├── .github └── workflows │ ├── deploy-docs.yml │ ├── publish-to-pypi.yml │ └── test.yml ├── .gitignore ├── .gitmodules ├── CITATION.cff ├── LICENCE.txt ├── README.md ├── bin └── kingfisher ├── docker ├── Dockerfile.in └── build.sh ├── docs ├── README.md ├── _include │ ├── .nojekyll │ └── kingfisher.png └── usage │ ├── README.md │ ├── annotate.md │ ├── extract.md │ └── get.md ├── doctave.yml ├── images └── kingfisher_logo.png ├── kingfisher.yml ├── kingfisher ├── __init__.py ├── data │ └── asperaweb_id_dsa.openssh ├── ena.py ├── exception.py ├── location.py ├── md5sum.py ├── sra_metadata.py └── version.py ├── release.py ├── setup.py └── test ├── data ├── 2_accessions.annotate.csv ├── 2_accessions.annotate.pq └── SRR12118866.sra ├── paid_tests ├── test_annotate.py ├── test_ena.py └── test_get_sra_and_aws.py /.github/workflows/deploy-docs.yml: -------------------------------------------------------------------------------- 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