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 https://github.com/nextstrain/augur/issues/1475 has pushed for doing it ourselves.
I think it'd be simple to implement some variation of the config option suggested by @jameshadfield in https://github.com/nextstrain/augur/issues/1475, but it can also be left as a future TODO.
Context
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
renamecommand and just usecsvtk rename, but discussion in https://github.com/nextstrain/augur/issues/1475 has pushed for doing it ourselves.Description
augur curate renamecan 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 https://github.com/nextstrain/augur/issues/1475, but it can also be left as a future TODO.