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augur curate rename #1484

Closed
Tracked by #43
joverlee521 opened this issue Jun 24, 2024 · 0 comments · Fixed by #1506
Closed
Tracked by #43

augur curate rename #1484

joverlee521 opened this issue Jun 24, 2024 · 0 comments · Fixed by #1506
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@joverlee521
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A common task in metadata wrangling is renaming the columns to match expectations. This will be especially important for the forthcoming augur join/merge command that would expect input metadata to share the same column names.

I originally thought we could avoid creating our own rename command and just use csvtk rename, but discussion in #1475 has pushed for doing it ourselves.

Description

augur curate rename can start from transform-field-names from ingest.

I think it'd be simple to implement some variation of the config option suggested by @jameshadfield in #1475, but it can also be left as a future TODO.

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