AlphaFold 3 model code and weights are now available from DeepMind github.com/google-deepm... - ThreadSky

lindorfflarsen.bsky.social • 109 days ago

AlphaFold 3 model code and weights are now available from DeepMind

https://github.com/google-deepmind/alphafold3

Comments

pedrobeltrao.bsky.social•107 days ago

Did anyone get the weights yet ? We are still waiting.

alexis-verger.cpesr.fr•107 days ago

I think that @rolanddunbrack.bsky.social was approved

kmichie.bsky.social•107 days ago

My uni legal team are reviewing🙄. It has to be installed on the cluster as this is where my GPU nodes are and this makes it more complicated for their ‘terms’. It’s right legal need to review but nothing will happen for some time.

pedrobeltrao.bsky.social•107 days ago

As I say it, apparently we have them as well.

eugenevalkov.bsky.social•107 days ago

I’d be curious to know about experiences in getting this approved for cluster installations at institutions.

kmichie.bsky.social•107 days ago

I’ll post when I have something to say. If you tick the cluster box, you need a senior person who can bind the whole university to their terms fill in the form. It’s currently sitting with legal. I have found a person that can sign it off though once legal have assessed. We haven’t submitted it yet.

eugenevalkov.bsky.social•107 days ago

Yes, I’m wondering how long the legal approval takes and how ‘senior’ the signatory has to be.

rolanddunbrack.bsky.social•107 days ago

Yes, I got them within about a day from the application.

pedrobeltrao.bsky.social•109 days ago

:D those memory requirements are so high. I am not sure we will be able to run them in our cluster.

ddelalamo.bsky.social•109 days ago

Unfortunately it's still written in JAX

garantes.bsky.social•109 days ago

Naive question but, why not?

golobor.bsky.social•107 days ago

Same here -JAX seems great to me, but I don't have much experience with other frameworks

ddelalamo.bsky.social•107 days ago

For those of us coming from object orientated programming, it can be a little difficult to read

ddelalamo.bsky.social•107 days ago

Object oriented*

golobor.bsky.social•107 days ago

Ah, thank you!! Indeed, I'm a fan of functional programming, so it's my jam. But I totally understand that's it's not the (only) standard.

stephanieaw.bsky.social•109 days ago

& model params still not public: 'To request access to the AlphaFold 3 model parameters...complete this form. Access will be granted at Google DeepMind’s sole discretion...You may only use AlphaFold 3 model parameters if received directly from Google...subject to these terms of use.'

clockworkpanda.xyz•109 days ago

check https://github.com/bytedance/Protenix which is less restrictive

lindorfflarsen.bsky.social•109 days ago

Important addition https://bsky.app/profile/stephanieaw.bsky.social/post/3laoegcvcc22u

agrossfield.bsky.social•109 days ago

Any comment from them as to why they didn’t publish them with the paper? Since Nature broke its rules to allow them to do it, I’m guessing they pushed, so presumably they had a reason

zachhensel.bsky.social•107 days ago

https://www.fiercebiotech.com/biotech/alphabets-isomorphic-stacks-two-new-deals-lilly-novartis-worth-nearly-3b-ahead-buzzy-jpm no comment afaik but probably it has to do with the terms of these deals and an exclusivity period

zachhensel.bsky.social•107 days ago

The AF3 white paper was 31/Oct/2023 and +1 year doesn't seem like a coincidence but idk. A few isomorphic labs folks simultaneously posted near identical comments a few months ago saying code and weights would be available in November.

zachhensel.bsky.social•107 days ago

Similarly, reading between the lines of the AlphaProteo white paper and how it was promoted, I guess that a similar announcement of different deals will happen soon.

stephanieaw.bsky.social•109 days ago

'Biosecurity'. But likely because Isomorphic Labs (new pharma company) came out of this publication.

agrossfield.bsky.social•109 days ago

I know they said that, but it was obvious bullshit at the time, and made more so by releasing code and data only a few months later. The new company makes more sense. However, I guess what I was really asking is what they said, since they’d never admit they were delaying to help their spinoff.

fxvzquez.bsky.social•106 days ago

📌

Comments

Posting Rules

Reply