migration from Travis CI to GitHub Actions #51
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update GitHub cache action (v2 -> v3) https://github.com/marketplace/actions/cache in connection with deprecation of the save-state command ( https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/ )
restore update of MAFFT to v7.508; pin muscle to 3.8.1551 to match fixed version pinning of muscle currently in viral-assemble
…LTS (bionic) to Ubuntu 22.04 LTS (jammy)
emit debugging info in test action; the tests are passing when invoked locally with the same docker image and command specified in the action, so this outputs info to help distinguish differences in environment
…n docker container .coverage report
set coverage.py path aliases; see: https://coverage.readthedocs.io/en/latest/config.html#config-paths
remove coveralls repo token from .coveralls.yml and place a new token in the GitHub Actions repository secrets section (alongside Quay auth info).
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WIP; this PR is currently open so GitHub Actions are triggered upon commit to the branch. PR description subject to change.