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Changelog

Source: NEWS.md

gDRimport 1.11.6 - 2026-08-17

  • remove alignment whitespace flagged by the gDRstyle linter
  • document internal helper functions with @keywords internal

gDRimport 1.11.5 - 2026-08-11

  • add load_long_table to read and validate tidy long-table input from CSV/TSV

gDRimport 1.11.4 - 2026-06-16

  • resolve missing barcode in EnVision files by reading from Background section

gDRimport 1.11.3 - 2026-05-27

  • apply updated gDRstyle rules

gDRimport 1.11.2 - 2026-05-04

  • replace hardcoded Duration values with NA_real_ in PRISM and PSet importers

gDRimport 1.11.1 - 2026-04-29

  • synchronize Bioconductor and GitHub versioning

gDRimport 1.9.11 - 2026-04-23

  • add support for generation of day0 template for tdd files

gDRimport 1.9.10 - 2026-04-13

  • migrate from qs to qs2 package (qs::qread → qs2::qs_read, qs::qsave → qs2::qs_save)
  • update test data and reference file extensions from .qs to .qs2

gDRimport 1.9.9 - 2026-04-07

  • add support for excel format of new envision data

gDRimport 1.9.8 - 2026-02-25

  • add support for multi-plate new envision format

gDRimport 1.9.7 - 2026-02-16

  • fix stack imbalance warnings during byte-compilation

gDRimport 1.9.6 - 2025-12-27

  • extend support for csv EnVision format

gDRimport 1.9.5 - 2025-12-17

  • add support broad_id in PRISM data
  • add suport for combo data in private prism data

gDRimport 1.9.4 - 2025-12-10

  • make barcode detection more robust (Incucyte)

gDRimport 1.9.3 - 2025-11-26

  • add support for Incucyte data

gDRimport 1.9.2 - 2025-11-17

  • add support for new EnVision format

gDRimport 1.9.1 - 2025-10-30

  • synchronize Bioconductor and GitHub versioning

gDRimport 1.7.5 - 2025-08-12

  • fix usage of ifelse

gDRimport 1.7.4 - 2025-07-17

  • remove run suffix in the PRISM data

gDRimport 1.7.3 - 2025-07-10

  • add support for new format of private PRISM data

gDRimport 1.7.2 - 2025-05-15

  • add support for depmap public PRISM data

gDRimport 1.7.1 - 2025-04-16

  • synchronize Bioconductor and GitHub versioning

gDRimport 1.5.11 - 2025-04-10

  • replace with_mock with with_mocked_bindings

gDRimport 1.5.10 - 2025-03-26

  • unify support for using OncotreeLineage for PRISM level 5 and level 6

gDRimport 1.5.9 - 2025-03-12

  • add support for using OncotreeLineage as a tissue annotation if available in PRISM data

