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World Community Grid Forums
Category: Active Research
Forum: OpenPandemics - COVID-19 Project
Thread: Mandatory "Request for Project to be Ported to GPU" Thread |
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Thread Status: Active Total posts in this thread: 133
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robertmiles
Senior Cruncher US Joined: Apr 16, 2008 Post Count: 445 Status: Offline Project Badges: 
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mwroggenbuck
Advanced Cruncher USA Joined: Nov 1, 2006 Post Count: 85 Status: Offline Project Badges: 
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Quarantine@home is Nvidia only. But thanks for the suggestion.
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BladeD
Ace Cruncher USA Joined: Nov 17, 2004 Post Count: 28976 Status: Offline Project Badges: 
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Quarantine@home is Nvidia only. But thanks for the suggestion. ...and (GPU only for Linux). |
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Jim1348
Veteran Cruncher USA Joined: Jul 13, 2009 Post Count: 1066 Status: Offline Project Badges:
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...and (GPU only for Linux). It ran quite well on my GTX 1060 and 1070 (Ubuntu 18.04), and was much faster than the CPU version. I just didn't think that the basic Autodock technique was all that worthwhile. This one should be much better. |
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Speedy51
Veteran Cruncher New Zealand Joined: Nov 4, 2005 Post Count: 1326 Status: Offline Project Badges: 
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Jim can you give us an idea of runtime? Do they take a matter of seconds or minutes. I am aware that Linux probably will be faster than then windows
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Jim1348
Veteran Cruncher USA Joined: Jul 13, 2009 Post Count: 1066 Status: Offline Project Badges:
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Jim can you give us an idea of runtime? Do they take a matter of seconds or minutes. OK, I had to reinstall it (on a GTX 1060, Ubuntu 18.04.4) to check. I don't know if you can see these results or not. https://quarantine.infino.me/users/132/ If you click on each "Results", you can check the time. They seem to be averaging a little under one minute. This latest version requires CUDA 11, so I had to upgrade the drivers to Nvidia 450.57. Whether it is any faster than the earlier version I don't know, but it is nice to see CUDA 11 used. To save you some trouble, here is the installation procedure I used. It installs "docker2" first, which it required before the other stuff. Just replace USER with your Linux username for installation. Then, when you run it, you can set ME= ???? to any name you want. (I used Jim1348). I am reserving two cores of my Ryzen 3900X to support it for best performance, since it apparently runs two instances of Autodock, but one core will work. Good luck. Install nvidia-docker 2.0. First install the repository for your distribution: curl -s -L https://nvidia.github.io/nvidia-docker/gpgkey | sudo apt-key add - curl -s -L https://nvidia.github.io/nvidia-docker/ubuntu18.04/nvidia-docker.list | sudo tee /etc/apt/sources.list.d/nvidia-docker.list sudo apt-get update sudo apt-get install nvidia-docker2 -y sudo pkill -SIGHUP dockerd sudo docker run --runtime=nvidia --rm nvidia/cuda nvidia-smi Ensure you are in directory: cd /home/(USER)/quarantineAtHome git clone https://github.com/cjmielke/quarantineAtHome && cd quarantineAtHome Compile: sudo docker build -t quarantinegpu -f Dockerfile.gpu . To run: sudo nvidia-docker run -it -e ME=????? quarantinegpu IF NECESSARY TO GET THE ABOVE COMMAND TO WORK: sudo systemctl daemon-reload sudo systemctl restart docker ==> Reserve two cores for best performance. [Edit 3 times, last edit by Jim1348 at Jul 21, 2020 2:19:20 AM] |
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robertmiles
Senior Cruncher US Joined: Apr 16, 2008 Post Count: 445 Status: Offline Project Badges:
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Jim, with run times that short, download and upload times become important. What are they like?
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Speedy51
Veteran Cruncher New Zealand Joined: Nov 4, 2005 Post Count: 1326 Status: Offline Project Badges:
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Interesting thanks Jim. I am not going to try and run Linux on my machine. I will wait for windows GPU client's to be released. Hopefully someone else will find your steps useful.
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Jim1348
Veteran Cruncher USA Joined: Jul 13, 2009 Post Count: 1066 Status: Offline Project Badges:
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Jim, with run times that short, download and upload times become important. What are they like? Don't know. You don't have something like BOINC to tell you that. But as soon as one ends, another one starts, so I guess it is fast enough. But I have 110 Mbps down/15 Mbps up cable modem, so it could be an issue on a slow connection. However, my impression is that they are small files. |
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