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Changelog

Source: NEWS.md

ieugwasr 1.2.0

  • associations() now returns the processed tibble. Previously its ... %>% return() inside a pipe did not return from the function (since magrittr 2.0), so the raw server data frame was returned instead, with n as character.
  • Remove the flipping of beta for ukb-e datasets in associations(), tophits() and phewas(). The flip was never applied in associations() (see above), and the OpenGWAS server is the right place to correct these datasets.
  • Replace %>% return() with explicit return() calls throughout.
  • Update some GitHub Actions workflows, including no longer testing on R before R 4.1 due to the new testthat requirements
  • Tweak an API test
  • Bump version of roxygen2
  • Fix a typo in the documentation for ld_clump()
  • Bump minimum required version of R to 4.1
  • Update some URLs in the package
  • Fix some typos in the docs
  • Forward ... to api_query() in variants_chrpos()
  • Prevent divide-by-zero chunking in associations()
  • Handle NULL opengwas_jwt in api_query()
  • Close connection in afl2_list() hapmap3 branch
  • Harden fill_n() against empty or multi-row gwasinfo() results
  • Use getOption() instead of copying the full options list
  • Remove dead shadowing assignment in associations()
  • Use seq_along()/seq_len() instead of 1:length() loop bounds
  • Align ld_clump_api() defaults with its documentation
  • Make get_query_content() error path robust to non-JSON bodies
  • Fix empty-result check in tophits() (closes #76)
  • Supply origin to as.POSIXct() in allowance reset handling (closes #103)
  • Remove utils from Suggests, since it’s a Base package

ieugwasr 1.1.0

CRAN release: 2025-07-31

  • Improved error handling
  • Managing new API limits on associations endpoint
  • Updated header info passed to API

ieugwasr 1.0.4

CRAN release: 2025-06-18

ieugwasr 1.0.3

CRAN release: 2025-03-20

  • Add gwasinfo_files() function to return for each dataset specified the download URL for each file (.vcf.gz, .vcf.gz.tbi, _report.html) associated with the dataset. The URLs will expire in 2 hours.

ieugwasr 1.0.2

  • Bump roxygen2 version
  • Update OpenGWAS API URL

ieugwasr 1.0.1

CRAN release: 2024-07-01

  • Checking for allowance depletion, and erroring until the allowance is reset
  • Import the magrittr pipe (thanks @Bhashitha2014)

ieugwasr 1.0.0

CRAN release: 2024-04-22

  • Introducing JWT authorisation for the API
  • Phasing out Google Oauth2 authorisation
  • Added user() function to get user information
  • Fixing issue with anonymous functions and backwards compatibility
  • Bug in tophits when result is empty
  • Removing version check at startup
  • Bug in querying when errors returned
  • Removing unnecessary dependencies and vignettes

ieugwasr 0.2.2

CRAN release: 2024-03-28

ieugwasr 0.2.1

  • Updating API server address temporarily
  • Modifying tests to manage API server load
  • Fixes to load/attach behaviour

ieugwasr 0.2.0

CRAN release: 2024-03-25

ieugwasr 0.1.7

ieugwasr 0.1.6

  • Adding messaging about package version

  • Adding messaging about OpenGWAS # ieugwasr 0.1.5

  • Added options to perform LD functions on different super-populations

  • Catching 503 error codes and retrying up to 5 times. This should help avoid fails when the server is busy.

ieugwasr 0.1.4

  • Bug fixes in clumping. Thanks to bethleegy for pointing this out

ieugwasr 0.1.3

  • Bug fixes in clumping

ieugwasr 0.1.2

  • Updated API address

ieugwasr 0.1.1

  • Fixed bug in ld_clump - wasn’t doing all traits

ieugwasr 0.1.0

  • First release in conjunction with API

ieugwasr 0.0.0.9000

  • Added a NEWS.md file to track changes to the package.