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Commits on Aug 29, 2024

• bug fixes

  

  ardagoreci

  committed
  d04ee1e

• Add the residual connections

  

  ardagoreci

  committed
  0e817b7

• Merge pull request Ligo-Biosciences#33 from Ligo-Biosciences/cleanup-v2

  ardagoreci

  authored
  8cbfb72

• bug fixes

  

  ardagoreci

  committed
  6c7d5b0

• Bug fixes

  

  ardagoreci

  committed
  456ae11

Commits on Aug 28, 2024

• increase magnitude of random translation for ref_pos

  

  ardagoreci

  committed
  1241af4

• changed default config to adamw

  

  ardagoreci

  committed
  4c94802

• proteus config

  

  ardagoreci

  committed
  efb972c

• AdamW configs and rotations for ref_pos

  

  ardagoreci

  committed
  729b62d

• Fixed EMA bugs

  

  ardagoreci

  committed
  10417ee

• Fix scheduler typo

  

  ardagoreci

  committed
  2cef8db

• Config refactoring

  

  ardagoreci

  committed
  dc4bb87

• Fix MSA module checkpointing

  

  ardagoreci

  committed
  2dfd8de

• Implemented naive atom attention

  

  ardagoreci

  committed
  8755dae

• Revert back to original checkpointing file

  

  ardagoreci

  committed
  15f13be

• Revert to old checkpointing

  

  ardagoreci

  committed
  bf3279b

• fix configs and improved checkpointing

  

  ardagoreci

  committed
  b854989

Commits on Aug 27, 2024

• Added validation metrics and tests

  

  ardagoreci

  committed
  bd66326

• Cleaner configs

  

  ardagoreci

  committed
  25d9be0

Commits on Aug 25, 2024

• remove compilation

  

  ardagoreci

  committed
  e5d90af

Commits on Aug 24, 2024

• add big-proteus config

  

  ardagoreci

  committed
  064b372

• add compilation

  

  ardagoreci

  committed
  fa95f99

• original alphafold3 learning rates etc., add mini-alphafold3 configs

  

  ardagoreci

  committed
  be9acdf

Commits on Aug 23, 2024

• original alphafold3 loss settings

  

  ardagoreci

  committed
  9d492a3

• fix loss calculation bug

  

  ardagoreci

  committed
  fcf03e2

• add epsilon to the loss division, compile diffusion forward

  

  ardagoreci

  committed
  80caef3

• fix diffusion loss bug

  

  ardagoreci

  committed
  85105c4

Commits on Aug 22, 2024

• project Q with a biased linear in AttentionPairBias

  

  ardagoreci

  committed
  d0c87ef

Commits on Aug 21, 2024

• remove compilation and sampling bug fix

  

  ardagoreci

  committed
  ed360a8

• added compilation to specific blocks

  

  ardagoreci

  committed
  5d8396b

Commits on Aug 20, 2024

• remove compilation

  

  ardagoreci

  committed
  9257dec

• remove compilation

  

  ardagoreci

  committed
  2c6dfbf

• remove LDDT score calculation

  

  ardagoreci

  committed
  3daffbb

• bug fixes

  

  ardagoreci

  committed
  0dc303b

Commits on Aug 19, 2024

• removed compile arguments

  

  ardagoreci

  committed
  42825cd

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