Allow AssemblePairs-reference to use gapped references
Issue #46
resolved
Should be able to ungap the reference sequences, build the usearch or blastn database, and then pass the database into the alignment tool, instead of requiring users to maintain a set of both a gapped and ungapped references.
Comments (2)
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reporter -
reporter - changed status to resolved
Done in 7cf3180 via reference file preprocessing step added to
presto.Applications.makeUBlastDb
andpresto.Applications.makeBlastnDb
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Modifications to rebuild database are done. Just need to ungap sequence upon load, test what usearch and makeblastdb do with gapped references, and pass the build through an ungapped temp file, if required.