Commits · 98caef21efa959e44ed01ab33cfb15ab04a39418 · ModelZoo / alphafold2_jax

"vscode:/vscode.git/clone" did not exist on "36078fb24760de837b95f4bea87ede00c0fd91e8"

31 Aug, 2021 2 commits

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

Update the bibtex citation with the issue number and pages · 495d81ac
Michael Figurnov authored Aug 31, 2021
```
PiperOrigin-RevId: 393964942
Change-Id: I9c45191f726b40b66cea1cdd9f2efa2d4082b084
```
495d81ac

25 Aug, 2021 1 commit
- Fix TensorFlow versions in AlphaFold Colab notebook. · b1d772d1
  DeepMind authored Aug 25, 2021
```
PiperOrigin-RevId: 392861510
Change-Id: I266255479210e5c9b6cbc02977f4024d40c5b94d
```
  b1d772d1
13 Aug, 2021 3 commits
- Use tensorflow-cpu in setup.py as well. · 99459eff
  Augustin Zidek authored Aug 13, 2021
```
PiperOrigin-RevId: 390608262
Change-Id: I4c49aeb2aea362d578b7de43d16bf2e418fdd96d
```
  99459eff
- Use pLDDT in the B-factor column of the output PDBs. · cef198e0
  Augustin Zidek authored Aug 13, 2021
```
PiperOrigin-RevId: 390566020
Change-Id: I3fafbe8246d0a5ad018f0398b39bf7dacee00468
```
  cef198e0
- Set versions of libraries AlphaFold Colab notebook depends on. · f65e94fc
  Augustin Zidek authored Aug 13, 2021
```
PiperOrigin-RevId: 390553964
Change-Id: Ia5bc6e12ab3f1a7827b7d914c93f6990a1139780
```
  f65e94fc
12 Aug, 2021 1 commit

Remove a redundant space. · 05db248e

Augustin Zidek authored Aug 12, 2021

PiperOrigin-RevId: 390355132
Change-Id: I920a80db674541af41ee83ef3d5bd5255c782ee9

05db248e

02 Aug, 2021 2 commits

Add a direct link to PDB70 2020-05-13. · 547cbddb
Augustin Zidek authored Aug 02, 2021
```
PiperOrigin-RevId: 388195957
Change-Id: Id22b96c964a82e3450a5f457d8facd1e85b1e86a
```
547cbddb

Fix a few typos. · 41232dc7

Augustin Zidek authored Aug 02, 2021

PiperOrigin-RevId: 388172326
Change-Id: I11d9e498c226cd752947feb51b7d1eb343b4d7ab

41232dc7

30 Jul, 2021 2 commits
- Add a comment on the TriangleMultiplication notation. · b88f8dac
  DeepMind authored Jul 30, 2021
```
PiperOrigin-RevId: 387766802
Change-Id: Ic838537513fe1d5bf41facffffd44046e91c3fa3
```
  b88f8dac
- Use Ubuntu 18.04 LTS image. · c9ffb0bc
  Tim Green authored Jul 30, 2021
```
PiperOrigin-RevId: 387763552
Change-Id: I2a9753dfca2853de7f5c07c17cc7b2f7d12cf197
```
  c9ffb0bc
29 Jul, 2021 3 commits
- Log the total MSA size and number of templates. · 00c4c91d
  Alex Bridgland authored Jul 29, 2021
```
PiperOrigin-RevId: 387577557
Change-Id: I37c0a748dd3d8d3d179aae579c5504d7ec92ecaf
```
  00c4c91d
- Switch to Tensorflow CPU-only. GPU not needed for data pipeline. · b3ed8603
  Tim Green authored Jul 29, 2021
```
PiperOrigin-RevId: 387576219
Change-Id: Ic735f068df2a3e9f53bed836f172c08f79ac231c
```
  b3ed8603
- Change tex -> bibtex for nicer syntax highlighting. · bc5547b6
  Augustin Zidek authored Jul 29, 2021
```
PiperOrigin-RevId: 387546070
Change-Id: I24cce3825801dde09be70970cf48141679762a2a
```
  bc5547b6
27 Jul, 2021 3 commits
- Fix import ordering. · 1e216f93
  Tom Ward authored Jul 27, 2021
```
PiperOrigin-RevId: 387085679
Change-Id: I73287fcd0a29e899543b64c596e306195a2f435e
```
  1e216f93
- Collapse hh-suite install steps into single layer. · c9e6fedb
  Tom Ward authored Jul 27, 2021
```
PiperOrigin-RevId: 387060806
Change-Id: Ifa71ce119182ed79a379e57946b2b694e134ef14
```
  c9e6fedb
- Switch to using cudnn base image. · acf25fc8
  DeepMind authored Jul 27, 2021
```
PiperOrigin-RevId: 387058301
Change-Id: If7d2716bfe89228e9fb8f909b72c425bd89f1f7f
```
  acf25fc8
26 Jul, 2021 2 commits
- Write out pdb70_hits.hhr alongside other MSA outputs. · 2028cd0a
  DeepMind authored Jul 26, 2021
```
PiperOrigin-RevId: 386894639
Change-Id: I1ef2018a48398cf8201ac38fe129b004672ad22f
```
  2028cd0a
- Correct mgnify clusters filename. · 20a70577
  DeepMind authored Jul 26, 2021
```
PiperOrigin-RevId: 386841647
Change-Id: Ie3ad390fc4b53b839f15c01f3b24bd25c77578b6
```
  20a70577
23 Jul, 2021 1 commit

Fix a link in the README · d3a4eefd

DeepMind authored Jul 23, 2021

PiperOrigin-RevId: 386417647
Change-Id: I6f2121f3c02d3ef97467f46c5e651ca1b0f2eab2

d3a4eefd

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
```
PiperOrigin-RevId: 386228948
```
  0bab1bf8
16 Jul, 2021 1 commit
- Switch BFD download script to mirror. · d26287ea
  Tim Green authored Jul 16, 2021
  
  d26287ea
15 Jul, 2021 1 commit
- Initial release of AlphaFold. · 1109480e
  Augustin-Zidek authored Jul 15, 2021
```
PiperOrigin-RevId: 384954738
```
  1109480e