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Commits on Mar 17, 2022

• Do not reuse the temporary output directory in run_alphafold_test.

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  Augustin-Zidek

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Commits on Mar 16, 2022

• Fix readme wording.

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  Alex Bridgland

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• Add info for getting in touch via email to colab and readme.

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  Alex Bridgland

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Commits on Mar 8, 2022

• Add instructions for using multimer v1 model weights.

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  sbodenstein

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Commits on Mar 7, 2022

• Update open source between_residue_clash_loss to take into account multiple chains.

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  rich12321

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• Update change-log to briefly describe the change in AlphaFold-Multimer models.

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  rich12321

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Commits on Mar 3, 2022

• Update multimer models to v2.

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  sbodenstein

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Commits on Mar 2, 2022

• Remove unused function casp_model_names.

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  sbodenstein

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• No longer use runtime=nvidia to expose GPUs to the container.

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  tomwardio

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Commits on Feb 23, 2022

• Simplify mounting of files.

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  andycowie

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Commits on Feb 21, 2022

• Remove unused bias arg in GlobalAttention.

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  Tim Green

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Commits on Feb 18, 2022

• Remove prokaryotic pairing from AFOS.

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  rich12321

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• Fix random_seed overflow when seeds per model > 1.

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  rich12321

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Commits on Feb 17, 2022

• Enable multiple seeds per model for AlphaFold-Multimer.

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  rich12321

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Commits on Feb 16, 2022

• Improve support for num_recycle=0.

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  mfigurnov

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Commits on Feb 14, 2022

• Add split_rng=False (current default) to sharded_map.

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  tomhennigan

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Commits on Feb 8, 2022

• Remove unused code.

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  Augustin-Zidek

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Commits on Jan 31, 2022

• Add a note about the AlphaFold output directory.

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  Augustin-Zidek

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Commits on Jan 28, 2022

• Explain what to do if downloading PDB mmCIF files is too slow.

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  Augustin-Zidek

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Commits on Jan 27, 2022

• Release code for v2.1.2

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  Augustin-Zidek

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Commits on Jan 19, 2022

• Update .dockerignore

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  tfgg

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• Update license of AlphaFold parameters.

  Augustin-Zidek

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Commits on Nov 5, 2021

• Explain better how to run the AlphaFold-Multimer system.

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  Augustin-Zidek

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• Fix PAE visualization for single chain predictions.

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  rich12321

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Commits on Nov 4, 2021

• Change fasta description used in data pipeline to be chain_<chain number>.

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  andycowie

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Commits on Nov 2, 2021

• Add code for AlphaFold-Multimer.

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  Augustin-Zidek

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Commits on Sep 10, 2021

• Accept any ordering given by ListDir in the assert.

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  Augustin-Zidek

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• Skip obsolete PDB templates that don't have a replacement.

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  Augustin-Zidek

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Commits on Aug 31, 2021

• Ensure values passed to jax.numpy functions are arrays rather than lists.

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  Jake VanderPlas

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• Update the bibtex citation with the issue number and pages

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  mfigurnov

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Commits on Aug 25, 2021

• Fix TensorFlow versions in AlphaFold Colab notebook.

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  DeepMind

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Commits on Aug 13, 2021

• Use tensorflow-cpu in setup.py as well.

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  Augustin-Zidek

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• Use pLDDT in the B-factor column of the output PDBs.

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  Augustin-Zidek

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• Set versions of libraries AlphaFold Colab notebook depends on.

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  Augustin-Zidek

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Commits on Aug 12, 2021

• Remove a redundant space.

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  Augustin-Zidek

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