Problems and Technical Issues with Rosetta@home

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Jim1348

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Message 106421 - Posted: 26 Jun 2022, 19:10:27 UTC - in response to Message 106420.  
Last modified: 26 Jun 2022, 19:22:40 UTC

You have to eliminate the wrong things to find the right thing.

You have to find the right ones to find the right ones.

By the way, Folding is the compute part of the COVID Moonshot project. They are making good progress, and seem to be nearing actual trials in humans.
https://foldingathome.org/2021/12/27/covid-moonshot-sprint-11/?lng=en
https://twitter.com/covid_moonshot?ref_src=twsrc%5Egoogle%7Ctwcamp%5Eserp%7Ctwgr%5Eauthor
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Mr P Hucker
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Message 106422 - Posted: 26 Jun 2022, 19:28:16 UTC - in response to Message 106421.  

You have to eliminate the wrong things to find the right thing.
You have to find the right ones to find the right ones.
What an utterly stupid thing to say, let me make it simpler for you. There's a gold watch in that field over there and we don't know where. If you search a quarter of the field and find nothing, you've done good, it means anyone else has less area to hunt through.

By the way, Folding is the compute part of the COVID Moonshot project. They are making good progress, and seem to be nearing actual trials in humans.
https://foldingathome.org/2021/12/27/covid-moonshot-sprint-11/?lng=en
https://twitter.com/covid_moonshot?ref_src=twsrc%5Egoogle%7Ctwcamp%5Eserp%7Ctwgr%5Eauthor
I'm not concerned with a little virus, I'm running it for Alzheimers and cancer which kill millions all the time, not just for a couple of years.
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Jim1348

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Message 106425 - Posted: 27 Jun 2022, 5:59:03 UTC - in response to Message 106422.  

You have to eliminate the wrong things to find the right thing.
You have to find the right ones to find the right ones.
What an utterly stupid thing to say, let me make it simpler for you. There's a gold watch in that field over there and we don't know where. If you search a quarter of the field and find nothing, you've done good, it means anyone else has less area to hunt through.

You knowledge of distributed computing is even less than I imagined. No wonder you can't get your machines to work and you pester all the projects with your indeterminable whining.
Spending time on inaccurate searches does not eliminate the wrong stuff, nor does it find the right stuff.

But it gives you something to do which eliminates your bothering other people doing more important work.
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Mr P Hucker
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Message 106426 - Posted: 27 Jun 2022, 15:12:30 UTC - in response to Message 106425.  
Last modified: 27 Jun 2022, 15:13:43 UTC

You knowledge of distributed computing is even less than I imagined.
What part of the basic concept of elimination went over your head?

No wonder you can't get your machines to work and you pester all the projects with your indeterminable whining.
Why are you talking about a completely unrelated thing? Computer problems are nothing to do with distributed computing. I use old hardware and try to make things run. Also Boinc is badly written as we all know.

Spending time on inaccurate searches does not eliminate the wrong stuff, nor does it find the right stuff. But it gives you something to do which eliminates your bothering other people doing more important work.
I suggest you tell all the projects they're doing it wrong then. Seen as you think you know better than many qualified scientists.
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Message 106427 - Posted: 27 Jun 2022, 22:40:38 UTC - in response to Message 106418.  

No idea where to put this comment and I didn't want to start a new topic.
WCG forum has come back - but no sign of any tasks - and a couple of things have been said.
It's now apparent to me that the people taking over WCG are virtually a one-man-band (ok, a three-man-band) so expectations from that project in future are tending to zero for me.

And a brief article on the Open Pandemics project while it was under the auspices of IBM make it clear that they've achieved the square root of f'all after two years.

I get the feeling everyone's wasting their time. Distributed Computing seems to be heading downhill at a rate of knots.
Bullshit. Just because one project is slow doesn't mean the whole lot are no good. Pick the one you trust.

I have. It was here and WCG - now with the exclusion of Open Pandemics. I'm already distinctly unimpressed by all other Boinc projects.

I do like the three man band reference though. I reckon it must be to take 4 months just to copy some data to a new server. Total and utter incompetance.

