NEWS

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diseasystore 0.2.2.9000

New Features:

• New age helpers add_years() and age_on_date() has been added to help compute features for individual data (#125).

• Added the fields $available_observables and $available_features for easier overview (#139).

• The data availability period for each diseasystore is now exposed via the $min_start_date and $max_end_date fields (#138).

• diseasystores can now have variable backend support (#175). In case a backend is insufficient to support the computations, the backend can be blocked for the diseasystore. test_diseasystore() now have a skip_backend argument to skip tests for the disallowed backends.

• Additional arguments (...) can now be passed to the compute() and get() functions in FeatureHandlers. Furthermore, a reference to the diseasystore is now passed to compute() to give the Featurehandler access to other features via ds$get_feature() (#162).

Minor Improvements and Fixes:

• Two bugs were fixed in $determine_new_ranges() where existing tables were not detected:

  • On backends that use "catalog" to structure table (DuckDB and SQL Server) (fix also requires SCDB > v0.4) (#158).
  • Due to slice_ts not being correctly matched with existing data on some backends (#172).

• Long stratification expression are now properly parsed in $key_join_features() (#161).

Testing:

• test_diseasystore() now also checks that the FeatureHandlers return data directly:
  • Checks that data is only within the study period (#154).
  • Checks that valid_from and valid_until has class Date (#154).
  • Checks that the valid_from and valid_until columns are chronologically ordered (#176).

Documentation:

• An example has been added for building a diseasystore with individual level data (#162). See vignette("extending-diseasystore-example").

• Added benchmarking vignette vignette("benchmarks") (#144).

Minor Improvements and Fixes:

• diseasyoption() can now be called without the option argument to return all diseasy/diseasytsore options (#159).

  In addition, a new namespace argument can restrict the option look-up to a specific package (e.g. diseasystore).

diseasystore 0.2.2 (2024-07-15)

Minor Improvements and Fixes:

• The %.% operator is made more flexible to function as a drop-in replacement for $ (#145).

diseasystore 0.2.1 (2024-04-22)

• Support for {SCDB} v0.3 is removed.

diseasystore 0.2.0 (2024-03-20)

New Features:

• DiseasystoreEcdcRespiratoryViruses: A feature store that uses the ECDC Respiratory viruses weekly repository (#124).

• With the release of {SCDB} v0.4, we now support more database backends:

  • SQLite with attached schemas (#121).

  • Microsoft SQL Server (#128).

  • PostgreSQL (#128).

  • DuckDB (#127).

• test_diseasystore() is added to provide a standardised method for testing new diseasystores (#123).

Minor Improvements and Fixes:

• diseasyoption() now allows a default option to be set with the .default argument (#122).

diseasystore 0.1.1 (2024-01-18)

Fixes:

• Improved the stability of internal functions.

• Adapted to release of SCDB v0.3.

Documentation:

• Improved documentation of functions.

Testing:

• Improved test stability when internet is unavailable.

• Reduced the data footprint during tests.

diseasystore 0.1 (2023-12-20)

Features:

• DiseasystoreBase: A base class for the diseasystores.

  • R6 class that defines the interface for the diseasystores.

• DiseasystoreGoogleCovid19: A feature store that uses the Google COVID-19 Open Data repository.

  • R6 class that builds on the base class to provide interface to the Google COVID-19 data.

• FeatureHandler: A simple class to handle individual feature computations.

  • Defines the interface for each individual feature in the diseasystores.

• Aggregators: A set of aggregators for the FeatureHandler to use.

• drop_diseasystore(): A function to remove data from a feature store.

• Added a informative operator to access data %.%.

  • Gives error instead of NULL if element does not exist.

• age_labels(): A function to generate human-readable and sortable age groupings.

Testing:

• Most package functions are tested here.

Documentation:

• The functions are fully documented.

• Vignettes for the use of the package is included.

  • vignette("quick-start")
  • vignette("extending-diseasystore")

• Vignette for the Google COVID-19 data is included.

  • vignette("diseasystore-google-covid-19")