Message boards : Number crunching : Problems and Technical Issues with Rosetta@home
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Jim1348 Send message Joined: 19 Jan 06 Posts: 881 Credit: 52,257,545 RAC: 0 |
For the past few months, Rosetta work units have been unavailable for days on end. No errors are shown, just "got 0 new tasks". They aren't very good at alerting you to the fact that the work units are mostly the pythons now, which require VirtualBox. And lots of memory (3 GB per work unit). And lots of disk space. And they will kill your SSD unless you are careful. https://boinc.bakerlab.org/rosetta/forum_thread.php?id=14871 The other problems are too painful to mention. You won't have to look far in this thread, once you get past the irrelevant posts. Without a moderator, there are a lot of them. That is still another problem. Lots of luck. |
Greg_BE Send message Joined: 30 May 06 Posts: 5691 Credit: 5,859,226 RAC: 1 |
I have been running Rosetta on multiple computers for years, and it has been a mostly hands-off background task requiring minimal supervision. It looks like your just getting 4.2 tasks???? Well if that is the case you need to enable virtualization on your MOBO and download Oracle Virtualbox and its extension pack and you need to enable the option for RAH to send you Python (Virtual box tasks) via your account ->(Computing and credit section) ->Computers on this account View ->Details ->VirtualBox VM jobs (bottom of the page) and change that button to allow Vbox tasks to run. If you have been running Python and then it goes cold, then check this same page and make sure your computer has not been knocked off by the system for "errors". Your team is Gridcoin...are your systems run by Gridcoin? Someone else here is also a gridcoin member and can maybe help you further. How many days of work do you store on your system? Do you run other projects besides RAH? Often the no new tasks message comes up when your system is maxed out for work. As for task types...you need to look deeper in the server status Tasks by application Application Unsent In progress Rosetta 1 93348 Rosetta Mini 0 0 rosetta python projects 4995 16897 Feb 16 840pm CET |
Greg_BE Send message Joined: 30 May 06 Posts: 5691 Credit: 5,859,226 RAC: 1 |
Rosetta@home: Notice from server rosetta python projects needs 14411.41MB more disk space. You currently have 4662.07 MB available and it needs 19073.49 MB. 2/16/2022 10:25:14 PM Say what? 500 GB dedicated drive Boinc set to leave 2GB free use the rest Windows says 97.1 used and 358 free out of 465 available running 10 python and 4x 4.2 Weird |
dcdc Send message Joined: 3 Nov 05 Posts: 1831 Credit: 119,404,886 RAC: 9,496 |
If the boxes are unchecked then I believe it uses your web preferences. |
Sid Celery Send message Joined: 11 Feb 08 Posts: 2109 Credit: 40,985,460 RAC: 19,620 |
I couldn't even access the home page of Sidock. Sidock: ok TN-Grid: I got there and looked around a bit, but I didn't really understand what was going on tbh. If you repeat what they say, I'm not sure I'll understand it any better. I know my limitations. I'll persist here |
Sid Celery Send message Joined: 11 Feb 08 Posts: 2109 Credit: 40,985,460 RAC: 19,620 |
It seems that whenever the available number of tasks gets down to around 5000, all work units are considered sent, and the server backend is now just waiting for completed work to be returned. I don't recall ever seeing the available tasks go down to zero. Scroll down to the bottom of the server status page. 5000(ish) are Python tasks you'll need VirtualBox for. Anything above that is the Rosetta 4.20 tasks you're set up for and used to. Basically, you're right. Is there a checklist somewhere that I can use to verify my system is setup correctly? Because my BOINC Manager currently thinks everything is running just fine. No reason to think anything is wrong if you successfully ran unattended before. Everyone's in the same position. Limiting the size of individual user backlogs would spread the available work out across all the available users. That would help retain