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merge: Support sequences with cross-checking #1601

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merge: Support sequences with cross-checking #1601

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Commits on Oct 2, 2024

  1. Use global print_info 

    Preparing for use across functions.
    @victorlin
    victorlin committed Oct 2, 2024
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  2. Use global database 

    Preparing for use across functions.
    @victorlin
    victorlin committed Oct 2, 2024
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  3. Use global augur variable 

    Preparing for use across functions.
    @victorlin
    victorlin committed Oct 2, 2024
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  4. 🚧 Validate --metadata arguments in a separate function 

    Preparing for use with sequences.
    @victorlin
    victorlin committed Oct 2, 2024
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  5. Use NamedFile class 

    Preparing for NamedSequences
    @victorlin
    victorlin committed Oct 2, 2024
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  6. 🚧 Split run() into separate functions, add types 

    Sequence support requires the ability to load metadata into the database
without actually merging (if --output-metadata is not specified).
    @victorlin
    victorlin committed Oct 2, 2024
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  7. Make metadata options optional 

    Preparing for sequence support.
    @victorlin
    victorlin committed Oct 2, 2024
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  8. 🚧 add sequence support

    @victorlin
    victorlin committed Oct 2, 2024
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  9. 🚧 add sequence support

    @victorlin
    victorlin committed Oct 2, 2024
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  10. 🚧 add sequence support

    @victorlin
    victorlin committed Oct 2, 2024
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