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sacdallago / bio_embeddings

Get protein embeddings from protein sequences
http://docs.bioembeddings.com
MIT License
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Old jaxlib releases are gone, breaking poetry's version resolution #161

Open konstin opened 3 years ago

konstin commented 3 years ago

We currently depend on 0.1.57 because more recent versions need AVX2 which doesn't run on our CI, but it seems that they deleted everything older than 0.1.60: https://pypi.org/project/jaxlib/#history. Trying to resolve a new set of versions with poetry fails, I haven't check completely new installations yet.

One solution would be to update jaxlib and remove unirep from our CI.

sacdallago commented 3 years ago

Removing UniRep from the CI would also translate to discontinuing support for it, right? I already have a review were UniRep is specifically asked, I fear more will come.

sacdallago commented 3 years ago

Another solution is to have a gitlab runner on a more serious machine which we can turn on and off on demand, or that we reserve for merge on dev. I'll ask Tim

konstin commented 3 years ago

I'd go with for now updating jaxlib and deactiving UniRep in CI (we can still run the tests manually on the cluster), but longterm a machine with AVX2 would be very much appreciated. Imho ideal would be if we could run CI as job on the cluster using a local disk, which would mean no need for a dedicated machine and GPU tests, but I'm not sure how well gitlab and lsf interact.

jrhorne commented 3 years ago

Is there an easy solution for local installations facing this issue? Is it just upgrading jaxlib with pip? Same as #162

sacdallago commented 2 years ago

As of now, we lack capacity to support UniRep, unfortunately. Fact is: it doesn't seem to stack up to more modern models, and given limited capacity, we rather focus on those.

zzltly commented 1 year ago

try pip install jax==0.1.57 -f https://storage.googleapis.com/jax-releases/jax_releases.html