Make bam_parse_cigar able to modify existing BAM records rather than partially parsed ones.

samtools / htslib

C library for high-throughput sequencing data formats

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Make bam_parse_cigar able to modify existing BAM records rather than partially parsed ones. #1651

Closed jkbonfield closed 11 months ago

jkbonfield commented 11 months ago

It makes little sense for this to exist as a public API when it's only capable of handling the internal during-SAM-parse situation, and the changes are relatively minor.

Also removes an undocumented assumption that end == &in, and fixes cut and paste errors in bam_aux2f API docs.

Fixes #1650