opencb / biodata

Java library that models biological entities and their equivalents in different file formats typically used in bioinformatics
Apache License 2.0
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spanning deletion normalization error #249

Closed awab-ahmed closed 9 months ago

awab-ahmed commented 10 months ago

Spanning deletion variants cause an error when passed in with a batch of variants to the normalize method with decompose=true e.g 1:100:GCCC:*:

Error when creating DNASequence objects for GCCC and * prior to pairwise sequence alignment

This here is fixed by checking spanning deletions and not normalizing them