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fix(bam): prevent duplicate reads from indexed CRAM queries - #178

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NicoDeVeaux wants to merge 5 commits into
ndv/fix-pr118-unmapped-sweepfrom
ndv/fix-pr118-cram-multiref-fetch
Draft

fix(bam): prevent duplicate reads from indexed CRAM queries#178
NicoDeVeaux wants to merge 5 commits into
ndv/fix-pr118-unmapped-sweepfrom
ndv/fix-pr118-cram-multiref-fetch

chore(bam): merge current CI fixes from unmapped sweep base

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