Mapping Arthritis Markers (MAM) - WCG New Project Launch (?)

pututu

pututu

[H]ard DC'er of the Year 2021
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As the title says. Link to the WCG Nov 2024 newsletter, starting from page 5.

I put a question mark in my post title as I'm sure if this new project launch will be smooth as demonstrated in MCM, OPNG and recent ARP sub-projects. No official launch date has been announced yet. Just has to be patient with Krembil.

Arthritis affects more than 58M people in US alone, so this is a great bio-medical project (if it runs smoothly) on top of current cancer related research project (MCM).
 
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That sounds great. Having a new sub project helps break up the monotony of things. Especially when we are getting fewer and fewer bio research projects these days.
 
I just saw this - have they said what type of project (CPU, GPU, etc.) it is?
 
I really hope this takes off, I have a relative that suffers from severe arthritis and am willing to dump a lot of resources into this if it comes to fruition.
 
More update on MAM1 project launch here. Click on the "Operational Status" tab to see this update. There is a mention about GPU apps been developed.

  • December 20, 2024
    • We have begun testing the Mapping Arthritis Markers (MAM1) prototype based on the current MCM1 code. We expect to launch the beta version of the application shortly after we are back online on the 3rd of January. We will provide a firm launch date once we are back online. The GPU version of the project may take some additional time to develop and test.
    • We have been reviewing the MCM1 application code and considering alternative upgrade paths for MCM1 and related projects to enable GPU compute for gene signature search in general. We have decided to work towards replacing the SvmLightLib dependency and other related sections of the code with more modern, but still self-contained dependencies that will provide the opportunity to select CPU vs. GPU backend depending on user preferences and device capability. This should also enable us to take advantage of modern instruction sets and possibly other architectures in the future.
    • We will be able to publish a preliminary benchmark of the old vs. new application code, comparing across a selection of hardware that WCG staff have at home. We expect performance improvements and better memory utilization for the new version of the MCM1 and by extension initial implementation of the MAM1 project.
    • In light of the merger of this pull request (introducing "BUDA" to the latest BOINC server releases), we find a strong motivation to upgrade our BOINC server version to track BOINC upstream as nearly every bioinformatics application we have experience running in an HPC environment we could run on the grid, if only we could run containers. We have considered multiple different strategies to accomplish this migration in the past, and now that we have occasion to test existing and new applications with the newest BOINC server version during this downtime offsite, we will put together a roadmap after the launch of MAM1 and upgrade BOINC server to use BUDA/containers going forward.
 
WCG update in 2025. Visit the link above to get the latest update.
Seems promising... Fingers crossed!
  • IMPORTANT: Due to SHARCNET facility renovation, WCG (BOINC, website, forums) are offline from December 7, 2024 till January 8, 2025.
    January 8, 2025
    • Most of our infrastructure is back online. Unfortunately, some issues with the network and specific virtual machines remain. Thus, the BOINC database node remains unavailable, and the website and forums also do not function properly.
    • Sharcnet data center team is working on to restore access to these instances in priority order.
    • Once this is resolved, we will have a smooth restart of the workunit management and BOINC components on the backend, and be able to isolate and diagnose any remaining issues as we restart.
    • January 7, 2025
    • Networking issues have been resolved. The data centre staff is finalizing our access.
    • January 4, 2025
    • Update from the data centre: "Having issues with the physical network, likely can't get it diagnosed and fixed until Monday, January 6.". As a result - we still do not have a connection to our servers.
    • January 3, 2025
    • We have been notified that the core system at SHARCNET is coming online now (5pm). They are planning to complete it tonight (January 3). We are waiting for the access to our systems, and will start turning everything back on as soon as we gain login.
 
Today's update. Looks like the boinc server is almost operational.

  • January 9, 2025
    • BOINC database is up and in a good state. We are waiting on two more servers to regain access to the network, at which point we will be restarting the scheduler, transitioner, assimilators and validators.
    • All deadlines for outstanding MCM1 work units have been extended to just after 6:00 p.m. Eastern Standard Time on January 15th, 2025.
    • Web site is up; stats will be updated soon.
    • Forums are up.
 
Forgot to post this update yesterday from WCG

Edit: According to the update below, the new MAM (Mapping Arthritis Markers) project may appear as beta project first. If you regularly run WCG and want to support MAM testing, click the "Beta Testing" in your main menu and check the box under "Participate in beta testing".

  • January 10, 2025
    • All our servers are back online. We are downloding processed work units and sending out new ones, and they have the right deadlines (after the initial glitch with the time).
    • We have noticed 92,194 results that ended up in an error state. We saved all these in a file so we can repair this issue. We'll be able to rescue these, especially since there is no file deleter or db purge daemon running for now, so all data related to these workunits is still on the filesystem.
    • We will continue to monitor the system to make sure it is stable.
    • We are also working on getting MAM project into beta.
    • Thank you all for continuing to support research. Happy new year.

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