3.3.0.03

[hreinwald]

Bug fix

• Fixed ED() for exponential decay models (EXD.2, EXD.3, AR.2, AR.3, W1.x, W2.x) with two fixed parameters: when only one parameter is estimated (1×1 variance-covariance matrix), the function previously failed with "incorrect number of dimensions" errors. Enhanced ED.drc to defensively coerce scalar/vector vcov inputs to proper matrices and to always strip names from gradients for consistent matrix algebra. This fix now allows retrieving ED values from exponential decay models with two fixed parameters, which was previously impossible.

• Fixed gradient handling in ED() to ensure model-specific derivative functions always return unnamed numeric vectors, preventing dimension errors in delta-method standard error calculations.

What's Changed

• Add comprehensive README and refactor poorly coded R functions in Add comprehensive README and refactor poorly coded R functions #1
• Remove /tests folder (development artifacts) in Remove /tests folder (development artifacts) #2
• Update .gitignore and .Rbuildignore with standard R package settings in Update .gitignore and .Rbuildignore with standard R package settings #3
• Remove obsolete base-level files in Remove obsolete base-level files #4
• First dev merge to main in First dev merge to main #5
• Add news file entry summarizing all fork changes from upstream in Add news file entry summarizing all fork changes from upstream #6
• Summarize all fork changes in news file in Summarize all fork changes in news file #7
• Fix DESCRIPTION format: add Encoding, fix Authors@R, remove deprecated fields in Fix DESCRIPTION format: add Encoding, fix Authors@R, remove deprecated fields #8
• Add roxygen2 documentation to all R source files and fix typos in Add roxygen2 documentation to all R source files and fix typos #9
• Clean up drm(): remove ~900 lines of dead code, fix silent bypass of safety check in Clean up drm(): remove ~900 lines of dead code, fix silent bypass of safety check #10
• Add missing news entries for PRs Fix DESCRIPTION format: add Encoding, fix Authors@R, remove deprecated fields #8, Add roxygen2 documentation to all R source files and fix typos #9, Clean up drm(): remove ~900 lines of dead code, fix silent bypass of safety check #10 in Add missing news entries for PRs #8, #9, #10 #11
• Add roxygen2 documentation and fix typos in R source files in Add roxygen2 documentation and fix typos in R source files #12
• Enhance DESCRIPTION file and improve R documentation in Enhance DESCRIPTION file and improve R documentation #13
• Fix cedergreen2() edfct/maxfct parameter binding to helper functions in Fix cedergreen2() edfct/maxfct parameter binding to helper functions #14
• Add @exportS3Method tags to S3 methods missing export annotations in Add @exportS3Method tags to S3 methods missing export annotations #15
• Fix double-escaped percent signs in roxygen docs causing Rd parse warnings in Fix double-escaped percent signs in roxygen docs causing Rd parse warnings #17
• Enhance documentation, refactor Cedergreen model, and update exports in Enhance documentation, refactor Cedergreen model, and update exports #18
• Restore NAMESPACE exports wiped by roxygen2 regeneration in Restore NAMESPACE exports wiped by roxygen2 regeneration #19
• Verify drm() output matches drm_legacy() with comprehensive tests in Verify drm() output matches drm_legacy() with comprehensive tests #20
• Add roxygen2 documentation for drm_legacy() as internal in Add roxygen2 documentation for drm_legacy() as internal #21
• Update README: Add CRS.4/CRS.5/CRS.6 models and fix dependencies in Update README: Add CRS.4/CRS.5/CRS.6 models and fix dependencies #22
• Fix mselect lack-of-fit always zero and handle negative F statistics in anova in Fix mselect lack-of-fit always zero and handle negative F statistics in anova #23
• Add Hannes Reinwald as package author in Add Hannes Reinwald as package author #25
• Add missing news entries for dev branch changes (2026-03-09 through 2026-03-11) in Add missing news entries for dev branch changes (2026-03-09 through 2026-03-11) #26
• Fix R package dependency warnings for data.table, dplyr, and drcData in Fix R package dependency warnings for data.table, dplyr, and drcData #27
• Fix S3 method consistency warnings from devtools::check() in Fix S3 method consistency warnings from devtools::check() #28
• Fix escaped LaTeX specials (&) warnings in Rd documentation in Fix escaped LaTeX specials (\&) warnings in Rd documentation #29
• Standardize R script file extensions to uppercase .R in Standardize R script file extensions to uppercase .R #30
