1.0.2 - Clair3 VCF parsing fix

This patch release fixes an issue with not capturing an EmptyDataError when reading VCF files and an issue where Clair3
VCFs from non nf-flu analyses are prematurely converted to a dict from a Pandas DataFrame.

Other Changes

• dev: Update type hints given mypy and ruff linting
• fix: check BAM files for reference sequence ID/name in addition to Mosdepth files. Improved searching for the reference sequence GFF and FASTA in the input directory before trying to fetch from NCBI.

What's Changed

• fix: Clair3 VCF parsing by @peterk87 in #57

Full Changelog: 1.0.1...1.0.2