Report Problems with Rosetta Version 5.13

Message boards : Number crunching : Report Problems with Rosetta Version 5.13

To post messages, you must log in.

1 · 2 · 3 · 4 · Next

AuthorMessage
Jose

Send message
Joined: 28 Mar 06
Posts: 820
Credit: 48,297
RAC: 0
Message 15928 - Posted: 11 May 2006, 14:48:39 UTC
Last modified: 11 May 2006, 14:49:34 UTC

I reported two WuS in this thread https://boinc.bakerlab.org/rosetta/forum_thread.php?id=1573
This and no other is the root from which a Tyrant springs; when he first appears he is a protector.”
Plato
ID: 15928 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Jose

Send message
Joined: 28 Mar 06
Posts: 820
Credit: 48,297
RAC: 0
Message 15937 - Posted: 11 May 2006, 17:03:03 UTC

A third wu concked out with a client error https://boinc.bakerlab.org/rosetta/result.php?resultid=19847593
This and no other is the root from which a Tyrant springs; when he first appears he is a protector.”
Plato
ID: 15937 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Kerwin

Send message
Joined: 19 Sep 05
Posts: 10
Credit: 1,773,393
RAC: 0
Message 15972 - Posted: 11 May 2006, 23:13:24 UTC

This isn't exactly an error but more of a cosmetic thing, but the descriptive text in the graphics doesn't wrap to the next line. For my current unit is says, "This test is looking to see whether we fold evolutionary similar proteins using the same protocol, we are ab" and it cuts off right in the middle of that last 'b'.

ID: 15972 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
frederick corse

Send message
Joined: 7 Oct 05
Posts: 10
Credit: 1,545,999
RAC: 0
Message 15986 - Posted: 12 May 2006, 2:04:33 UTC

running homo log abrelax homo 002_t283_505_162 . When the progam started i don't get space for RSMD on the display







ID: 15986 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Stu D.
Avatar

Send message
Joined: 3 Mar 06
Posts: 8
Credit: 575,867
RAC: 0
Message 15990 - Posted: 12 May 2006, 2:19:17 UTC
Last modified: 12 May 2006, 2:20:58 UTC

https://boinc.bakerlab.org/rosetta/result.php?resultid=19946387

https://boinc.bakerlab.org/rosetta/result.php?resultid=19946264
ID: 15990 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Kerwin

Send message
Joined: 19 Sep 05
Posts: 10
Credit: 1,773,393
RAC: 0
Message 15994 - Posted: 12 May 2006, 3:03:40 UTC

I just noticed that as with 5.12, my machine is experiencing the same problem that I first reported here. I also noticed that someone else is experiencing the same problem. Perhaps this screen crashing problem is only limited to ATI gpus? I completed a 5.13 work unit on my office computer earlier today with the graphics open the whole time and experienced no screen crashes (it uses an Intel integrated gpu) For further clarification, the screen crashes don't happen during full atom relax.

ID: 15994 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Kerwin

Send message
Joined: 19 Sep 05
Posts: 10
Credit: 1,773,393
RAC: 0
Message 16009 - Posted: 12 May 2006, 5:05:05 UTC - in response to Message 15996.  

I just noticed that as with 5.12, my machine is experiencing the same problem that I first reported here. I also noticed that someone else is experiencing the same problem. Perhaps this screen crashing problem is only limited to ATI gpus? I completed a 5.13 work unit on my office computer earlier today with the graphics open the whole time and experienced no screen crashes (it uses an Intel integrated gpu) For further clarification, the screen crashes don't happen during full atom relax.

You might want to try upgrading your BOINC client to version 5.4.9. See Here.


I installed BOINC 5.4.9 and the problem still persisted. However, I think I found the cause. If I don't attempt to rotate or zoom in/out of the native protein model, my system can make it all the way through without a screen crash. I've been able to replicate this somewhat. Everytime I rotate the model with my mouse even a small amount, a screen crash does happen but a random time afterward. Interesting bug. ;-)

ID: 16009 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Rollo

Send message
Joined: 2 Jan 06
Posts: 21
Credit: 106,369
RAC: 0
Message 16023 - Posted: 12 May 2006, 11:54:57 UTC - in response to Message 15986.  

running homo log abrelax homo 002_t283_505_162 . When the progam started i don't get space for RSMD on the display

That is because you are modelling a protein from the CASP7 trials. Researchers gave their results for the shape of the proteins to the CASP7 organizers, without publishing it at the moment. Now several groups try to figure the shape f the protein from the amino acid sequence without knowing the shape, which is of course the purpose for which rosetta is made.
So withou the original shape no RMSD can be calculated for your models and thus you do not see see it.
ID: 16023 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Aglarond

Send message
Joined: 29 Jan 06
Posts: 26
Credit: 446,212
RAC: 0
Message 16056 - Posted: 12 May 2006, 15:22:35 UTC

I think it should be mentioned in the text below models why we don't see RMSD. Now it is really confusing for people who don't know what's going on.

And to say something about Kerwins problem.. few days ago I had problems running one application on computer with ATI Radeon7000 .. after contacting the support staff they told me, that this graphic card model has problems with OpenGL. I had to replace it.
ID: 16056 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Feet1st
Avatar

Send message
Joined: 30 Dec 05
Posts: 1755
Credit: 4,690,520
RAC: 0
Message 16065 - Posted: 12 May 2006, 15:47:59 UTC - in response to Message 16056.  
Last modified: 12 May 2006, 15:51:26 UTC

why we don't see RMSD.

