Rosetta 4.1+ and 4.2+

Message boards : Number crunching : Rosetta 4.1+ and 4.2+

To post messages, you must log in.

Previous · 1 . . . 20 · 21 · 22 · 23 · 24 · 25 · 26 . . . 34 · Next

AuthorMessage
Brian Nixon

Send message
Joined: 12 Apr 20
Posts: 293
Credit: 8,432,366
RAC: 0
Message 98608 - Posted: 20 Aug 2020, 20:53:27 UTC - in response to Message 98607.  

ID: 98608 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Mr P Hucker
Avatar

Send message
Joined: 12 Aug 06
Posts: 1600
Credit: 12,116,986
RAC: 9,863
Message 98609 - Posted: 20 Aug 2020, 21:25:38 UTC - in response to Message 98608.  

Immersion cooling


That's the one. I'm surprised it's not done more often by gamers etc. Perhaps the hassle of changing a component? You'd have to clean the oil off the contacts in the PCI express socket for a start.
ID: 98609 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Brian Nixon

Send message
Joined: 12 Apr 20
Posts: 293
Credit: 8,432,366
RAC: 0
Message 98610 - Posted: 20 Aug 2020, 21:57:45 UTC - in response to Message 98609.  

From what I can gather, most setups still need a circulating pump and heat exchanger. Convection through static oil is probably not sufficient to remove heat from a CPU quickly enough. So a rig is going to be heavy, and cumbersome, and messy when it all goes wrong. And the oil itself is expensive. (I’ve seen $1000 a gallon mentioned for top-tier pro-grade stuff. I dare say there are alternatives, but I don‘t know how suitable used chip fat is for the job…)
ID: 98610 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Mr P Hucker
Avatar

Send message
Joined: 12 Aug 06
Posts: 1600
Credit: 12,116,986
RAC: 9,863
Message 98613 - Posted: 20 Aug 2020, 22:41:20 UTC - in response to Message 98610.  

From what I can gather, most setups still need a circulating pump and heat exchanger. Convection through static oil is probably not sufficient to remove heat from a CPU quickly enough. So a rig is going to be heavy, and cumbersome, and messy when it all goes wrong. And the oil itself is expensive. (I’ve seen $1000 a gallon mentioned for top-tier pro-grade stuff. I dare say there are alternatives, but I don‘t know how suitable used chip fat is for the job…)


If you can put used chip fat in a car engine, it should work for a computer :-) You could always use new chipfat!

As for going wrong, I've got a motherboard wet and made a power supply emit fireworks when using watercooling. I'm sticking to fans.
ID: 98613 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
mikey
Avatar

Send message
Joined: 5 Jan 06
Posts: 1895
Credit: 9,214,418
RAC: 1,328
Message 98614 - Posted: 21 Aug 2020, 10:46:35 UTC - in response to Message 98613.  

From what I can gather, most setups still need a circulating pump and heat exchanger. Convection through static oil is probably not sufficient to remove heat from a CPU quickly enough. So a rig is going to be heavy, and cumbersome, and messy when it all goes wrong. And the oil itself is expensive. (I’ve seen $1000 a gallon mentioned for top-tier pro-grade stuff. I dare say there are alternatives, but I don‘t know how suitable used chip fat is for the job…)


If you can put used chip fat in a car engine, it should work for a computer :-) You could always use new chipfat!

As for going wrong, I've got a motherboard wet and made a power supply emit fireworks when using watercooling. I'm sticking to fans.


Immersion is the key to that...sprinkling oil on a MB will also cause sparks, but being immersed there is not enough heat or spark generated to cause them to spark. I've also heard of people putting mb's in freezers but the problem is the moisture they retain.

Peter where you live a simple radiator hung outside a shaded window will keep things fairly cool if you went liquid cooling but again it's the leaks that cause problems. A closed loop system will help with that but then there's no radiator outside the window to keep things cool.
ID: 98614 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Mr P Hucker
Avatar

Send message
Joined: 12 Aug 06
Posts: 1600
Credit: 12,116,986
RAC: 9,863
Message 98616 - Posted: 21 Aug 2020, 16:29:47 UTC - in response to Message 98614.  

