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  1. 21 Dec, 2022 1 commit
  3. 19 Dec, 2022 1 commit
    • Peter Hawkins's avatar
      [NumPy] Remove references to deprecated NumPy type aliases. · b21167be
      Peter Hawkins authored 
      This change replaces references to a number of deprecated NumPy type aliases (np.bool, np.int, np.float, np.complex, np.object, np.str) with their recommended replacement (bool, int, float, complex, object, str).

NumPy 1.24 drops the deprecated aliases, so we must remove uses before updating NumPy.

PiperOrigin-RevId: 496396651
Change-Id: Ifbf86edb8c7ba3bf1a427c1b5276e8eb33041ab9
      b21167be
  5. 15 Dec, 2022 2 commits
    • Augustin Zidek's avatar
      Add query_multiple to Jackhmmer. · ed3ecabf
      Augustin Zidek authored 
      This enables searching with multiple queries against a db chunk without having to re-download it each time.

PiperOrigin-RevId: 495553498
Change-Id: I5e3df1cc31cdcef591a1516797f0372f171e413c
      ed3ecabf
    • Peter Hawkins's avatar
      [NumPy] Remove references to deprecated NumPy type aliases. · dd643b1e
      Peter Hawkins authored 
      This change replaces references to a number of deprecated NumPy type aliases (np.bool, np.int, np.float, np.complex, np.object, np.str) with their recommended replacement (bool, int, float, complex, object, str).

NumPy 1.24 drops the deprecated aliases, so we must remove uses before updating NumPy.

PiperOrigin-RevId: 495546406
Change-Id: Iaf1bfd2000fee1bffada5138ae16ec192916c076
      dd643b1e
  7. 11 Dec, 2022 1 commit
  9. 13 Oct, 2022 1 commit
  11. 16 Sep, 2022 2 commits
  13. 12 Aug, 2022 1 commit
  15. 28 Jul, 2022 2 commits
  17. 14 Jun, 2022 2 commits
  19. 31 May, 2022 1 commit
  21. 21 Mar, 2022 1 commit
  23. 07 Mar, 2022 1 commit
  25. 03 Mar, 2022 1 commit
  27. 02 Mar, 2022 1 commit
  29. 21 Feb, 2022 1 commit
  31. 18 Feb, 2022 1 commit
  33. 16 Feb, 2022 1 commit
    • Michael Figurnov's avatar
      Improve support for num_recycle=0. · 2cd61ade
      Michael Figurnov authored 
      Previously, setting num_recycle=0 in a pretrained recycling model skipped creating some Linears and LayerNorms. This meant that the the offsets of these modules were not applied leading to a degraded performance in that case.

PiperOrigin-RevId: 429075328
Change-Id: I9257f859521799f45e2deef3803c249311051225
      2cd61ade
  35. 14 Feb, 2022 1 commit
    • Tom Hennigan's avatar
      Add split_rng=False (current default) to sharded_map. · 929b188a
      Tom Hennigan authored 
      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
  37. 08 Feb, 2022 1 commit
  39. 27 Jan, 2022 1 commit
  41. 04 Nov, 2021 1 commit
  43. 02 Nov, 2021 1 commit
  45. 10 Sep, 2021 1 commit
  47. 31 Aug, 2021 1 commit
  49. 02 Aug, 2021 1 commit
    • Augustin Zidek's avatar
      Fix a few typos. · 41232dc7
      Augustin Zidek authored 
      PiperOrigin-RevId: 388172326
Change-Id: I11d9e498c226cd752947feb51b7d1eb343b4d7ab
      41232dc7
  51. 30 Jul, 2021 1 commit
  53. 29 Jul, 2021 1 commit
  55. 27 Jul, 2021 1 commit
    • Tom Ward's avatar
      Fix import ordering. · 1e216f93
      Tom Ward authored 
      PiperOrigin-RevId: 387085679
Change-Id: I73287fcd0a29e899543b64c596e306195a2f435e
      1e216f93
  57. 26 Jul, 2021 1 commit
  59. 22 Jul, 2021 1 commit
  61. 15 Jul, 2021 1 commit