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Support arbitrary fields for the acknowledgements download #1871

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joverlee521 opened this issue Oct 18, 2024 · 1 comment
Open

Support arbitrary fields for the acknowledgements download #1871

joverlee521 opened this issue Oct 18, 2024 · 1 comment
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enhancement New feature or request

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@joverlee521
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Context

Original context in Slack thread.

Summary of the thread is we want to include segment accession in the acknowledgments table instead of the gisaid_epi_isl in the seasonal flu builds. This is currently not possible because the fields for the acknowledgments table is hard-coded in Auspice:

const traitsToExport = ["gisaid_epi_isl", "genbank_accession", "originating_lab", "submitting_lab"];

@joverlee521 joverlee521 added the enhancement New feature or request label Oct 18, 2024
@jameshadfield
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From that slack thread there were two proposed solutions:

  • add a field to the (dataset) JSON which defines what fields we want to export. Within workflows this would be defined in the auspice-config JSON and passed through augur export
  • make auspice interpret accession_{X} as an accession, and thus export it

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