Immersion is the key to that...sprinkling oil on a MB will also cause sparks, but being immersed there is not enough heat or spark generated to cause them to spark. I've also heard of people putting mb's in freezers but the problem is the moisture they retain.

Peter where you live a simple radiator hung outside a shaded window will keep things fairly cool if you went liquid cooling but again it's the leaks that cause problems. A closed loop system will help with that but then there's no radiator outside the window to keep things cool.


How can oil cause sparks? It's not electrically conductive.

I don't like water cooling because of the leaks. And I did have a closed loop system, the pump wore out. Fan fails - replace, easy. Pump gone - change the whole expensive contraption. And it still had fans to cool the radiator anyway!
ID: 98616 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Sid Celery

Send message
Joined: 11 Feb 08
Posts: 2141
Credit: 41,526,036
RAC: 10,392
Message 98617 - Posted: 22 Aug 2020, 2:04:22 UTC - in response to Message 98616.  

I don't like water cooling because of the leaks. And I did have a closed-loop system, the pump wore out. Fan fails - replace, easy. Pump gone - change the whole expensive contraption. And it still had fans to cool the radiator anyway!

I don't know if I'm just lucky, but I've used 3 AIO water coolers in 2 PCs over the last several years and none have failed or leaked - pump or fans.
I know it sounds a terrible idea but once I saw my first one I was convinced for ever more - and my faith hasn't been in vain
ID: 98617 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Keith Myers
Avatar

Send message
Joined: 29 Mar 20
Posts: 97
Credit: 332,619
RAC: 25
Message 98618 - Posted: 22 Aug 2020, 7:51:39 UTC

I'm a firm convert to water cooling. Never had any one leak. All my cpus are water cooled and most of my graphics cards with hybrid designs. Have had several hybrid AIO pumps fail at usually 18-24 months of operation. Always under warranty so no issues getting them replaced quickly. I have older air cooled cards on the shelf I can substitute while awaiting the hybrid replacement.
ID: 98618 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile [VENETO] boboviz

Send message
Joined: 1 Dec 05
Posts: 2002
Credit: 9,781,025
RAC: 4,962
Message 98619 - Posted: 22 Aug 2020, 9:16:10 UTC

This thread is about issues/bugs/other things on 4.2 app version.
It's not a thread about hw configuration.
Please, on topic
ID: 98619 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Tomcat雄猫

Send message
Joined: 20 Dec 14
Posts: 180
Credit: 5,386,173
RAC: 0
Message 98628 - Posted: 23 Aug 2020, 10:59:05 UTC
Last modified: 23 Aug 2020, 11:43:00 UTC

Suffered a second-long power outage (I probably should get a UPS due to how frequent these have become) and got this.
rb_08_19_34924_34163_ab_t000__h002_robetta_IGNORE_THE_REST_06_15_1007200_6_1
<core_client_version>7.16.7</core_client_version>
<![CDATA[
<stderr_txt>
command: projects/boinc.bakerlab.org_rosetta/rosetta_4.20_windows_x86_64.exe @rb_08_19_34924_34163_ab_t000__h002_robetta_FLAGS -in::file::fasta t000__h002.fasta -in:file:boinc_wu_zip rb_08_19_34924_34163_ab_t000__h002_robetta.zip -frag3 rb_08_19_34924_34163_ab_t000__h002_robetta.200.3mers.index.gz -fragA rb_08_19_34924_34163_ab_t000__h002_robetta.200.15mers.index.gz -fragB rb_08_19_34924_34163_ab_t000__h002_robetta.200.6mers.index.gz -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -checkpoint_interval 120 -mute all -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 1829116
Using database: database_357d5d93529_n_methylminirosetta_database

ERROR: Fullatom mismatch in checkpointer.
ERROR:: Exit from: ......srcprotocolscheckpointCheckPointer.cc line: 380
06:54:58 (11364): called boinc_finish(0)

</stderr_txt>
]]>

It validated as valid instead of error? Is that normal? I also got the same amount of credits for this task as my wing-man despite having half their run-time, somehow.
Now we are back on topic, I hope. Let's not steer the topic towards UPSes.
ID: 98628 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Brian Nixon

Send message
Joined: 12 Apr 20
Posts: 293
Credit: 8,432,366
RAC: 0
Message 98629 - Posted: 23 Aug 2020, 11:44:14 UTC - in response to Message 98628.  

