Code

Migrate to Nextclade v3#281

Code

Merged

joverlee521 merged 8 commits intomasternextstrain/mpox:masterfrom ingest-nextclade-v3nextstrain/mpox:ingest-nextclade-v3Copy head branch name to clipboardOct 30, 2024

+110-79

Commits

Commits on Oct 18, 2024

• ingest: Update to nextclade3

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• ingest: move Nextclade dataset to data/ and outputs to results/

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• ingest: Rename Nextclade metadata fields with augur curate rename

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Commits on Oct 19, 2024

• ingest: Merge Nextclade metadata with augur merge

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• ingest/nextstrain_automation: Update files_to_upload

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• phylogenetic: Update description.md for Nextclade v3

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Commits on Oct 22, 2024

• ingest/nextclade: Add log and benchmark

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• ingest/nextclade: Use all available workflow cores

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