Merge the dev branch #19
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- Updates to GitHub Actions workflows - Updates to the project TOML file
- Pass the input reference correctly to long-read alignment in the hybrid pipeline
Use `exec` instead of the shell to run commands
Update GA workflows to work on aarch64 machines
Updates to vcf_mod.py to fix the RPA annotation
- Change the igzip log level to info
- Reduce the bwa `-K` size
Fix typos
Update `trimalt.py`
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Merge the dev branch with the new pangenome pipeline implementation.