more users, since everyone would feel like they are contributing to the project. At this point, I feel like I'm getting sidelined with no work, while others are sitting on a lot of work units they cannot run immediately. And the rate of results back to Rosetta will be delayed unnecessarily as they wait for the return of backlogged tasks for a few users instead of sending them to idle machines instead. We did that already in 2019. What you're seeing now is the good version. Yeah, I know... The project changed recently, prioritising Python/Virtual Box tasks, of which there are many (2.2million) available. Plain Rosetta 4.20 tasks only become available in dribs and drabs in the way you're seeing. Python/Virtual Box tasks have their own problems, which many people are struggling with right now. <Very> high RAM and disk demands. If you want to give them a try you'll get work, but they won't be so easily runnable, as you'll see from other comments here. This just seems to be the way things are. Sorry |
Sid Celery Send message Joined: 11 Feb 08 Posts: 2109 Credit: 40,985,460 RAC: 19,620 |
Weird I think I just posted the long version of what you're getting in the "There's a max WU of 8 with Virtualbox" thread. In short: yes, me too, exactly the same but on a 1Tb drive |
Greg_BE Send message Joined: 30 May 06 Posts: 5691 Credit: 5,859,226 RAC: 1 |
Weird 1TB and YOU got an error? I got into it with computer whats his name...so what did you and him figure out? And you said 8 tasks..but 8 python or 8 in total? |
Greg_BE Send message Joined: 30 May 06 Posts: 5691 Credit: 5,859,226 RAC: 1 |
Sidock: ok TN-Grid: I got there and looked around a bit, but I didn't really understand what was going on tbh. If you repeat what they say, I'm not sure I'll understand it any better. I know my limitations. I'll persist here[/quote] I had a look there as well. It's over my head...but I think its just a larger cellular form of this. We are researching on the micro micro scale. They research on the gene level, quite a few steps up from this. But at first glance it really didn't look that exciting. |
[VENETO] boboviz Send message Joined: 1 Dec 05 Posts: 1989 Credit: 9,460,369 RAC: 12,264 |
I had a look there as well. It's over my head...but I think its just a larger cellular form of this. The tn-grid project is managed by the University of Trento, Helmut Mach Foundation and CNR (Italian National Research Council) Here a description of the project. They worked, in the past, with some model organism, with Vitis VInifera, and now with human genome, in project like, for example, colorectan cancer characterization Here, for example, a publication from the project about drug repositioning. Plus: - no virtual machine - optimized app for cpu (SSE-AVX) - android app - admins on forums |
kotenok2000 Send message Joined: 22 Feb 11 Posts: 257 Credit: 483,503 RAC: 397 |
Looks like sidock is working again https://www.sidock.si/sidock/forum_thread.php?id=189 |
BoredEEdude Send message Joined: 11 Apr 12 Posts: 11 Credit: 38,954,694 RAC: 14 |
Thanks to all for the responses about VirtualBox. I installed and run BOINC from a mechanical hard disk that is separate from the SSD from which the Windows OS, specifically to reduce the constant writes I expected BOINC to be doing. So getting VirtualBox running on that same drive should not be a problem for the SSD. At this point, the still don't understand is how to get the VM up and running in VirtualBox to begin with. VirtualBox was installed at the same time as BOINC, using the combined BOINC + VB installer, so the two program versions should be the approved/compatible pairing. I can start VirtualBox separately, and it looks to be running OK, it just doesn't have any VMs loaded. From the BOINC Event Log, it knows that VirtualBox is available. 