Robust on-disk artifacts: atomic `.gvlfa` cache + dataset creation/validation (closes #21)#206

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worktree-robust-fasta-cache

Jun 4, 2026

Commits on Jun 2, 2026

feat(_fasta_cache): add FastaCache models and fingerprint

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feat(_fasta_cache): add source hints and three-way resolution
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feat(_fasta_cache): add build, load, and validity guards

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refactor(_fasta_cache): fix progress bar advance and tighten load status type

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feat(_fasta_cache): migrate legacy .gvl caches by reusing bytes
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feat(_fasta_cache): add ensure_cache orchestrator and dispatch

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fix(_fasta_cache): raise on format-too-new sibling cache instead of silent downgrade
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feat(fasta): use .gvlfa cache module and accept .gvlfa input

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test(fasta): cover in-memory no-cache _read_all_from_fasta path
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refactor(reference): build cache via ensure_cache, accept .gvlfa

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docs(skill): note Reference.from_path .gvlfa support
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fix(_fasta_cache): guard legacy migration against stale/truncated bytes

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chore(pre-commit): auto fixes from pre-commit.com hooks
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Commits on Jun 4, 2026