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Commits on Aug 7, 2021

• Merge pull request #24 from songlab-cal/new-s3-bucket

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  thomas-a-neil

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Commits on Aug 2, 2021

• Update data and model paths to new s3 bucket

  thomas-a-neil

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Commits on Dec 9, 2019

• Update README.md

  rmrao

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Commits on Nov 15, 2019

• Merge pull request #15 from mlgill/fix_output_folder

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  thomas-a-neil

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• Update vocabs.py

  rmrao

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Commits on Oct 30, 2019

• Fix output directory

  mlgill

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Commits on Sep 20, 2019

• Merge pull request #13 from tijyojwad/fix-download-script

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  rmrao

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Commits on Sep 19, 2019

• [data] update download data script

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  tijyojwad

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Commits on Sep 12, 2019

• cast datapath to str before running run_embed.py

  rmrao

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Commits on Aug 24, 2019

• Fix improper weight loading in tape-embed

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  rmrao

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• add requirements.txt

  rmrao

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• Merge branch 'master' of https://github.com/songlab-cal/tape

  rmrao

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• move the big file check to the top

  rmrao

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Commits on Aug 7, 2019

• Add NetSurfP2.0 to citation guidelines

  nickbhat

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Commits on Aug 2, 2019

• Remove filtering from getting test data for language modeling task

  thomas-a-neil

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• Separate clan and family holdout sets when serializing pfam

  thomas-a-neil

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Commits on Jul 31, 2019

• Serializer should create .tfrecord

  thomas-a-neil

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Commits on Jul 29, 2019

• Fix bug where language models were not saving every epoch

  thomas-a-neil

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Commits on Jul 26, 2019

• Fix batch size typo in transformer

  thomas-a-neil

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Commits on Jul 23, 2019

• Load weights by name

  thomas-a-neil

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Commits on Jul 20, 2019

• Merge pull request #5 from songlab-cal/fasta-embedding-tool

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  thomas-a-neil

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• Update README

  thomas-a-neil

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• JK You have to pad batches of sequences lol

  thomas-a-neil

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• Add batch size argument

  thomas-a-neil

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• Add flag for running forward pass through existing task dataset

  thomas-a-neil

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• Actually serialize the whole kitten caboodle

  thomas-a-neil

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• Batch input tfrecord data together

  thomas-a-neil

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• Add extra dimension to input sequence

  thomas-a-neil

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• Dump embeddings to pickle

  thomas-a-neil

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• Initialize tf variables

  thomas-a-neil

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Commits on Jul 18, 2019

• Rename sequence to primary for consistency

  thomas-a-neil

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• Load after passing through placeholder

  thomas-a-neil

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• Remove special TAPE task for sequence embeddings

  thomas-a-neil

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Commits on Jul 17, 2019

• Get rid of placeholder values

  thomas-a-neil

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• Make fasta -> tfrecord an entry point

  thomas-a-neil

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