2/17/2022 10:44:30 AM | | Host name: DELL-XPS8930 2/17/2022 10:44:30 AM | | Processor: 16 GenuineIntel Intel(R) Core(TM) i9-9900K CPU @ 3.60GHz [Family 6 Model 158 Stepping 12] 2/17/2022 10:44:30 AM | | Processor features: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss htt tm pni ssse3 fma cx16 sse4_1 sse4_2 movebe popcnt aes f16c rdrandsyscall nx lm avx avx2 vmx smx tm2 pbe fsgsbase bmi1 hle smep bmi2 2/17/2022 10:44:30 AM | | OS: Microsoft Windows 10: Professional x64 Edition, (10.00.22000.00) 2/17/2022 10:44:30 AM | | Memory: 31.81 GB physical, 40.31 GB virtual 2/17/2022 10:44:30 AM | | Disk: 931.39 GB total, 751.12 GB free 2/17/2022 10:44:30 AM | | Local time is UTC -5 hours 2/17/2022 10:44:30 AM | | No WSL found. 2/17/2022 10:44:30 AM | | VirtualBox version: 6.1.12 Is Rosetta@home supposed to downloaded and start a VM automatically? Or do I have to manually kick off the VM installation somehow? After reading countless forum posts for a few hours, I have seen lots of discussion about trying to get stuff to run correctly, and a few mentions of an image checksum being wrong so the VM apparently won't install, but haven't seen an explanation about how how the initial VM installation is supposed to work. On my system the original tasks will download and run when they are available, but nothing seems to be happening as it relates to VirtualBox. |
Falconet Send message Joined: 9 Mar 09 Posts: 353 Credit: 1,190,500 RAC: 4,345 |
If you aren't receiving Python work, go to your Rosetta account, list of computers, click on details on whatever computer you wish to run the Pythons on, scroll down and click allow where it says "allow VirtualBox jobs". Then try again. |
Falconet Send message Joined: 9 Mar 09 Posts: 353 Credit: 1,190,500 RAC: 4,345 |
Rosetta 4.2 work is back. Assuming the increase in the queue is 100% due to 4.2 work, it's a sizeable batch with over almost 3 million tasks. Then again, we'll probably plough through it in an instant or it will get pulled by the devs since it has a 100% error rate so far on my laptop. Edit: Ok, got some tasks that are all numbers on the name and those are running well so far. 100% error rate on the movingstub ones. |
kotenok2000 Send message Joined: 22 Feb 11 Posts: 257 Credit: 483,503 RAC: 397 |
Movingstubs crash on my pc too. |
BoredEEdude Send message Joined: 11 Apr 12 Posts: 11 Credit: 38,954,694 RAC: 14 |
My movingstub tasks fail also. Sorted tasks by name, then suspended the non-movingstub ones. That forced all of the movingstubs to fail immediately, report back as failed (not canceled) and then download more good tasks. |
kotenok2000 Send message Joined: 22 Feb 11 Posts: 257 Credit: 483,503 RAC: 397 |
I had to update project several times to get working tasks. Rosetta gave me four good tasks and four bad tasks. |
.clair. Send message Joined: 2 Jan 07 Posts: 274 Credit: 26,399,595 RAC: 0 |
The Pcr work units are getting up me nose Error at startup 20 seconds 17/02/2022 22:13:33 | Rosetta@home | Output file PcrV11AA_PcrV_111136_000009_extract_A_SAVE_ALL_OUT_2906118_477_1_r1856145221_0 for task PcrV11AA_PcrV_111136_000009_extract_A_SAVE_ALL_OUT_2906118_477_1 absent Anyone else having problems with them ? edit - had a look back up the thread , its not just me. |
Jim1348 Send message Joined: 19 Jan 06 Posts: 881 Credit: 52,257,545 RAC: 0 |
Anyone else having problems with them ? I don't know if they are the same on Windows as Linux, but I have had my share. https://boinc.bakerlab.org/rosetta/results.php?hostid=6176524&offset=0&show_names=0&state=6&appid= I really want only the pythons, but they don't allow you to select them. |
BoredEEdude Send message Joined: 11 Apr 12 Posts: 11 Credit: 38,954,694 RAC: 14 |
If you aren't receiving Python work, go to your Rosetta account, list of computers, click on details on whatever computer you wish to run the Pythons on, scroll down and click allow where it says "allow VirtualBox jobs". Then try again. Thanks! That was the missing step I needed to get a VM to download. Of the three initial "rosetta python" tasks downloaded, all three failed with with "Computational error" after 15 seconds. So it doesn't look like Python will be running smoothly on my system anytime soon. :( |
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Problems and Technical Issues with Rosetta@home
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