I didn't use the phrase merely to be disparaging. Unless I misread something, I think it literally involves 3 people.
Their lack of progress now makes sense. And opening up the forums (and worrying about how they look) seems to be a serious shortcoming.
To the extent I even understand their forums, it's always seemed a "happy-clappy" kind of a place. Somewhere to have smoke blown up their arses for nothing.

WCG is almost running actually, I managed to persuade 9 devices to attach a couple of days ago, and now 3 of them have acknowledged the name of the project. Just waiting on my username, previous credits, then a work unit. Give the hamster a chance! My main gripe is you can't complain in their forums. Anything remotely against them gets you banned instantly.

I'll believe it when I see it. I'll be glad if work reappears before the end of July tbh

In the meantime I've been doing Folding at Home since it has biology on GPUs

I did say a long while ago, my original interest was in folding@home but I found the interface opaque and was happier to use Boinc instead and Rosetta in particular.
I think it may well be time for me to revive that interest in the hope it's more accessible than it was in 2009/10

I write this just as a few Rosetta 4.20 tasks start coming down again
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Sid Celery

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Message 106428 - Posted: 27 Jun 2022, 22:49:20 UTC - in response to Message 106422.  

You have to eliminate the wrong things to find the right thing.
You have to find the right ones to find the right ones.
What an utterly stupid thing to say, let me make it simpler for you. There's a gold watch in that field over there and we don't know where. If you search a quarter of the field and find nothing, you've done good, it means anyone else has less area to hunt through.

The problem as I see it, using your example, is that instead of searching a field, they've gone off to a factory in Rouen to find out if the kind of socks they wear will impact their ability to search in that field.
And they haven't quite worked out if the socks will help, but they have narrowed down examples of sock patterns the sock should have that they're going to examine.

I may be very wrong, but that's how far away I think they are. Literally nowhere.
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Sid Celery

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Message 106429 - Posted: 27 Jun 2022, 22:53:23 UTC - in response to Message 106419.  

I get the feeling everyone's wasting their time. Distributed Computing seems to be heading downhill at a rate of knots.

I have my own reservations too. For one thing, the molecular docking technique (both SiDock and OPN) has not yet been shown to result in a cure of anything that I have seen, just a lot of candidates for trials.
Maybe Scripps can make OPN fly. They are working hard on it.

And Rosetta is mostly out of it for us crunchers, though they continue their very innovative work in-house.

For BOINC, try TN-Grid or QuChemPedIA
https://gene.disi.unitn.it/test/index.php
https://quchempedia.univ-angers.fr/athome/

But for the really most innovative science, and plenty of work for both CPUs and GPUs, there is only one: Folding@home.
https://foldingathome.org/start-folding/?lng=en

It is not a BOINC project, and the Linux client is a bit of a kludge (I have posted on it), but they are working on a new one.
https://foldingforum.org/viewtopic.php?p=356367#p356367
And they keep advancing their technology with new compute cores for CPU and GPU.

Molecular dynamics (MD), is very compute-intensive. But it yields very accurate results that no other technique can do.

Still not impressed by those first two projects, but folding@home still piques my interest, so I'll give that a go soon.
Thanks for the links
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Message 106431 - Posted: 28 Jun 2022, 10:02:00 UTC - in response to Message 106427.  

I didn't use the phrase merely to be disparaging. Unless I misread something, I think it literally involves 3 people.
Krembil are multi billion dollar, WTF is going on? 3 people?!

Their lack of progress now makes sense. And opening up the forums (and worrying about how they look) seems to be a serious shortcoming.
To be fair they do need us to access the website to adjust our accounts etc and it's all probably part of the same mechanism as handing out work.

To the extent I even understand their forums, it's always seemed a "happy-clappy" kind of a place. Somewhere to have smoke blown up their arses for nothing.
Indeed. You have to say positive things only. I've been permanently banned twice. I can't even remember why, I think I just made a suggestion someone didn't know what they were doing.

