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Save results of pickle file into local db, e.g. use SQLite #15

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icaoberg opened this issue Jan 20, 2022 · 1 comment
Open

Save results of pickle file into local db, e.g. use SQLite #15

icaoberg opened this issue Jan 20, 2022 · 1 comment
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@zzzz-vincent

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@icaoberg
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https://github.com/hubmapconsortium/cfde-bdbag/blob/2983e76e6b33c5a7e46c9ebed0a5265698b0ddb3/hubmapbags/magic.py#L113

  • Save entries of pickle into a local db
  • Add extra column to db called uuid
  • Do not overwrite entries if entries already exist
  • Backup database daily, that is, e.g. today it looks for 20210123.sql, if it doesn't exist, it copies/creates it.
@icaoberg
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From README.md

  1. Call hubmapbags.magic.store (see ticket 19) on every pickle file from step 2. This will save the entries in the dataframe to a local SQL db. But the trick is that we will add +1 columns to the db. The extra column should be named UUID.

@icaoberg icaoberg transferred this issue from another repository May 24, 2022
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