Commits · bcd7808502839169a933ad9138b31728b6a132f3 · OpenDAS / OpenFold

03 Jan, 2022 5 commits
- Add missing imports · bcd78085
  Gustaf Ahdritz authored Jan 03, 2022
  
  bcd78085
- Overhaul transformation code for better parity w/ AlphaFold · e3daf724
  Gustaf Ahdritz authored Jan 03, 2022
  
  e3daf724
- Update name of validation mode · 1f709b0d
  Gustaf Ahdritz authored Jan 03, 2022
  
  1f709b0d
- Merge branch 'main' of ssh://github.com/aqlaboratory/openfold into main · 0febc3e5
  Gustaf Ahdritz authored Jan 03, 2022
  
  0febc3e5
- Add else branch to data module · 1c3d31bb
  Gustaf Ahdritz authored Jan 03, 2022
  
  1c3d31bb
31 Dec, 2021 8 commits
- Add missing cached_weights line · 30e051cf
  Gustaf Ahdritz authored Dec 31, 2021
  
  30e051cf
- Add data pipeline test · 14cce39a
  Gustaf Ahdritz authored Dec 30, 2021
  
  14cce39a
- Remove CUDA_VISIBLE_DEVICES setting · f9dc8b15
  Gustaf Ahdritz authored Dec 30, 2021
  
  f9dc8b15
- Change name of test data directory · 96809433
  Gustaf Ahdritz authored Dec 30, 2021
  
  96809433
- Add default parameters to template featurizer · fe5e581a
  Gustaf Ahdritz authored Dec 30, 2021
  
  fe5e581a
- Add sample feature dict · 079baeb7
  Gustaf Ahdritz authored Dec 30, 2021
  
  079baeb7
- Add script for generating sample feature dict · 36b9a8ea
  Gustaf Ahdritz authored Dec 30, 2021
  
  36b9a8ea
- Add more sample data · 85d39c80
  Gustaf Ahdritz authored Dec 30, 2021
  
  85d39c80
30 Dec, 2021 3 commits
- Fix bugs in data unit tests · dfdd722c
  Gustaf Ahdritz authored Dec 30, 2021
  
  dfdd722c
- Remove print statement · 56849437
  Gustaf Ahdritz authored Dec 30, 2021
  
  56849437
- Slightly refactor recycling code to improve FP16 stability · bb6f6145
  Gustaf Ahdritz authored Dec 30, 2021
  
  bb6f6145
29 Dec, 2021 1 commit
- Fix TorchScripting bug, add command-line parameter for scripting · b47138dc
  Gustaf Ahdritz authored Dec 29, 2021
  
  b47138dc
28 Dec, 2021 4 commits
- Fix typo in model.py · e1142cf3
  Gustaf Ahdritz authored Dec 28, 2021
  
  e1142cf3
- Reformat train_openfold.py · ca43b8dd
  Gustaf Ahdritz authored Dec 28, 2021
  
  ca43b8dd
- Merge branch 'main' of ssh://github.com/aqlaboratory/openfold into main · 9ce96fb5
  Gustaf Ahdritz authored Dec 27, 2021
  
  9ce96fb5
- Fix RNG bug · 3d5e8740
  Gustaf Ahdritz authored Dec 27, 2021
  
  3d5e8740
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
20 Dec, 2021 1 commit
- Update name of ProteinNet script in README · 0e9aaa63
  Gustaf Ahdritz authored Dec 20, 2021
  
  0e9aaa63