• Fix duplicate Rd aliases and unstated dependencies in examples in Fix duplicate Rd aliases and unstated dependencies in examples #31
• Enhance package startup message with citations, developer credits, and issue reporting in Enhance package startup message with citations, developer credits, and issue reporting #32
• Add comprehensive test coverage for core drc functions in Add comprehensive test coverage for core drc functions #34
• Fix test calling anova() on single drc model that breaks covr::package_coverage() in Fix test calling anova() on single drc model that breaks covr::package_coverage() #36
• Fix 23 test failures: source robustness improvements and test corrections in Fix 23 test failures: source robustness improvements and test corrections #37
• Fix NaN warning in summary.drc for robust median and fix empty anova p-value test in Fix NaN warning in summary.drc for robust median and fix empty anova p-value test #38
• Fix inherits() bug in mselect, harden F-test edge cases, add input validation in Fix inherits() bug in mselect, harden F-test edge cases, add input validation #39
• Fix division-by-zero bugs in Rsq and absToRel, remove dead code in Fix division-by-zero bugs in Rsq and absToRel, remove dead code #40
• Fix unsafe global state, ignored parameters, and division by zero in core functions in Fix unsafe global state, ignored parameters, and division by zero in core functions #41
• Remove drcData package dependency in Remove drcData package dependency #42
• Fix devtools::check() errors, warnings, and notes in drc package in Fix devtools::check() errors, warnings, and notes in drc package #43
• Review and improve dataset .Rd documentation files in Review and improve dataset .Rd documentation files #44
• Add Bootstrap 5 configuration and update maintainer list in Add Bootstrap 5 configuration and update maintainer list #46
• Roxygen2 documentation audit: fix undocumented args, remove dontrun/donttest, fix broken examples in Roxygen2 documentation audit: fix undocumented args, remove dontrun/donttest, fix broken examples #45
• Fix Rd comment warning by escaping %*% operator in finney71.Rd in Fix Rd comment warning by escaping %*% operator in finney71.Rd #47
• Fix pkgdown build error when docs/ directory exists in Fix pkgdown build error when docs/ directory exists #48
• Add NEC models vignette documenting the four NEC function variants in Add NEC models vignette documenting the four NEC function variants #49
• Add vignette access instructions to README in Add vignette access instructions to README #50
• Add comprehensive dose-response workflow vignette in Add comprehensive dose-response workflow vignette #51
• Fix vignettes excluded from package build and incorrect mselect() usage in Fix vignettes excluded from package build and incorrect mselect() usage #52
• Restructure news file: combine same-date entries, expand line limit to 180 chars in Restructure news file: combine same-date entries, expand line limit to 180 chars #54
• Fix pkgdown URL and GitHub Pages deployment path in Fix pkgdown URL and GitHub Pages deployment path #55
• Add GitHub Actions workflow to build and commit pkgdown site in Add GitHub Actions workflow to build and commit pkgdown site #56
• Rebuild pkgdown site with complete reference index and fixed example plots in Rebuild pkgdown site with complete reference index and fixed example plots #57
• Update GitHub Actions to Node.js 24 compatible versions in Update GitHub Actions to Node.js 24 compatible versions #59
• Replace Travis CI badges with working badge set; add R-CMD-check workflow in Replace Travis CI badges with working badge set; add R-CMD-check workflow #58
• Add test coverage workflow for Codecov integration in Add test coverage workflow for Codecov integration #60
• Fix codecov upload by downgrading codecov-action from v5 to v4 in Fix codecov upload by downgrading codecov-action from v5 to v4 #61
• Add unit tests for weibull2.R achieving 100% coverage in Add unit tests for weibull2.R achieving 100% coverage #66
• Add comprehensive unit tests achieving 100% coverage for arandaordaz function in Add comprehensive unit tests achieving 100% coverage for arandaordaz function #68
• Add comprehensive unit tests for braincousens functions - achieve 100% coverage in Add comprehensive unit tests for braincousens functions - achieve 100% coverage #70
• Add comprehensive unit tests for cedergreen, cedergreen.ssf, and CRS.6 functions in Add comprehensive unit tests for cedergreen, cedergreen.ssf, and CRS.6 functions #69
