testing + overall architecture refactors#2

Merged

odcambc merged 26 commits into

May 24, 2026

Commits on May 21, 2026

Extract DIMPLE class + addgene into DIMPLE/core.py

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Complete DIMPLE.py module migration

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Fix DIS sequences not being registered causing runs to crash
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Introduce the oligo Pool object (Pool migration, Phase 1)

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Rename OLS -> pool for vendor neutrality

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Flip qc + fragment_layout config reads to pool.config (Pool Phase 2)

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Flip orchestrator + primers + oligo_assembly to pool.config (Pool Phase 2)

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Flip core.py __init__ + breaksites to pool.config (Pool Phase 2 done)

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Convert addgene-caller tests to explicit config (Pool Phase 3)

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Convert DIS test + runners to explicit config (Pool Phase 3)

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Delete config scaffolding: DIMPLE class is now a pure gene object (Pool Phase 3)

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Fix stale PRIMER_BUFFER_BASE comment (Pool Phase 3)

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Commits on May 22, 2026

Commits on May 23, 2026

attributes not sent to runners
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