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Cake day: June 20th, 2023

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  • The usefulness of alphafold had been grossly overstated by science media. The structures it generates are mostly nonsense, they typically can’t generate molecular dynamics simulation trajectories with the correct physical properties, which makes them not useful for drug discovery. in computational biology today you’ll most often find them in use as a starting point for structure refinement or as one of many sources of data for some integrative method. Again, not useless, and an improvement over previous structure prediction algorithms, but they didn’t ‘solve protein folding’ or anything, like Google might have you believe. I don’t put much stock in Nobel prizes, I mean, they gave one to Henry Kissinger.

    Google also released alphafold 3 under a strict non commercial license, which severely limited its usefulness for both commercial and academic work, the latter of which all but requires using more permissive licenses. I assume Google wanted to monetize a commercial version of it at some point.

    I’ve been using Openfold 3 in some work I’ve been doing recently, and while the software is a bit undercooked, it does produce structures similar to alphafold 3 without any of Google’s bullshit. So I wouldn’t worry too much about this announcement. The protein folding will continue with or without them


  • I have a Shure SM58 on a stand running though a focusrite scarlett and akg k371s. I got the the mic and interface used on eBay. I previously used a behringer xm8500 and a behringer usb audio interface which honestly gets you most of the way there in terms of audio quality. The headphones have a replaceable cable via mini XLR, which is the failure point on most wired headphones.

    I’ve never had audio problems on Linux, these days everything uses a generic driver.






  • I can’t recommend emby because their business practices are pretty scummy. After accepting open source contributions for years, they went closed-source in 2018 and took all those contributions with them (they had a CLA). The very next update, they added hardware acceleration and locked it behind a paywall. They had a pretty big ‘security incident’ a few years ago, which probably would have been averted if they were still open source, as users in the community flagged it as an issue long before the devs took action.



  • WormFood@lemmy.worldtolinuxmemes@lemmy.worldGnome Slander
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    3 months ago

    When Gnome 3 first came out, it was comically unusable, but now a lot of the big issues have been fixed and I find it only mildly idiosyncratic. I like the KDE user experience more but I also think KDE is much buggier. I switched to gnome last year after getting tired of dealing with my desktop freezing/crashing and it’s been pretty smooth sailing. My main complaints are:

    • Switching applications instead of windows on alt-tab (has any computer user ever wanted this?)
    • Modal dialogues have window decorations that inexplicably move the parent window when dragged
    • Typing in Files starts searching instead of navigating to a file/directory with the typed name
    • Opening an archive extracts it automatically instead of looking inside

    The default gnome applications are also quite inferior to their KDE counterparts (Dolphin is leagues ahead of Files, Kate is much better than Gnome’s text editor). But I guess you could install dolphin on gnome if you really wanted, so I won’t hold that against the DE itself.