Dev

[TCLamnidis]

This one will still be a dev release, so won't change all script versions yet.

When a new release is made for minotaur, the following steps should be taken:

• Update the CHANGELOG.md to include a description of all changes.
• Add Release date and bump version number to CHANGELOG.md
• Update the version number in the following files:
  • scripts/download_and_localise_package_files.sh
  • scripts/create_eager_input.sh
  • scripts/minotaur_packager.sh
  • scripts/validate_downloaded_data.sh
  • scripts/run_eager.sh
  • scripts/populate_janno.py
  • scripts/download_ena_data.py
• Create new release, release tag, and name.

After the release:

• Update the poseidon-eager release tag used in the minotaur-recipes repo.

[TCLamnidis]

• Removed various scripts that have moved to the minotaur-recipes repo.
• scripts/download_ena_data.py can now download PE data
• scripts/minotaur_packager.sh:
  • Add option to force package recreation (but not publishing)
  • Add SSF to packages, and versions in README instead of txt file.
• scripts/populate_janno.py:
  • Add endogenous, captureType, udg, library_built, accessions, pipeline URL, and Genotype ploidy.
• scripts/run_eager.sh & scripts/download_and_localise_package_files.sh: Swap to variable for local paths to minotaur resources (more portable).
• Deactivated GA for validation that now moved to other repo.
• Updated PR template