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Inline root sequence #20

Merged
merged 1 commit into from
Apr 27, 2024
Merged

Inline root sequence #20

merged 1 commit into from
Apr 27, 2024

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jameshadfield
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The sequence size is small relative to the typical dataset size and for a full run reduces the number of output auspice files from 96 to 48.

@lmoncla I'm not sure if you have downstream scripts which rely on *_root-sequence.json?

The sequence size is small relative to the typical dataset size and for
a full run reduces the number of output auspice files from 96 to 48.
@lmoncla
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lmoncla commented Apr 26, 2024

@jameshadfield I never use the root sequence json!

@trvrb
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trvrb commented Apr 27, 2024

Oh, wow. I missed the addition of --include-root-sequence-inline. Seems like we should be using this option for basically everything except mpox and bacteria.

@trvrb trvrb merged commit 529e304 into master Apr 27, 2024
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@trvrb trvrb deleted the james/inline-root-sequence branch April 27, 2024 23:42
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3 participants