Commits · 13f0f6fe165dc0cb8af29662b9137bfa26d8349e · OpenDAS / OpenFold

27 Oct, 2023 1 commit
- Adds libgcc and pytorch::pytorch to environment.yml · 13f0f6fe
  Jennifer Wei authored Oct 27, 2023
  
  13f0f6fe
24 Oct, 2023 8 commits
- Test docker image nvidia/11.7.1-cudnn8-devel-ubuntu18.04 · a5c69a79
  jnwei authored Oct 24, 2023
  
  a5c69a79
- Change docker image to use cudnn devel environment · e2bb3c4b
  jnwei authored Oct 24, 2023
  
  e2bb3c4b
- Test nvidia image 11.4.3-cudnn8-runtime-unbuntu18.04 · 6fe34248
  jnwei authored Oct 24, 2023
  
  6fe34248
- Fix export statement · 5efba442
  jnwei authored Oct 24, 2023
  
  5efba442
- Update Dockerfile to add conda path to $LD_LIBRARY_PATH · 3817d940
  jnwei authored Oct 24, 2023
  
  3817d940
- update flash-attention-version · a5a86d43
  jnwei authored Oct 24, 2023
  
  a5a86d43
- Add git to environment.yml · f06657fe
  Jennifer Wei authored Oct 24, 2023
  
  f06657fe
- Test flash-attention v0.2.1 on docker CI · a90da395
  jnwei authored Oct 24, 2023
  
  a90da395
23 Oct, 2023 7 commits
- Merge remote-tracking branch 'mattwthompson/ci' into installation-updates · 5f5c8f2a
  jnwei authored Oct 23, 2023
  
  5f5c8f2a
- Use conventional "short hash" style · 7666c802
  Matthew W. Thompson authored Oct 23, 2023
  
  7666c802
- Update name to `pytorch-lightning` · 58210350
  Matthew W. Thompson authored Oct 23, 2023
  
  58210350
- Add Dependabot for Actions · 736d6687
  Matthew W. Thompson authored Oct 23, 2023
  
  736d6687
- Update checkout action · 32c11376
  Matthew W. Thompson authored Oct 23, 2023
  
  32c11376
- Switch to Miniforge3 · f86d42f4
  Matthew W. Thompson authored Oct 23, 2023
  
  f86d42f4
- Update environment YAML · 6bf5c8ce
  Matthew W. Thompson authored Oct 23, 2023
  
  6bf5c8ce
20 Oct, 2023 6 commits
- Update BibTex · 0c20e3c9
  Gustaf Ahdritz authored Oct 19, 2023
  
  0c20e3c9
- Remove conda env config setting and update to README · d6ae9f58
  jnwei authored Oct 20, 2023
  
  d6ae9f58
- Updates Dockerfile to not use OpenMM patches. · b3a118fc
  Jennifer Wei authored Oct 20, 2023
  
  b3a118fc
- Merge branch 'installation-updates' of... · 2893fd93
  Jennifer Wei authored Oct 20, 2023
```
Merge branch 'installation-updates' of https://github.com/aqlaboratory/openfold into installation-updates

Merging changes from different systems
```
  2893fd93
- Updates installation instructions in the README. · 3e3f07c7
  Jennifer Wei authored Oct 20, 2023
  
  3e3f07c7
- - Moves python packages to conda installation · fcba3358
  Jennifer Wei authored Oct 20, 2023
```
  instead of pip
- Adds helper line to automatically prepend conda library to
  $LD_LIBRARY_PATH
```
  fcba3358
19 Oct, 2023 1 commit
- Update BibTex · 2300f672
  Gustaf Ahdritz authored Oct 19, 2023
  
  2300f672
17 Oct, 2023 4 commits
- Merge branch 'installation-updates' of... · d77a8dab
  Jennifer authored Oct 17, 2023
```
Merge branch 'installation-updates' of https://github.com/aqlaboratory/openfold into installation-updates
```
  d77a8dab
- Remove openmm patches · fb34a0cb
  Jennifer authored Oct 17, 2023
  
  fb34a0cb
- Updating $LD_LIBRARY_PATH to include conda environment library. · 705c2677
  Jennifer Wei authored Oct 17, 2023
  
  705c2677
- update installation scripts. · 4fde713c
  Jennifer Wei authored Oct 17, 2023
  
  4fde713c
16 Oct, 2023 1 commit
- Removes conda installation from installation script. · 7922bd57
  Jennifer Wei authored Oct 16, 2023
  
  7922bd57
11 Oct, 2023 1 commit
- README fixes for single sequence model · 6381ddd6
  Sachin Kadyan authored Oct 11, 2023
  
  6381ddd6
10 Oct, 2023 11 commits
- Improved UX: Automatically set the single seq mode flag · e8de822e
  Sachin Kadyan authored Oct 05, 2023
  
  e8de822e
- Separate out the seq mode configs from vanilla OF config · c8c12397
  Sachin Kadyan authored Oct 02, 2023
  
  c8c12397
- Limit the MSA distillation clusters to 1 in seq mode · b45a91ba
  Sachin Kadyan authored Oct 02, 2023
  
  b45a91ba
- Reduce redundancy in seq embedding config presets · 3f592307
  Sachin Kadyan authored Oct 02, 2023
  
  3f592307
- Fix typos · 6aefa986
  Gustaf Ahdritz authored Sep 29, 2023
  
  6aefa986
- Updated README: Running seqemb model inference · 3c240cb3
  Sachin Kadyan authored Sep 27, 2023
  
  3c240cb3
- Added test for no column attention Evoformer · 28334db3
  Sachin Kadyan authored Sep 18, 2023
  
  28334db3
- Added sequence embedding mode test for `model`. · a7c0d0d1
  Sachin Kadyan authored Sep 18, 2023
  
  a7c0d0d1
- Added test for PreembeddingEmbedder · 777d738a
  Sachin Kadyan authored Sep 17, 2023
  
  777d738a
- Default value for --use_single_seq_mode arg · 6012b9e1
  Sachin Kadyan authored Sep 15, 2023
  
  6012b9e1
- Add sequence embedding mode option to .core file parser · 08ef6e9f
  Sachin Kadyan authored Sep 15, 2023
  
  08ef6e9f