Commits · 49ab0539547b9ae921d8bc7c2beb106e085fc3cf · OpenDAS / OpenFold

19 Feb, 2024 1 commit
- first pass changes to run with pl 2.1 · ff368008
  Jennifer authored Jan 24, 2024
  
  ff368008
07 Feb, 2024 1 commit
- Fixed learning rate scheduler issue, returned to original msa file parsing · 6275091c
  Christina Floristean authored Feb 07, 2024
  
  6275091c
26 Jan, 2024 1 commit
- first pass changes to run with pl 2.1 · df4dfacb
  Jennifer authored Jan 24, 2024
  
  df4dfacb
05 Dec, 2023 1 commit
- reverse back to multimer branch version · 08bfb1ff
  Dingquan Yu authored Dec 05, 2023
  
  08bfb1ff
30 Nov, 2023 1 commit
- added timing steps · aec12764
  Dingquan Yu authored Nov 30, 2023
  
  aec12764
03 Nov, 2023 1 commit
- Fix for loading old OF weights into refactored model · f65b75fe
  Christina Floristean authored Nov 03, 2023
  
  f65b75fe
17 Oct, 2023 1 commit
- Refactoring multimer perm alignment, temporary fixes before removing recycling dimension · 7c7dffd0
  Christina Floristean authored Oct 16, 2023
  
  7c7dffd0
16 Oct, 2023 1 commit
- Refactoring multimer data pipeline and permutation alignment. · 0cf1541c
  Christina Floristean authored Oct 16, 2023
  
  0cf1541c
10 Oct, 2023 2 commits
- Default value for --use_single_seq_mode arg · 6012b9e1
  Sachin Kadyan authored Sep 15, 2023
  
  6012b9e1
- Added flag in training script for using sequence embeddings · 395a9f1b
  Sachin Kadyan authored Sep 14, 2023
  
  395a9f1b
25 Sep, 2023 1 commit
- update trainining code with new input from new multimer pipeline · 3aaf0ca8
  Geoffrey Yu authored Sep 25, 2023
  
  3aaf0ca8
10 Sep, 2023 1 commit
- Update train_openfold.py · da92663d
  Dingquan Yu authored Sep 10, 2023
  
  da92663d
08 Sep, 2023 1 commit
- update train_openfold to handle val_mmcif_cache;update datamodule to handle if... · dc5d43d7
  Geoffrey Yu authored Sep 08, 2023
```
update train_openfold to handle val_mmcif_cache;update datamodule to handle if validation mmcif cache is not provided
```
  dc5d43d7
28 Aug, 2023 1 commit
- Fixes for memory usage in multimer dataloader, spatial cropping, and tensor... · ab09ded4
  Christina Floristean authored Aug 28, 2023
```
Fixes for memory usage in multimer dataloader, spatial cropping, and tensor type conversions within model.
```
  ab09ded4
02 Aug, 2023 1 commit
- Bug fixes for multimer inference and monomer training · fdcb72e8
  Christina Floristean authored Aug 02, 2023
  
  fdcb72e8
21 Jul, 2023 1 commit
- remove some print statements · 4e382310
  Geoffrey Yu authored Jul 21, 2023
  
  4e382310
20 Jul, 2023 1 commit
- update train_openfold.py to accomodate training multimer · 4b354151
  Geoffrey Yu authored Jul 20, 2023
  
  4b354151
07 Jul, 2023 1 commit
- Fix assert bug · 1d878a12
  Gustaf Ahdritz authored Jul 07, 2023
  
  1d878a12
15 Jun, 2023 1 commit
- Fix batched finetuning bugs · 55003f16
  Gustaf Ahdritz authored Jun 14, 2023
  
  55003f16
31 Jan, 2023 2 commits
- Fix wrong parsing · 0c4a93f7
  Lucas Bickmann authored Jan 31, 2023
  
  0c4a93f7
- Change wrong help message, updated naming convention · 1026158e
  Lucas Bickmann authored Jan 31, 2023
  
  1026158e
25 Jan, 2023 2 commits
- fixed obsolete str-casting · 15c5bf38
  Lucas Bickmann authored Jan 25, 2023
  
  15c5bf38
- Added support for Jax-parameter loading to train_openfold.py · 2b08407d
  Lucas Bickmann authored Jan 25, 2023
  
  2b08407d
07 Oct, 2022 2 commits
- Fix argument check · 94e0a473
  Gustaf Ahdritz authored Oct 07, 2022
  
  94e0a473
- Refactor FP16 check · f84eb0a1
  Gustaf Ahdritz authored Oct 07, 2022
  
  f84eb0a1
08 Aug, 2022 1 commit
- Remove old SLURM stuff · 786afe00
  Gustaf Ahdritz authored Aug 08, 2022
  
  786afe00
02 Aug, 2022 3 commits
- fix lr resume for non-deepspeed ckpts · a2e7dabb
  Zhang690683220 authored Aug 02, 2022
  
  a2e7dabb
- Remove assumption that checkpoint is a directory · 581d64f2
  Gustaf Ahdritz authored Aug 01, 2022
  
  581d64f2
- Fix argparse bug · 904de71f
  Gustaf Ahdritz authored Aug 01, 2022
  
  904de71f
30 Jul, 2022 1 commit
- add the missing resume_last_lr_step() · 69a8a287
  Zhang690683220 authored Jul 29, 2022
  
  69a8a287
29 Jul, 2022 1 commit
- fix incorrect learning rate warm-up after restarting from ckpt · a7274ef0
  Zhang690683220 authored Jul 29, 2022
  
  a7274ef0
22 Jul, 2022 1 commit
- Rename mapping parameter · 3246e8ca
  Gustaf Ahdritz authored Jul 22, 2022
  
  3246e8ca
20 Jul, 2022 2 commits
- Undo accidental training script change · 47fccce1
  Gustaf Ahdritz authored Jul 20, 2022
  
  47fccce1
- Fix pLDDT bug · 4358096c
  Gustaf Ahdritz authored Jul 20, 2022
  
  4358096c
27 Jun, 2022 1 commit
- Add alignment DB scripts · 728f99fc
  Gustaf Ahdritz authored Jun 27, 2022
  
  728f99fc
28 Apr, 2022 1 commit
- Fix validation metric bugs · 78567a86
  Gustaf Ahdritz authored Apr 27, 2022
  
  78567a86
20 Mar, 2022 1 commit
- Tweak training script. Install new LR scheduler · 3dcc01a7
  Gustaf Ahdritz authored Mar 20, 2022
  
  3dcc01a7
18 Mar, 2022 1 commit
- fix parameter restorage in validation · 9a08acd8
  Zhaocheng Zhu authored Mar 18, 2022
  
  9a08acd8
14 Mar, 2022 1 commit
- Multimer WIP · 54164fe8
  Gustaf Ahdritz authored Mar 14, 2022
  
  54164fe8
23 Feb, 2022 1 commit
- Fix typo in training script · 4a613bbe
  Gustaf Ahdritz authored Feb 23, 2022
  
  4a613bbe