It validated as valid instead of error
If I had to guess: the task failed to resume from a checkpoint after the power failure, but was able to report the valid results it had calculated up to that point.

I also got the same amount of credits for this task as my wing-man
Despite causing disparities on projects that use fixed duration / variable work tasks, that is how BOINC works. Rosetta tasks are generally not sent to more than one computer. You only got that one because the other machine had failed to return it by its deadline.
ID: 98629 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
James W

Send message
Joined: 25 Nov 12
Posts: 130
Credit: 1,766,254
RAC: 0
Message 98643 - Posted: 24 Aug 2020, 8:11:36 UTC

Device: 1759960
Task: 1245719883. WU: 1115277497
Puzzling credit amount.
I was assigned this task after the original host did not complete by deadline. The original host and I both rec'd 26.22 credits. My host worked almost 8 hrs (CPU time) whereas original host only worked less than 1 hr., with same results. Unsure of logic of this.
Computer ID 5135728
Run time 1 hours 0 min 1 sec
CPU time 58 min 1 sec
======================================================
DONE :: 1 starting structures 3480.83 cpu seconds
This process generated 14 decoys from 14 attempts
======================================================
BOINC :: WS_max 3.11939e+08
And my Stderr output, etc.:
Computer ID 1759960
Run time 8 hours 37 min 35 sec
CPU time 7 hours 58 min 28 sec
======================================================
DONE :: 1 starting structures 28708.7 cpu seconds
This process generated 145 decoys from 145 attempts
======================================================
BOINC :: WS_max 3.30969e+08

ID: 98643 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Grant (SSSF)

Send message
Joined: 28 Mar 20
Posts: 1725
Credit: 18,391,361
RAC: 19,589
Message 98645 - Posted: 24 Aug 2020, 9:01:38 UTC - in response to Message 98643.  

I was assigned this task after the original host did not complete by deadline. The original host and I both rec'd 26.22 credits. My host worked almost 8 hrs (CPU time) whereas original host only worked less than 1 hr., with same results. Unsure of logic of this.
My WAG (Wild Arse Guess)- It did return it's result before you did, and Credit for work done hasn't yet settled down on that particular host, and it may be set for a 2 hour Target CP U time, so in this case it only ran for 1 hour and then ended as it would have gone past it's Target CPU time.
So the Credit for the Tasks was set by that host. However (to my way of thinking), while still low, you should at least have got 209.76 (8 * 26.22) and not the same 26.22 it got.
Grant
Darwin NT
ID: 98645 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Mr P Hucker
Avatar

Send message
Joined: 12 Aug 06
Posts: 1600
Credit: 12,116,986
RAC: 9,863
Message 98656 - Posted: 24 Aug 2020, 18:38:40 UTC - in response to Message 98628.  

It validated as valid instead of error? Is that normal? I also got the same amount of credits for this task as my wing-man despite having half their run-time, somehow.
Now we are back on topic, I hope. Let's not steer the topic towards UPSes.


God forbid anyone mentions anything that is required to run the computer better. [Raises right arm to 30 degrees]
ID: 98656 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Bryn Mawr

Send message
Joined: 26 Dec 18
Posts: 399
Credit: 12,294,748
RAC: 6,222
Message 98660 - Posted: 24 Aug 2020, 20:40:20 UTC - in response to Message 98656.  

It validated as valid instead of error? Is that normal? I also got the same amount of credits for this task as my wing-man despite having half their run-time, somehow.
Now we are back on topic, I hope. Let's not steer the topic towards UPSes.


God forbid anyone mentions anything that is required to run the computer better. [Raises right arm to 30 degrees]


Out of order and totally unnecessary :-(
ID: 98660 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Mr P Hucker
Avatar

Send message
Joined: 12 Aug 06
Posts: 1600
Credit: 12,116,986
RAC: 9,863
Message 98661 - Posted: 24 Aug 2020, 20:47:19 UTC - in response to Message 98660.  

