Commits · 945ecc0cc041c68eaaf08972d0be84f4c6f68821 · OpenDAS / OpenFold

08 May, 2024 11 commits
- minor language edits · 945ecc0c
  jnwei authored May 08, 2024
  
  945ecc0c
- small edits to main page · d22a354b
  jnwei authored May 08, 2024
  
  d22a354b
- creates link to FAQ in documentation · 6c25555a
  jnwei authored May 08, 2024
  
  6c25555a
- Adds FAQ section · 72bb51ec
  jnwei authored May 08, 2024
  
  72bb51ec
- add convert v1 weights instructions · 24dc3af0
  jnwei authored May 08, 2024
  
  24dc3af0
- Add addtional inference pages · 60cfbcc1
  jnwei authored May 08, 2024
  
  60cfbcc1
- updates to Inference.md · 087cf9f8
  jnwei authored May 08, 2024
  
  087cf9f8
- cleanup makefiles and original readme · b87946a2
  jnwei authored May 08, 2024
  
  b87946a2
- replace doc environment pip dependencies with conda builds · 67668153
  jnwei authored May 08, 2024
  
  67668153
- fix typo in readthedocs.yaml · fd294f86
  jnwei authored May 08, 2024
  
  fd294f86
- Rough draft dump of docs and readthedocs build · a432a936
  jnwei authored May 08, 2024
  
  a432a936
20 Mar, 2024 1 commit
- Initial commit for sphinx documentation. · e41e6517
  jnwei authored Mar 20, 2024
  
  e41e6517
21 Feb, 2024 3 commits
- removes outputs from OpenFold.ipynb · f1cd1381
  jnwei authored Feb 21, 2024
  
  f1cd1381
- Merge weight-loading changes into setup-improvements · 9776b696
  jnwei authored Feb 21, 2024
  
  9776b696
- Updates commit value for OpenFold notebook. · 9f346d35
  jnwei authored Feb 21, 2024
  
  9f346d35
20 Feb, 2024 4 commits
- Merge branch 'setup-improvements' of https://github.com/aqlaboratory/openfold... · 11952997
  Christina Floristean authored Feb 20, 2024
```
Merge branch 'setup-improvements' of https://github.com/aqlaboratory/openfold into setup-improvements
```
  11952997
- Add improved alignment-db creation script · 70918209
  Lukas Jarosch authored Oct 06, 2023
```
- much faster due to the use of threading and mp
- also supports sharding
```
  70918209
- Scripts from Lukas to be used in improved setup process · 50949b9a
  Christina Floristean authored Sep 08, 2023
  
  50949b9a
- changes reloading weights to account for possible state_dict headers. · ddfccd56
  Jennifer authored Feb 14, 2024
  
  ddfccd56
14 Feb, 2024 1 commit
- Add log statement to weight conversion script · e31e0378
  Jennifer authored Feb 13, 2024
  
  e31e0378
12 Feb, 2024 1 commit
- bugfixes and adds a section to convert optim files · 775f77dd
  Jennifer authored Feb 12, 2024
  
  775f77dd
09 Feb, 2024 1 commit
- Adjust weight conversion and add a script for converting checkpoints. · 260592e0
  Jennifer authored Feb 09, 2024
  
  260592e0
08 Feb, 2024 2 commits
- updates zero_to_fp32.py for new deepspeed version and import_weight bugfix · 1df591b0
  Jennifer authored Feb 08, 2024
  
  1df591b0
- Merge pull request #405 from aqlaboratory/multimer · bb3f51e5
  Christina Floristean authored Feb 07, 2024
```
Full multimer merge
```
  bb3f51e5
07 Feb, 2024 14 commits
- Merge branch 'main' into multimer · c33a0bd6
  Christina Floristean authored Feb 07, 2024
  
  c33a0bd6
- Fixed learning rate scheduler issue, returned to original msa file parsing · 6275091c
  Christina Floristean authored Feb 07, 2024
  
  6275091c
- Merge pull request #404 from jnwei/multimer-small-edits · bc075004
  Jennifer Wei authored Feb 07, 2024
```
Type fixes and README changes for multimer branch
```
  bc075004
- Merge branch 'multimer' into multimer-small-edits · a2adb147
  jnwei authored Feb 07, 2024
  
  a2adb147
- edit starting sequence in notebook · 1165d9eb
  jnwei authored Feb 07, 2024
  
  1165d9eb
- Adding multimer support to OpenFold notebook · d4acbe6e
  jnwei authored Jan 30, 2024
  
  d4acbe6e
- Update README.md · 81d817fe
  Jennifer Wei authored Jan 31, 2024
```
fixed a typo in the readme for soloseq params path
```
  81d817fe
- edit starting sequence in notebook · 5e0616b6
  jnwei authored Feb 07, 2024
  
  5e0616b6
- Adding multimer support to OpenFold notebook · 94a3b18e
  jnwei authored Jan 30, 2024
  
  94a3b18e
- update setup.py file for version number · 3c5233bd
  jnwei authored Feb 07, 2024
  
  3c5233bd
- adds cutlass directory to .gitignore · 396fd44a
  Jennifer authored Feb 07, 2024
  
  396fd44a
- Add fixes to permutation test after refactor · 0fe5ea31
  Jennifer authored Feb 07, 2024
  
  0fe5ea31
- fix deepspeed_evo_attention to work in both monomer and multimer settings. · 0aa69474
  Jennifer authored Feb 07, 2024
  
  0aa69474
- create separate test configs for multimer and monomer · 204ed191
  Jennifer authored Feb 07, 2024
  
  204ed191
06 Feb, 2024 2 commits
- debugging for permutation test · bf8788c7
  Jennifer authored Feb 06, 2024
  
  bf8788c7
- Fix Miniforge3 download link in Dockerfile · de12c0ea
  controny authored Feb 05, 2024
  
  de12c0ea