Export TSV: Incorporate alignment#173

Merged

singjc merged 33 commits intoPyProphet:masterfrom

Nov 27, 2025

Commits on Oct 24, 2025

Initial plan
Copilot
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Initial exploration of alignment integration requirement

Copilot
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singjc
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Add alignment integration to export functionality

Copilot
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singjc
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Enhance alignment export to include SCORE_ALIGNMENT data and improve parquet handling

Copilot
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singjc
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Change use_alignment default to True with auto-detection of alignment data

Copilot
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singjc
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Add alignment integration to split_parquet reader

Copilot
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singjc
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Add workflow diagram documentation for alignment integration

Copilot
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singjc
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Commits on Oct 30, 2025

Commits on Nov 1, 2025

Refactor OSWReader and OSWWriter to enhance peptide mapping and alignment handling; improve precision for ID columns and streamline SQL queries.
singjc
committed

Commits on Nov 2, 2025

Add support for IM boundaries in OSWWriter: include EXP_IM_LEFTWIDTH and EXP_IM_RIGHTWIDTH columns
singjc
committed

Commits on Nov 3, 2025

fix(tests): fix bug with restructuring of ipf score to precursor mapping and IM boundaries
singjc
committed

Commits on Nov 16, 2025

refactor(parquet): improve alignment group ID assignment and update score column references
singjc
committed

Commits on Nov 18, 2025