I'll believe it when I see it. I'll be glad if work reappears before the end of July tbh
Agreed - apart from three machines which managed to half attach, nothing more has happened. My others cannot attach at all, and the others haven't progressed further. I still get this from one that managed to attach:

471	World Community Grid	28-06-2022 10:55 AM	update requested by user	
472	World Community Grid	28-06-2022 10:55 AM	Sending scheduler request: Requested by user.	
473	World Community Grid	28-06-2022 10:55 AM	Requesting new tasks for CPU and AMD/ATI GPU	
474	World Community Grid	28-06-2022 10:55 AM	Scheduler request failed: HTTP service unavailable


I did say a long while ago, my original interest was in folding@home but I found the interface opaque and was happier to use Boinc instead and Rosetta in particular.
Yes I hate the interface, it's worse than Boinc. For example it lacks basic functions like remembering if you were computing or not after a reboot, it either has to be set to off or on. So either a reboot starts it off when I was trying to do Boinc, or it pauses the folding I was trying to do. It also has no simple way of aborting a task, so they get left until they expire. Complaining it's no good gets a ban.

I think it may well be time for me to revive that interest in the hope it's more accessible than it was in 2009/10
I'm running it right now on 13 GPUs and 5 CPUs. 50% of what you get is Alzheimers, with a touch of everything else. I notice the cancer work has dropped off sharply, virtually no GPU work (it used to dominate), I'm hoping that means they've reached an interesting stage. I asked in their forums but got no response. It certainly means Alzheimers is getting a damn good thrashing.
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Message 106432 - Posted: 28 Jun 2022, 10:03:04 UTC - in response to Message 106428.  

You have to eliminate the wrong things to find the right thing.
You have to find the right ones to find the right ones.
What an utterly stupid thing to say, let me make it simpler for you. There's a gold watch in that field over there and we don't know where. If you search a quarter of the field and find nothing, you've done good, it means anyone else has less area to hunt through.

The problem as I see it, using your example, is that instead of searching a field, they've gone off to a factory in Rouen to find out if the kind of socks they wear will impact their ability to search in that field.
And they haven't quite worked out if the socks will help, but they have narrowed down examples of sock patterns the sock should have that they're going to examine.

I may be very wrong, but that's how far away I think they are. Literally nowhere.
I very much doubt any scientist is that useless.
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Mr P Hucker
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Message 106433 - Posted: 28 Jun 2022, 10:04:31 UTC

P.S. anyone know of projects that run on Intel GPUs? I only found:

Einstein (server crashed at the moment)
Numberfields
Minecraft (FFS that's not science)

I'm currently having to do Maths, I'd prefer something more concrete.
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Sid Celery

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Message 106436 - Posted: 28 Jun 2022, 18:24:04 UTC - in response to Message 106431.  
Last modified: 28 Jun 2022, 18:25:33 UTC

I've been permanently banned twice. I can't even remember why...

Really? You surprise me... lol

I think it may well be time for me to revive that interest in the hope it's more accessible than it was in 2009/10
I'm running it right now on 13 GPUs and 5 CPUs. 50% of what you get is Alzheimers, with a touch of everything else. I notice the cancer work has dropped off sharply, virtually no GPU work (it used to dominate), I'm hoping that means they've reached an interesting stage. I asked in their forums but got no response. It certainly means Alzheimers is getting a damn good thrashing.

I installed it last night and noticed I got a GPU task as well as CPU.
This morning, I had no graphic output at all, something I've had a few times recently tbf so I've taken the hint and ordered a new graphics card, cable and monitor.

After doing so I did a thorough clean of my PC and monitor and rechecked and cleaned all the connections.
I noticed the monitor was reporting the disconnection and reattachment of cables as I took them out of the monitor then, after reconnecting the monitor, to the PC. So now I think the monitor and cable are fine and it's all about my 9yo GTX750 graphics card. The cleaning revived everything for 30mins or so, in which time I updated the graphics driver, and then it died again.

While I was trying my last option of swapping the card to another motherboard port, I finally remembered about folding@home.
I rebooted, got some graphics output from the new port, uninstalled folding@home and now I finally think I'm back stable again.

