GetFasta should use the FastaWriter in GATK

magicDGS / thaplv

Tools for Haploid/Haplotype VCFs

BSD 3-Clause "New" or "Revised" License

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GetFasta should use the FastaWriter in GATK #55

Open magicDGS opened 7 years ago

magicDGS commented 7 years ago

Currently there is a GATK FastaWriter that looks quite nice for writing a FASTA sequence. It can create indexes on the fly, which is also quite nice. In addition, it may help in the efficiency of the GetFasta code. We should definitely give it a try.