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Strict type-checking + tests for foundry.utils (instantiators, ddp, logging); remove dead rf3.data.paired_msa#322

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Strict type-checking + tests for foundry.utils (instantiators, ddp, logging); remove dead rf3.data.paired_msa#322
lyskov-ai wants to merge 3 commits into
RosettaCommons:productionfrom
lyskov-ai:0041-remove-rf3-paired-msa

chore(rf3): remove dead-and-broken rf3.data.paired_msa module

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pytest (shared + CPU model tests)
succeeded Jun 16, 2026 in 2m 30s