It validated as valid instead of error? Is that normal? I also got the same amount of credits for this task as my wing-man despite having half their run-time, somehow.
Now we are back on topic, I hope. Let's not steer the topic towards UPSes.


God forbid anyone mentions anything that is required to run the computer better. [Raises right arm to 30 degrees]


Out of order and totally unnecessary :-(


How is a UPS irrelevant to running Boinc 24/7?
ID: 98661 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Grant (SSSF)

Send message
Joined: 28 Mar 20
Posts: 1725
Credit: 18,391,361
RAC: 19,589
Message 98662 - Posted: 24 Aug 2020, 21:06:23 UTC - in response to Message 98661.  

God forbid anyone mentions anything that is required to run the computer better. [Raises right arm to 30 degrees]
Out of order and totally unnecessary :-(
How is a UPS irrelevant to running Boinc 24/7?
How is that relevant to the thread? Just a reminder- Rosetta 4.1+ and 4.2+

Keeping things on topic makes life easier for everyone.
Grant
Darwin NT
ID: 98662 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Mr P Hucker
Avatar

Send message
Joined: 12 Aug 06
Posts: 1600
Credit: 12,116,986
RAC: 9,863
Message 98663 - Posted: 24 Aug 2020, 21:15:49 UTC - in response to Message 98662.  
Last modified: 24 Aug 2020, 21:16:17 UTC

How is a UPS irrelevant to running Boinc 24/7?
How is that relevant to the thread? Just a reminder- Rosetta 4.1+ and 4.2+

Keeping things on topic makes life easier for everyone.


How is it easier to have to constantly jump around to different threads just because we dare to go off on a tangent? The art of conversation.....

And the tangents are usually far more interesting than people moaning they didn't get precisely the right amount of credits, or that 1 in a thousand tasks fail. There are more important things in life....
ID: 98663 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Profile Grant (SSSF)

Send message
Joined: 28 Mar 20
Posts: 1725
Credit: 18,391,361
RAC: 19,589
Message 98664 - Posted: 24 Aug 2020, 21:29:38 UTC - in response to Message 98663.  

How is it easier to have to constantly jump around to different threads just because we dare to go off on a tangent? The art of conversation.....
Then use a conversation/chat thread if that's what you want to do.


And the tangents are usually far more interesting than people moaning they didn't get precisely the right amount of credits, or that 1 in a thousand tasks fail. There are more important things in life....
Then don't bother with those threads if they don't interest you. No need to trash them just to make them appealing to you.

That way other people can find the information they need, without having to wade through heaps of noise to find the help that they are looking for, without having to start another thread because the noise has swamped out the useful responses where the question has been asked and answered previously.

If you like noise, go to the Cafe and start your own thread there.
Grant
Darwin NT
ID: 98664 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Mr P Hucker
Avatar

Send message
Joined: 12 Aug 06
Posts: 1600
Credit: 12,116,986
RAC: 9,863
Message 98665 - Posted: 24 Aug 2020, 21:38:10 UTC - in response to Message 98664.  

Then use a conversation/chat thread if that's what you want to do.


But it's not, I was following this thread and something relevant to it came up in conversation. No point in starting a new thread for that, since everyone's here anyway. And it's not just me or there wouldn't be a conversation.

Then don't bother with those threads if they don't interest you. No need to trash them just to make them appealing to you.


I'm not trashing anything, the posts about the main topic are still here. You don't have to read mine.

That way other people can find the information they need, without having to wade through heaps of noise to find the help that they are looking for, without having to start another thread because the noise has swamped out the useful responses where the question has been asked and answered previously.


Once a thread goes off topic, the original question has most likely been answered anyway.

If you like noise, go to the Cafe and start your own thread there.


I like more relevant noise :-)
ID: 98665 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote
Previous · 1 . . . 20 · 21 · 22 · 23 · 24 · 25 · 26 . . . 34 · Next

Message boards : Number crunching : Rosetta 4.1+ and 4.2+



©2024 University of Washington
https://www.bakerlab.org