gDRimport 1.5.8 - 2025-02-18

  • update extracting Tissue information for cell lines in PRISM data

gDRimport 1.5.7 - 2025-02-07

  • extract Tissue information for cell lines in PRISM data

gDRimport 1.5.6 - 2025-02-04

  • update error messages, to make them less confusing

gDRimport 1.5.5 - 2025-01-11

  • take into account run in public PRISM data

gDRimport 1.5.4 - 2024-12-09

  • support Duration in old private PRISM data format

gDRimport 1.5.3 - 2024-12-04

  • support old private PRISM data format

gDRimport 1.5.2 - 2024-11-06

  • fix invalid moa for PRISM data

gDRimport 1.5.1 - 2024-11-05

  • synchronize Bioconductor and GitHub versioning

gDRimport 1.3.5 - 2024-10-22

  • fix test for load_files

gDRimport 1.3.4 - 2024-08-29

  • fix failing github page

gDRimport 1.3.3 - 2024-08-12

  • update function for importing public PRISM data

gDRimport 1.3.2 - 2024-07-03

  • fix a bug with incorrect recognition of input file types

gDRimport 1.3.1 - 2024-05-27

  • synchronize Bioconductor and GitHub versioning

gDRimport 1.1.11 - 2024-05-21

  • move functions for importing PRISM data

gDRimport 1.1.10 - 2024-05-08

  • fix typo

gDRimport 1.1.9 - 2024-04-08

  • change output of get_exception_data to data.table

gDRimport 1.1.8 - 2024-03-26

  • fix issue with reading tsv files

gDRimport 1.1.7 - 2024-03-07

  • clean up the package

gDRimport 1.1.6 - 2024-02-26

  • improve pkgdown site
    • improved references
    • valid NEWS.md

gDRimport 1.1.5 - 2024-02-14

  • make documentation compatible with pkdgdown

gDRimport 1.1.4 - 2024-01-22

  • add new description fields

gDRimport 1.1.3 - 2023-12-19

  • update package vignette

gDRimport 1.1.2 - 2023-12-01

  • update validation function used during data submission

gDRimport 1.1.1 - 2023-11-22

  • sync main with devel branch
  • add “Treatment” as template identifier

gDRimport 1.1.0 - 2023-10-24

  • release Bioc 3.18

gDRimport 1.0.0 - 2023-10-24

  • prepare prerelease for Bioc 3.18

gDRimport 0.99.25 - 2023-10-17

  • adjust NEWS to Bioc format

gDRimport 0.99.24 - 2023-10-02

  • add functions & unit tests for converting gDR MAE to PSet

gDRimport 0.99.23 - 2023-09-22

  • correct plate size calculation

gDRimport 0.99.22 - 2023-09-20

  • set barcode as character in the manifest file

gDRimport 0.99.21 - 2023-09-14

  • disable support for ‘xls’ file format due to crashes

gDRimport 0.99.20 - 2023-08-25

  • refactor subsetting of data.table using colname

gDRimport 0.99.19 - 2023-07-19

  • update warning messages

gDRimport 0.99.18 - 2023-07-02

  • add BiocStyle

gDRimport 0.99.17 - 2023-06-27

  • add exception entry for invalid average dose-response data

gDRimport 0.99.16 - 2023-06-23

  • increase compression level - Tavor_2020.qs; < 5MB limit

gDRimport 0.99.15 - 2023-06-22

  • replace rds with qs

gDRimport 0.99.14 - 2023-06-13

  • switch from merge to [[

gDRimport 0.99.13 - 2023-06-05

  • replace reshape2 functions by functions from data.table

gDRimport 0.99.12 - 2023-05-24

  • format the vignette with BiocStyle

gDRimport 0.99.11 - 2023-05-16

  • data.frame => data.table switch - next round of changes

gDRimport 0.99.10 - 2023-05-04

  • switch from tibble to data.table in excel files

gDRimport 0.99.9 - 2023-04-25

  • refactor tibble, data.frame –> data.table

gDRimport 0.99.8 - 2023-04-20

  • switch to OSI license

gDRimport 0.99.7 - 2023-04-20

  • clean-up vignette

gDRimport 0.99.6 - 2023-04-19

  • add object S4 gdr_test_data

gDRimport 0.99.5 - 2023-04-19

  • mock PSets tests

gDRimport 0.99.4 - 2023-04-17

  • add R 4.2 as dependency
  • fix Pset-related tests and examples - reset identifiers

gDRimport 0.99.3 - 2023-04-13

  • add minor improvements - BiocCheck compatibility

gDRimport 0.99.2 - 2023-04-11

  • add support for PharmacoGx

gDRimport 0.99.1 - 2023-04-07

  • update maintainer

gDRimport 0.99.0 - 2023-03-24

  • make the package Bioc-compatible

gDRimport 0.1.3.18 - 2023-03-01

  • remove obsolete code

gDRimport 0.1.3.17 - 2023-02-14

  • add tests for check_metadata_names

gDRimport 0.1.3.16 - 2023-01-23

  • add function for detecting format of raw data

gDRimport 0.1.3.15 - 2022-12-20

  • add exceptions for missing drugs’ and cell lines’ annotations

gDRimport 0.1.3.14 - 2022-12-14

  • make exception tests more robust

gDRimport 0.1.3.13 - 2022-12-13

  • add additional error message for handling data in gDRin

gDRimport 0.1.3.12 - 2022-11-02

  • add exception table and getter and update exceptions in load_files.R

gDRimport 0.1.3.11 - 2022-10-26

  • fix bug with reading two untreated templates

gDRimport 0.1.3.10 - 2022-10-17

  • add missing namespace and add unit tests for correct_template_sheets

gDRimport 0.1.3.9 - 2022-10-06

  • extend logic for correcting template data - II

gDRimport 0.1.3.8 - 2022-10-04

  • extend logic for correcting manifest and template data

gDRimport 0.1.3.7 - 2022-09-12

  • extend the logic for filling empty cols in plate design

gDRimport 0.1.3.6 - 2022-07-28

  • change the logic for identification plates using more versatile solution

gDRimport 0.1.3.5 - 2022-07-27

  • add assert for templates without untreated controls

gDRimport 0.1.3.4 - 2022-07-06

  • reduce warnings and get rid of apply-

gDRimport 0.1.3.3 - 2022-06-17

  • modify the logic for detecting empty columns

gDRimport 0.1.3.2 - 2022-06-15

  • extend the logic for loading EnVision data for other plate size

gDRimport 0.1.3.1 - 2022-06-03

  • add support to load drug doses from D300 .tdd files

gDRimport 0.1.3.0 - 2022-06-02

  • release

gDRimport 0.0.14 - 2022-05-18

  • add load_results_Tecan
  • add tests for load_results_Tecan

gDRimport 0.0.12 - 2022-04-21

  • fix unit tests

gDRimport 0.0.11 - 2022-03-30

  • add support for Plate as an equivalent of Barcode

gDRimport 0.0.10 - 2022-03-24

  • fix hardcoded identifiers
  • update error message for custom column names

gDRimport 0.0.9 - 2021-09-10

  • switch from get_identifier to get_env_identifiers

gDRimport 0.0.8 - 2021-08-24

  • fix wrong argument in convert_se_assay_to_dt

gDRimport 0.0.7 - 2021-07-23

  • ‘s/assay_to_dt/convert_se_assay_to_dt/’ in write_ref_data_se
  • fix linter issues
  • knitr as Suggested package

gDRimport 0.0.6 - 2021-07-06

  • remove nested repo structure

gDRimport 0.0.5 - 2021-06-28

  • restore functions for reading reference data

gDRimport 0.0.5 - 2021-06-28

  • add unit tests

gDRimport 0.0.4 - 2021-06-25

  • add exemplary EnVision data

gDRimport 0.0.3 - 2021-06-25

  • move functions related to reading template from gDRcore package

gDRimport 0.0.2 - 2021-06-25

  • code refactor using lintr

gDRimport 0.0.1 - 2021-06-22

  • introduce initial release - importing fucntions moved from gDRcore package