I'm not certain my GTX750 graphics card isn't up to supporting folding@home's GPU tasks, and I'm not sure whether the new GTX1650 will survive it better, but I'm keeping folding@home off the PC just in case.
A pity tbh <sigh>
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Message 106437 - Posted: 28 Jun 2022, 18:34:51 UTC - in response to Message 106432.  

You have to eliminate the wrong things to find the right thing.
You have to find the right ones to find the right ones.
What an utterly stupid thing to say, let me make it simpler for you. There's a gold watch in that field over there and we don't know where. If you search a quarter of the field and find nothing, you've done good, it means anyone else has less area to hunt through.

The problem as I see it, using your example, is that instead of searching a field, they've gone off to a factory in Rouen to find out if the kind of socks they wear will impact their ability to search in that field.
And they haven't quite worked out if the socks will help, but they have narrowed down examples of sock patterns the sock should have that they're going to examine.

I may be very wrong, but that's how far away I think they are. Literally nowhere.
I very much doubt any scientist is that useless.

You'd think. I have my doubts based on their own updates.
I have no issue with their other sub-projects. I'll continue with them.
I'd previously survived OPN's GPU tasks, but now I have doubts about my current hardware, that may be another reason to avoid OPN in future
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Message 106438 - Posted: 28 Jun 2022, 18:41:12 UTC - in response to Message 106436.  
Last modified: 28 Jun 2022, 18:43:01 UTC

While I was trying my last option of swapping the card to another motherboard port, I finally remembered about folding@home.
I rebooted, got some graphics output from the new port, uninstalled folding@home and now I finally think I'm back stable again.

I'm not certain my GTX750 graphics card isn't up to supporting folding@home's GPU tasks, and I'm not sure whether the new GTX1650 will survive it better, but I'm keeping folding@home off the PC just in case.
A pity tbh <sigh>
Random stuff like that can be bad power connectors (check the plug and socket are shiny), or bad heatsink paste (if you want to dismantle it - I made a few cards work fine that were either not being detected or crashing after 2 minutes work, even though they weren't getting hot yet). You can also drop the clock by 10% or so in something like MSI Afterburner to keep an old card plodding on.
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Message 106449 - Posted: 30 Jun 2022, 12:26:19 UTC

I am having trouble with Rosetta python tasks completing.

For example I currently have 10 Rosetta jobs running. 4 @ 100%, 0 time left, running from 5 to 6 days, the other jobs are at 70% to 99% complete and have been running from 9 hours to 3 days. System monitor indicates almost no CPU activity. The tasks do slowly increment. Previous forums suggesting make sure the check boxes on disk are not checked. I have not noticed this makes any difference. Most if not all of the tasks currently running have started with the check boxes unchecked. I have seen a few of these jobs finish.

About 1 in 10+ downloaded tasks fall into this situation. The other tasks do complete just fine, usually in less than 2 hours.

Watching the system monitor, once a job stops using more than say 5% of a cpu, the task will be one of these never ending jobs. Also it appears that this happens at the +/- 4 hour mark.

Being summer, I have had BOINC set to 51% cpu to llimit heat generation. However, I did increase the available cpu percentages to allow for 2 python tasks that did consume cpu's to run. At time this was up to 88%

System is Ubuntu, 128 gb RAM 4tb disk, 16 threads.

I really do not want to monitor the system to delete tasks after 8+ hours run time.

No issues running LHC@home vm tasks.

So, if there is something else I could try, please advise. Else I suppose I will join the forum crowd that is just very frustrated with Rosetta.
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Message 106450 - Posted: 30 Jun 2022, 12:46:06 UTC
Last modified: 30 Jun 2022, 12:47:35 UTC

Some tasks just do that. Maybe someone has a script you can use to monitor a task and kill it, otherwise you have to do it manually. If your computer is doing most of them ok, I wouldn't blame your setup.

