Commits · e3daf724458ee96ec49cfd1a040ce28adce2cb53 · OpenDAS / OpenFold

03 Jan, 2022 1 commit
- Overhaul transformation code for better parity w/ AlphaFold · e3daf724
  Gustaf Ahdritz authored Jan 03, 2022
  
  e3daf724
31 Dec, 2021 4 commits
- Add data pipeline test · 14cce39a
  Gustaf Ahdritz authored Dec 30, 2021
  
  14cce39a
- Change name of test data directory · 96809433
  Gustaf Ahdritz authored Dec 30, 2021
  
  96809433
- Add sample feature dict · 079baeb7
  Gustaf Ahdritz authored Dec 30, 2021
  
  079baeb7
- Add more sample data · 85d39c80
  Gustaf Ahdritz authored Dec 30, 2021
  
  85d39c80
30 Dec, 2021 1 commit
- Fix bugs in data unit tests · dfdd722c
  Gustaf Ahdritz authored Dec 30, 2021
  
  dfdd722c
22 Dec, 2021 11 commits
- Added test for make_atom14_masks · e1c7c9e7
  Sachin Kadyan authored Dec 21, 2021
  
  e1c7c9e7
- Added test for crop_templates · f33faf84
  Sachin Kadyan authored Dec 21, 2021
  
  f33faf84
- Added test for make_msa_feat · b8e597b0
  Sachin Kadyan authored Dec 21, 2021
  
  b8e597b0
- Added test for make_masked_msa · cdc28a07
  Sachin Kadyan authored Dec 21, 2021
  
  cdc28a07
- Added test for make_hhbits_profile · e683dce3
  Sachin Kadyan authored Dec 21, 2021
  
  e683dce3
- Added test for make_msa_mask · a3b5c162
  Sachin Kadyan authored Dec 21, 2021
  
  a3b5c162
- Added test for nearest_neighbor_clusters · 974fe5a9
  Sachin Kadyan authored Dec 21, 2021
  
  974fe5a9
- Added test for delete_extra_msa · 734ce915
  Sachin Kadyan authored Dec 21, 2021
  
  734ce915
- Added test for crop_extra_msa · 09564595
  Sachin Kadyan authored Dec 21, 2021
  
  09564595
- Added test for sample_msa · 925d56f8
  Sachin Kadyan authored Dec 21, 2021
  
  925d56f8
- Added tests for randomly_replace_msa_with_unknown · 011a6526
  Sachin Kadyan authored Dec 21, 2021
  
  011a6526
21 Dec, 2021 7 commits
- Fixed filepath for the features.pkl pickle file. · cad8de7e
  Sachin Kadyan authored Dec 21, 2021
  
  cad8de7e
- Added tests for squeeze_features. · 8923e536
  Sachin Kadyan authored Dec 21, 2021
  
  8923e536
- Added a pickle file of protein features, for use during tests. · 9e4fb16f
  Sachin Kadyan authored Dec 21, 2021
  
  9e4fb16f
- Added test for correct_msa_restypes · 10fc9ec0
  Sachin Kadyan authored Dec 21, 2021
  
  10fc9ec0
- Added test for fix_templates_aatype · a9c1715b
  Sachin Kadyan authored Dec 21, 2021
  
  a9c1715b
- Added test for make_all_atom_aatype · 02bf2e83
  Sachin Kadyan authored Dec 21, 2021
  
  02bf2e83
- Added flag in protein to indicate if protein comes from distillation dataset. · bc7864b1
  Sachin Kadyan authored Dec 21, 2021
  
  bc7864b1
17 Dec, 2021 1 commit
- Add low-memory attention (still needs to be incorporated) · 96709588
  Gustaf Ahdritz authored Dec 17, 2021
  
  96709588
11 Dec, 2021 2 commits
- Make triangular attention test even more sensitive · 6c5cd945
  Gustaf Ahdritz authored Dec 10, 2021
  
  6c5cd945
- Make triangle attention test more sensitive · 80f968fe
  Gustaf Ahdritz authored Dec 10, 2021
  
  80f968fe
10 Dec, 2021 1 commit
- Added tests for the data_transforms · f9e04aa0
  Sachin Kadyan authored Dec 10, 2021
  
  f9e04aa0
03 Dec, 2021 1 commit
- Add flat chunk slicing · f707a9ea
  Gustaf Ahdritz authored Dec 02, 2021
  
  f707a9ea
19 Nov, 2021 1 commit
- Fix bugs from previous commit · 862dab6f
  Gustaf Ahdritz authored Nov 19, 2021
  
  862dab6f
15 Nov, 2021 2 commits
- Appease flake8 around importlib import · 1d657f55
  Gustaf Ahdritz authored Nov 15, 2021
  
  1d657f55
- Add warning to test utils script · 94d890d8
  Gustaf Ahdritz authored Nov 15, 2021
  
  94d890d8
14 Nov, 2021 1 commit
- Add sample features · a933bc74
  Gustaf Ahdritz authored Nov 14, 2021
  
  a933bc74
09 Nov, 2021 1 commit
- Add MMseqs2 MSA generation · 36f317be
  Gustaf authored Nov 09, 2021
  
  36f317be
28 Oct, 2021 1 commit
- Make template code use less memory during inference · 2faff451
  Gustaf Ahdritz authored Oct 28, 2021
  
  2faff451
20 Oct, 2021 1 commit
- Bring tests up to speed · 49767099
  Gustaf Ahdritz authored Oct 19, 2021
  
  49767099
16 Oct, 2021 1 commit
- Standardize code style · 07e64267
  Gustaf Ahdritz authored Oct 16, 2021
  
  07e64267
15 Oct, 2021 1 commit
- Add training parsers · d48c052c
  Gustaf Ahdritz authored Oct 15, 2021
  
  d48c052c
10 Oct, 2021 1 commit
- Add TM calculations, move testing wrappers · a3c2ae51
  Gustaf Ahdritz authored Oct 10, 2021
  
  a3c2ae51
09 Oct, 2021 1 commit
- Move config script, reformat data_transforms · 651949b2
  Gustaf Ahdritz authored Oct 08, 2021
  
  651949b2