Commits · 929b188a3b2329387a2a0493dae18427cd0bdb67 · ModelZoo / alphafold2_jax

14 Feb, 2022 1 commit

Add split_rng=False (current default) to sharded_map. · 929b188a

Tom Hennigan authored Feb 13, 2022

Haiku plans to make split_rng a required argument to hk.vmap in an upcoming
release. This change updates AlphaFold to preserve the current behaviour. We
also handle the case where users are using a release of Haiku without the
split_rng option, for these users split_rng=False is implied.

PiperOrigin-RevId: 428429472
Change-Id: I3292396eb330ffabf2f36f5364aa0ae1bc74cf71

929b188a

08 Feb, 2022 1 commit

Remove unused code. · b5ed6b76

Augustin Zidek authored Feb 08, 2022

PiperOrigin-RevId: 427128482
Change-Id: I31134f7b0675260c79c799f14626140d74d745d4

b5ed6b76

27 Jan, 2022 1 commit
- Release code for v2.1.2 · 57a2455e
  Augustin Zidek authored Jan 27, 2022
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04 Nov, 2021 1 commit
- Change fasta description used in data pipeline to be chain_<chain number>. · c128d1aa
  Andrew Cowie authored Nov 04, 2021
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02 Nov, 2021 1 commit
- Add code for AlphaFold-Multimer. · 0be2b30b
  Augustin-Zidek authored Nov 02, 2021
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  0be2b30b
10 Sep, 2021 1 commit

Skip obsolete PDB templates that don't have a replacement. · 50ecd75d

Augustin Zidek authored Sep 10, 2021

Fixes https://github.com/deepmind/alphafold/issues/163.

PiperOrigin-RevId: 395878875
Change-Id: I99a9defa95547582bbfd9fec3ae821386274d77f

50ecd75d

31 Aug, 2021 1 commit

Ensure values passed to jax.numpy functions are arrays rather than lists. · 98caef21

Jake VanderPlas authored Aug 31, 2021

Why? This will soon be a requirement in JAX; see https://github.com/google/jax/issues/7737

PiperOrigin-RevId: 394105499
Change-Id: I6f76e3f47b7906616c1f988be58d29c828414060

98caef21

02 Aug, 2021 1 commit

Fix a few typos. · 41232dc7

Augustin Zidek authored Aug 02, 2021

PiperOrigin-RevId: 388172326
Change-Id: I11d9e498c226cd752947feb51b7d1eb343b4d7ab

41232dc7

30 Jul, 2021 1 commit
- Add a comment on the TriangleMultiplication notation. · b88f8dac
  DeepMind authored Jul 30, 2021
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29 Jul, 2021 1 commit
- Log the total MSA size and number of templates. · 00c4c91d
  Alex Bridgland authored Jul 29, 2021
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27 Jul, 2021 1 commit

Fix import ordering. · 1e216f93

Tom Ward authored Jul 27, 2021

PiperOrigin-RevId: 387085679
Change-Id: I73287fcd0a29e899543b64c596e306195a2f435e

1e216f93

26 Jul, 2021 1 commit
- Write out pdb70_hits.hhr alongside other MSA outputs. · 2028cd0a
  DeepMind authored Jul 26, 2021
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Change-Id: I1ef2018a48398cf8201ac38fe129b004672ad22f
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  2028cd0a
22 Jul, 2021 1 commit
- Add a Colab notebook, add reduced BFD, and various other fixes and improvements. · 0bab1bf8
  Saran Tunyasuvunakool authored Jul 22, 2021
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  0bab1bf8
15 Jul, 2021 1 commit
- Initial release of AlphaFold. · 1109480e
  Augustin-Zidek authored Jul 15, 2021
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  1109480e