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Add ingest#10

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kimandrews merged 17 commits intomainnextstrain/measles:mainfrom add-ingestnextstrain/measles:add-ingestCopy head branch name to clipboardFeb 14, 2024

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Commits on Feb 10, 2024

• Copy ingest from pathogen-repo-template

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• git subrepo clone (merge) https://github.com/nextstrain/ingest ingest/vendored

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• Add ingest config parameters

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• Remove Entrez rules and config parameters

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• Remove nextclade-related rules

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• Remove ingest/profiles

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• Add abbr_authors to metadata_columns

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• Fix typo in ingest/rules/curate.smk

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• Add NCBI Datasets "virus-name" field

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• Remove nextclade_field_map.tsv

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• Don't replace empty strain names

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• Renamed "config" directory to "defaults"

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• ingest/README.md: remove Profiles, change config to defaults

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• Remove nextclade from Snakefile

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• Remove Entrez from docstring of fetch_from_ncbi.smk

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Commits on Feb 14, 2024

• git subrepo pull (merge) --force ingest/vendored

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• Update Changelog

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