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ESM2 Finetuning refactor#574

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pstjohn merged 30 commits intomainNVIDIA/bionemo-framework:mainfrom farhadr/ft_refactorNVIDIA/bionemo-framework:farhadr/ft_refactorCopy head branch name to clipboardJan 15, 2025

+2,493-951

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Commits on Jan 6, 2025

• refactor datasets

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• refactor datasets

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• add finetune script

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• fix typing

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• simplify, use 650m

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• Merge branch 'main' into farhadr/ft_refactor

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Commits on Jan 8, 2025

• executable finetune_esm2

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Commits on Jan 9, 2025

• typing

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• resolve conflicts

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• add finetune notebook

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• move test

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• deprecate old example

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• update tests

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• add unit tests

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• update brev.dev link

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• Merge branch 'main' into farhadr/ft_refactor

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Commits on Jan 13, 2025

• move dataset classes

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• Merge branch 'farhadr/ft_refactor' of https://github.com/NVIDIA/bionemo-framework into farhadr/ft_refactor

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• updated

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• Merge branch 'main' into farhadr/ft_refactor

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Commits on Jan 14, 2025

• rm douplicate dataset

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• update

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• test args

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• Merge branch 'main' into farhadr/ft_refactor

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• fix arg type

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• Merge branch 'farhadr/ft_refactor' of https://github.com/NVIDIA/bionemo-framework into farhadr/ft_refactor

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• fix docstr

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• add from_csv classmethod

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• Merge branch 'main' into farhadr/ft_refactor

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Commits on Jan 15, 2025

• Merge branch 'main' into farhadr/ft_refactor

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