count_positions added

Added a counter for covered positions (whole BAM for now).

Abi3 wheels for pypi

Functionally identical to 0.5.0,
just getting maturin to build abi3 wheels & sdist.

v0.5.0

• helper functions to turn subread bams into something deterministic

Rename_and_filter for bams

This release introduces filter_bam_and_rename_references
and the corresponding job_filter_and_rename.

It also updates most of the dependencies to current versions.

v0.3

Allow extend_reads on coverage calculations.