As for heat, add more fans! I've got the majority of my Boinc equipment in the garage, so I don't care about noise. If it gets too warm in there I just open windows or even the door.
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Message 106455 - Posted: 1 Jul 2022, 1:57:47 UTC - in response to Message 106438.  
Last modified: 1 Jul 2022, 1:58:12 UTC

While I was trying my last option of swapping the card to another motherboard port, I finally remembered about folding@home.
I rebooted, got some graphics output from the new port, uninstalled folding@home and now I finally think I'm back stable again.

I'm not certain my GTX750 graphics card isn't up to supporting folding@home's GPU tasks, and I'm not sure whether the new GTX1650 will survive it better, but I'm keeping folding@home off the PC just in case.
A pity tbh <sigh>
Random stuff like that can be bad power connectors (check the plug and socket are shiny), or bad heatsink paste (if you want to dismantle it - I made a few cards work fine that were either not being detected or crashing after 2 minutes work, even though they weren't getting hot yet). You can also drop the clock by 10% or so in something like MSI Afterburner to keep an old card plodding on.

It could be, but this card is 9+yrs old, been on 24/7, has somehow lost two fins on one of its fans (never found the bits that broke off) and when I upgraded the CPU 18 months ago, the guy that put it together for me took the piss out of me for having such an old card even back then. I've decided I've had enough hints and I'm happy about upgrading - not least because I've already bought the replacement so it's too late to change my mind anyway

As suspected (especially after the case clean I did) the PC is stable again and, in non-exceptional use, the graphics card has operated perfectly well
If you're keen or fancy having a play around with fixing it up, I can send it to you if you like. I've still got the original box. Only conditional on confirming the new card works as expected
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Message 106457 - Posted: 1 Jul 2022, 4:28:53 UTC - in response to Message 106455.  

I had AMD Radeon HD 6570 untill beginning of 2021.
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Message 106460 - Posted: 1 Jul 2022, 11:43:08 UTC - in response to Message 106455.  
Last modified: 1 Jul 2022, 11:44:18 UTC

As suspected (especially after the case clean I did) the PC is stable again and, in non-exceptional use, the graphics card has operated perfectly well
If you're keen or fancy having a play around with fixing it up, I can send it to you if you like. I've still got the original box. Only conditional on confirming the new card works as expected
Just checked the specs and it's a quarter of the speed of the 280X cards I mostly use. I'll pass. You could sell it on Ebay for £20 to £30, but only in full working order, otherwise it's only worth £10.
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Message 106464 - Posted: 2 Jul 2022, 2:57:58 UTC - in response to Message 106460.  

As suspected (especially after the case clean I did) the PC is stable again and, in non-exceptional use, the graphics card has operated perfectly well
If you're keen or fancy having a play around with fixing it up, I can send it to you if you like. I've still got the original box. Only conditional on confirming the new card works as expected
Just checked the specs and it's a quarter of the speed of the 280X cards I mostly use. I'll pass. You could sell it on ebay for £20 to £30, but only in full working order, otherwise it's only worth £10.

I'm sure you're right. More trouble than it's worth to sell so better to give it away to anyone who can make use of it in whatever way.
Better than most on-board graphics, for example, which is why I added a meagre R260X I was given to the PC I'm on at the moment which has U630 onboard graphics
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Message 106466 - Posted: 2 Jul 2022, 10:52:26 UTC - in response to Message 106464.  
Last modified: 2 Jul 2022, 10:53:22 UTC

I'm sure you're right. More trouble than it's worth to sell so better to give it away to anyone who can make use of it in whatever way.
Better than most on-board graphics, for example, which is why I added a meagre R260X I was given to the PC I'm on at the moment which has U630 onboard graphics
Give it to someone's kid who plays games which aren't the 3D demanding stuff. Depends what the onboard graphics are, the latest ones are probably as good, but there's bound to be someone with a basic PC who could benefit. But didn't you say it was unreliable when it started to think? If someone plays a game on it wouldn't it crash? Maybe you should try one and see before you burden someone with a buggy computer.

Anyway, there's Gumtree and Freecycle you could stick it on to give it away, someone will take it if it's working. Saves you bothering with postage etc.
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Message boards : Number crunching : Problems and Technical Issues with Rosetta@home



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