Commits · a741b42ad0b287982e9cbc7e7e1fcce93e600371 · OpenDAS / OpenFold

24 Jun, 2023 5 commits
- added example label files · a741b42a
  Geoffrey Yu authored Jun 24, 2023
  
  a741b42a
- remove unnecessary extra file · 50abc1a7
  Geoffrey Yu authored Jun 24, 2023
  
  50abc1a7
- Merge pull request #2 from dingquanyu/cleanup-permutation · 697ac82a
  Dingquan Yu authored Jun 24, 2023
```
added multi-chain permutation to AlphaFoldMultimerLoss
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  697ac82a
- added multi-chain permutation to AlphaFoldMultimerLoss · a49e4896
  Geoffrey Yu authored Jun 24, 2023
  
  a49e4896
- revert data_utils and remove all the changes in this file · 85cd91f6
  Geoffrey Yu authored Jun 24, 2023
  
  85cd91f6
22 Jun, 2023 6 commits
- update test codes · ab659c39
  Geoffrey Yu authored Jun 22, 2023
  
  ab659c39
- fixed downstream greedy align · 4a66504c
  Geoffrey Yu authored Jun 22, 2023
  
  4a66504c
- now used the new way of selecting anchors · a0f8a057
  Geoffrey Yu authored Jun 22, 2023
  
  a0f8a057
- finished codes for num_sym 1 · 54755901
  Geoffrey Yu authored Jun 22, 2023
  
  54755901
- fixed get_anchor_candidates error · f563944a
  Geoffrey Yu authored Jun 22, 2023
  
  f563944a
- remove recycling dimentions · c6ac105d
  Geoffrey Yu authored Jun 22, 2023
  
  c6ac105d
21 Jun, 2023 3 commits
- update codes · d3b2b265
  Geoffrey Yu authored Jun 21, 2023
  
  d3b2b265
- fixed the assertion errors in get_optimal_transform · d4b6163d
  Geoffrey Yu authored Jun 21, 2023
  
  d4b6163d
- finished working on selecting best anchors. now start working on get_optimal_transform · e3e8a681
  Geoffrey Yu authored Jun 21, 2023
  
  e3e8a681
20 Jun, 2023 1 commit
- start working on permutation · 1008f61d
  Geoffrey Yu authored Jun 20, 2023
  
  1008f61d
17 Jun, 2023 3 commits
- start working on multimer loss · 39830684
  Geoffrey Yu authored Jun 17, 2023
  
  39830684
- Merge remote-tracking branch 'upstream/multimer' into multimer · 56d5e39c
  Geoffrey Yu authored Jun 17, 2023
  
  56d5e39c
- Merge pull request #1 from aqlaboratory/main · 56b86074
  Dingquan Yu authored Jun 17, 2023
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Fix batched finetuning bugs
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  56b86074
15 Jun, 2023 1 commit
- Fix batched finetuning bugs · 55003f16
  Gustaf Ahdritz authored Jun 14, 2023
  
  55003f16
14 Jun, 2023 1 commit
- Added multimer changes for loss functions · 51556d52
  Christina Floristean authored Jun 14, 2023
  
  51556d52
02 Jun, 2023 2 commits
- Merge branch 'main' into multimer · fbfbd808
  Christina Floristean authored Jun 02, 2023
  
  fbfbd808
- Fixed bug in triangle multiplicative update and added early stop recycling. · c1129bef
  Christina Floristean authored Jun 02, 2023
  
  c1129bef
18 May, 2023 2 commits
- Merge pull request #320 from vaclavhanzl/fix-colab-conda-all-together · 103d0370
  Gustaf Ahdritz authored May 18, 2023
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Fix Colab: Install all conda packages together
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  103d0370
- Fix Colab: Install all conda packages together · 410e8294
  Vaclav Hanzl authored May 18, 2023
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Later on the conda setup is likely broken by pip.
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  410e8294
17 May, 2023 2 commits
- Merge pull request #308 from vaclavhanzl/colab-add-dep-fix-python-version · 1f9270cb
  Gustaf Ahdritz authored May 17, 2023
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Fix Colab again after ModelCIF merge and python version change in Colab
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  1f9270cb
- Merge pull request #314 from luwei0917/patch-1 · cc1f8baa
  Gustaf Ahdritz authored May 17, 2023
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Add comment about the interpretation of ambiguous atoms
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  cc1f8baa
16 May, 2023 1 commit
- Null change just to re-run integration test · 35b1c4e1
  Vaclav Hanzl authored May 16, 2023
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Sorry, I have no other way to re-run the Docker build test.
Changed one space.
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  35b1c4e1
15 May, 2023 1 commit
- Merge pull request #309 from vaclavhanzl/fix-docker-use-python3-9 · d5354830
  Christina Floristean authored May 15, 2023
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Advance python version to 3.9 to build docker in Ubuntu Lunar Lobster
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  d5354830
13 May, 2023 2 commits
- Standardize if condition · 5484c381
  Gustaf Ahdritz authored May 13, 2023
  
  5484c381
- Prevent division by 0 · c52d262c
  Gustaf Ahdritz authored May 13, 2023
  
  c52d262c
09 May, 2023 1 commit
- Update openmm to 7.7.0, patch not needed anymore, update pdbfixer · 71d7bd5d
  Vaclav Hanzl authored May 09, 2023
  
  71d7bd5d
05 May, 2023 1 commit
- add comment about the interpretation of ambiguous atoms · 8d4d8636
  Wei Lu （陆威） authored May 05, 2023
  
  8d4d8636
26 Apr, 2023 1 commit
- Advance python version to 3.9 to build docker in Ubuntu Lunar Lobster · 942f4d6e
  Vaclav Hanzl authored Apr 26, 2023
  
  942f4d6e
25 Apr, 2023 4 commits
- Improve notebook: Automate tracking of the python version in Colab · 8b36691f
  Vaclav Hanzl authored Apr 25, 2023
  
  8b36691f
- Make recently new cif_output arguments optional, do not break existing code · feb99932
  Vaclav Hanzl authored Apr 25, 2023
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Colab notbook was broken by this change and potentially code of other users
as well. Keep backward compatibility by also allowing the old way.
```
  feb99932
- Fix notebook: Colab now has python 3.9, bump it in our tricks · b95099bb
  Vaclav Hanzl authored Apr 25, 2023
  
  b95099bb
- Fix notebook: Add new modelcif dependency · 5700d8ca
  Vaclav Hanzl authored Apr 25, 2023
  
  5700d8ca
20 Apr, 2023 1 commit
- Remove comment · b5fa2ba3
  Gustaf Ahdritz authored Apr 20, 2023
  
  b5fa2ba3
18 Apr, 2023 1 commit
- Added UniRef30 to data pipeline · 425bdb5e
  Christina Floristean authored Apr 18, 2023
  
  425bdb5e
17 Apr, 2023 1 commit
- Multimer v3 updates · 68828c49
  Christina Floristean authored Apr 17, 2023
  
  68828c49