted 17 May 2008 by Profile Venturini Dario[VENETO]
Post:
Validate error on a 84k+ seconds task (I'd say... rather annoying)

http://boinc.bakerlab.org/rosetta/result.php?resultid=162388905



And here's another one:

http://boinc.bakerlab.org/rosetta/result.php?resultid=162547290


Both happened after a segfault error some hours before completion.
16) Message boards : Number crunching : minirosetta v1.19 bug thread (Message 53049)
Posted 14 May 2008 by Profile Venturini Dario[VENETO]
Post:
Validate error on a 84k+ seconds task (I'd say... rather annoying)

http://boinc.bakerlab.org/rosetta/result.php?resultid=162388905
17) Message boards : Number crunching : minirosetta v1.15 bug thread (Message 52851)
Posted 3 May 2008 by Profile Venturini Dario[VENETO]
Post:
Not sure if this is a bug, but it's definitely weird:

Workunit 146096927

stderr out	

<core_client_version>5.10.45</core_client_version>
<![CDATA[
<stderr_txt>
# cpu_run_time_pref: 14400
======================================================
DONE ::     1 starting structures  14353.2 cpu seconds
This process generated     14 decoys from      14 attempts
======================================================

BOINC :: Watchdog shutting down...
BOINC :: BOINC support services shutting down...
called boinc_finish
# cpu_run_time_pref: 14400
======================================================
DONE ::     1 starting structures  15500.1 cpu seconds
This process generated      1 decoys from       1 attempts
======================================================

BOINC :: Watchdog shutting down...
BOINC :: BOINC support services shutting down...
called boinc_finish

</stderr_txt>
]]>


Validate state Valid
Claimed credit 80.519063844009
Granted credit 5.15238734890731
application version 1.15
18) Message boards : Cafe Rosetta : Translating the video on Youtube (Message 52681)
Posted 24 Apr 2008 by Profile Venturini Dario[VENETO]
Post:
So, it took a while but it's done.

Here you go:

http://www.youtube.com/watch?v=vMDf0zmveZg

In italian:

http://www.youtube.com/watch?v=hsJ0oR7lPWI

The subtitles (in english, you can edit them with any text editor including Notepad)

http://www.megaupload.com/?d=1DQ3ZE0Z

The subtitles are released with Creative Common license http://creativecommons.org/licenses/by-nc-nd/2.5/ (therefore you just need to credit us for the original work and then you can do whatever you want with them)

Have fun!
19) Message boards : Number crunching : Problems with version 5.96 (Message 52658)
Posted 22 Apr 2008 by Profile Venturini Dario[VENETO]
Post:
I forgot to copy the number, but I had a few WUs worth 800mb of RAM+VirtualSpace... is that normal?
20) Message boards : Cafe Rosetta : Translating the video on Youtube (Message 51382)
Posted 13 Feb 2008 by Profile Venturini Dario[VENETO]
Post:
Thanks a lot for helping guys. Which post can I consider correct then? Last one?

Some of those words were totally unknown to me, like epitope. I would have never understood them.


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