...I'll take a stab at explaining this. The Rosetta project is trying to invent a tool. And SOME of what they want to tool to do, there are already tools that do the same thing. Many of the tests we've run in the past on Rosetta are comparisons of a new Rosetta tool with the existing known tools. RSMD is a measure of how close the current Rosetta version is coming to the results of other known tools.

Think of it this way, if you want to invent a new compass for navigation, you will test it with other available methods of navigation. And so RSMD is sort of like a measure of how far away from your destination your new compass has taken you.

With the CASP, the precise destination is not known by the participants. It is like a rally race, "drive at 5mph for 3min, then turn left... go 3 miles at 30mph..." and in order to "win", you have to end up at the right location... AND at the proper time! And so there is no existing tool to use for comparison. RSMD is the comparison to the existing tools used to determine protein structures.
Add this signature to your EMail:
Running Microsoft's "System Idle Process" will never help cure cancer, AIDS nor Alzheimer's. But running Rosetta@home just might!
https://boinc.bakerlab.org/rosetta/
ID: 16065 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
akma

Send message
Joined: 11 May 06
Posts: 8
Credit: 159,246
RAC: 0
Message 16104 - Posted: 12 May 2006, 21:05:47 UTC

i've had no problems with the standard work unites using 5.13. However when i get a clasp7 one it has a problem that crashes and exites. This only happens when the screensaver comes on. if i stop it from coming on it finishes with no problems at all. but if i see the screensaver for more than a few minutes and it happens. any ideas?
ID: 16104 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
jjgb10

Send message
Joined: 29 Sep 05
Posts: 21
Credit: 6,152,959
RAC: 0
Message 16106 - Posted: 12 May 2006, 21:21:19 UTC

Every time my new laptop runs a Rosetta workunit, it finished at 100% with a computation error. I also get an error from windows saying that Rosetta 5.13 crashed. Here is the message from BOINC saying the error. - exit code -1073741811 (0xc000000d)
Please help me fix this. I want to run Rosetta but it is not working.

I am running it on an acer TravelMate 4670. You can find the specs on google. It is the faster version with the T2500 processor. I have BOINC only setup to use one processor.
ID: 16106 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
jjgb10

Send message
Joined: 29 Sep 05
Posts: 21
Credit: 6,152,959
RAC: 0
Message 16108 - Posted: 12 May 2006, 21:24:14 UTC

Also, here is the address where you can look at the workunits and their error messages.
https://boinc.bakerlab.org/rosetta/results.php?hostid=217745
ID: 16108 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
akma

Send message
Joined: 11 May 06
Posts: 8
Credit: 159,246
RAC: 0
Message 16112 - Posted: 12 May 2006, 23:08:07 UTC

i'm currently using a geforce 4600.
ID: 16112 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
akma

Send message
Joined: 11 May 06
Posts: 8
Credit: 159,246
RAC: 0
Message 16121 - Posted: 13 May 2006, 1:11:15 UTC - in response to Message 16113.  

i'm currently using a geforce 4600.

I just read a post from another user who is also a savvy tester for BOINC development. He mentioned that lockups were caused in just the way you describe on older versions of BOINC client software. Today anything older than BOINC version 5.4.9 could have the problem. I did not check your BOINC version number but if you are not running 5.4.9 you might want to consider upgrading. The latest version is available here.


thank you very much that has fixed the problem for me.

ID: 16121 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Stu D.
Avatar

Send message
Joined: 3 Mar 06
Posts: 8
Credit: 575,867
RAC: 0
Message 16132 - Posted: 13 May 2006, 3:12:22 UTC
Last modified: 13 May 2006, 3:14:15 UTC

5/12/2006 11:08:59 PM|rosetta@home|Unrecoverable error for result HOMOLOG_ABRELAX_hom007_t283__505_10758_0 ( - exit code -1073741811 (0xc000000d))

https://boinc.bakerlab.org/rosetta/result.php?resultid=20069514

Boinc 5.4.9

Stu
ID: 16132 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile ahleong

Send message
Joined: 18 Sep 05
Posts: 2
Credit: 3,893
RAC: 0
Message 16133 - Posted: 13 May 2006, 3:21:02 UTC

My results:
https://boinc.bakerlab.org/rosetta/results.php?hostid=219533
ID: 16133 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
jjgb10

Send message
Joined: 29 Sep 05
Posts: 21
Credit: 6,152,959
RAC: 0
Message 16134 - Posted: 13 May 2006, 3:31:34 UTC

Yes, you were right. Upgrading to the new BOINC version solved my problem. I didn't know it was out today. I checked every other day for the last 3 months and it is finally out now. Thanks
ID: 16134 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile anders n

Send message
Joined: 19 Sep 05
Posts: 403
Credit: 537,991
RAC: 0
Message 16224 - Posted: 14 May 2006, 5:36:25 UTC

ID: 16224 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile anders n

Send message
Joined: 19 Sep 05
Posts: 403
Credit: 537,991
RAC: 0
Message 16235 - Posted: 14 May 2006, 6:28:27 UTC - in response to Message 16230.  


These crop up randomly from time to time. This is the last type of known error, and they are now so rare, and random, they are having trouble finding the cause. You probably will not see another one, at least for a while.


There seem to be alot of info in the error message :)

Anders n

ID: 16235 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
1 · 2 · 3 · 4 · Next

Message boards : Number crunching : Report Problems with Rosetta Version 5.13



©2025 University of Washington
https://www.bakerlab.org