linelist v2.0.0

We are very excited to announce the release of a new linelist version v2.0.0. Here is an automatically generated summary of the changes in this version.

Breaking changes

• The linelist package is now dependent on R 4.1.0, in line with Epiverse-TRACE policy regarding minimum R version dependency (#159, @Bisaloo).

• Deprecated functions and arguments have been completely removed. The following operations are no longer possible:

  • List of tags now needs to be spliced in make_linelist():

    my_tags <- list(
      id = "case_ID",
      date_onset = "date_of_prodrome",
      age = "age",
      gender = "gender"
    )
    
    # No longer possible
    make_linelist(obj, my_tags)
    
    # Instead slice list in dynamic dots
    make_linelist(obj, !!!my_tags)

  • select_tags():

    # No longer possible
    x %>%
      select_tags("age")
    
    # Instead use
    x %>%
      select(has_tag("age")) %>%
      tags_df()

  • select.linelist(). This change should be invisible to users since the parent method select.data.frame() will be used with the same effect.

  • lost_tags_action() as part of a pipeline is no longer possible:

    # No longer possible
    make_linelist(cars, date_onset = "dist", date_outcome = "speed") |>
      lost_tags_action("none") |>
      dplyr::select(-dist)
    
    # Instead do
    lost_tags_action("none")
    make_linelist(cars, date_onset = "dist", date_outcome = "speed") |>
      dplyr::select(-dist)

Acknowledgements

@Bisaloo @chartgerink @Karim-Mane