• Add 100% test coverage for maED, ED.drc, ED_robust; fix three bugs found during testing in Add 100% test coverage for maED, ED.drc, ED_robust; fix three bugs found during testing #71
• Fix ED.drc.Rd documentation parse failure from double-escaped percent signs in Fix ED.drc.Rd documentation parse failure from double-escaped percent signs #72
• Add path filters to GitHub Actions workflows for targeted execution in Add path filters to GitHub Actions workflows for targeted execution #74
• Add CITATION.cff file for DOI 10.1371/journal.pone.0146021 in Add CITATION.cff file for DOI 10.1371/journal.pone.0146021 #80
• Add 100% coverage test suite for findbe.R in Add 100% coverage test suite for findbe.R #76
• Add 100% test coverage for CIcompX.R; fix CIcomp single-EDvec bug in Add 100% test coverage for CIcompX.R; fix CIcomp single-EDvec bug #75
• Add unit tests for siInner and fieller to achieve 100% coverage in Add unit tests for siInner and fieller to achieve 100% coverage #77
• Add comprehensive testthat suite for lnormal.R (edfct and all related functions) in Add comprehensive testthat suite for lnormal.R (edfct and all related functions) #78
• Add test suite for logistic.R edfct and related functions; remove dead code in Add test suite for logistic.R edfct and related functions; remove dead code #79
• Export low-coverage functions table to tests/ in Export low-coverage functions table to tests/ #83
• Add comprehensive test suite for llogistic2.R (100% coverage) in Add comprehensive test suite for llogistic2.R (100% coverage) #87
• Fix ED parameter bug in simFct and add 100% coverage test suite in Fix ED parameter bug in simFct and add 100% coverage test suite #85
• Add unit tests for neill.test achieving 100% code coverage in Add unit tests for neill.test achieving 100% code coverage #88
• Add 100% test coverage for mrdrm.R and fix EDboot robustness in Add 100% test coverage for mrdrm.R and fix EDboot robustness #86
• Add 100% test coverage for gompertz() and gompertz.ssf(), remove dead code in Add 100% test coverage for gompertz() and gompertz.ssf(), remove dead code #90
• Add test suite for isobole() with 100% code coverage in Add test suite for isobole() with 100% code coverage #92
• Add unit tests for gaussian() and gaussian.ssf() achieving 100% coverage in Add unit tests for gaussian() and gaussian.ssf() achieving 100% coverage #89
• Add comprehensive test suite for lgaussian.R achieving 100% code coverage in Add comprehensive test suite for lgaussian.R achieving 100% code coverage #91
• Add unit tests for fplogistic() and FPL.4() with 100% code coverage in Add unit tests for fplogistic() and FPL.4() with 100% code coverage #93
• Add 100% test coverage for mixture(), hewlett(), voelund(); fix voelund bug and remove dead code in Add 100% test coverage for mixture(), hewlett(), voelund(); fix voelund bug and remove dead code #94
• Fix identical() integer/double bug in boxcox.drc and add 100% test coverage in Fix identical() integer/double bug in boxcox.drc and add 100% test coverage #95
• Add 100% test coverage for sandwich.R and remove dead code in Add 100% test coverage for sandwich.R and remove dead code #96
• Add comprehensive test suite for ursa.R achieving 100% code coverage in Add comprehensive test suite for ursa.R achieving 100% code coverage #98
• Fix 3 bugs in weibull2x edfct and add 100% coverage test suite in Fix 3 bugs in weibull2x edfct and add 100% coverage test suite #97
• Add unit tests for fct2list.R achieving 100% code coverage in Add unit tests for fct2list.R achieving 100% code coverage #106
• Fix test-mixture.R: use drc::: prefix for internal functions in Fix test-mixture.R: use drc::: prefix for internal functions #107
• Add dedicated test suite for voelund() with 100% code coverage in Add dedicated test suite for voelund() with 100% code coverage #105
• Add unit tests for NEC functions with 100% coverage in Add unit tests for NEC functions with 100% coverage #99
• Fix absToRel parameter order bug in multi2 edfct and add 100% coverage test suite in Fix absToRel parameter order bug in multi2 edfct and add 100% coverage test suite #100
• Add test suite for yieldLoss and genFixedFct with 100% coverage in Add test suite for yieldLoss and genFixedFct with 100% coverage #104
• Add baro5() test suite with 100% coverage; remove dead code in Add baro5() test suite with 100% coverage; remove dead code #103
• Add unit tests for mr.test achieving 100% code coverage in Add unit tests for mr.test achieving 100% code coverage #101
• Add unit tests for lin.test achieving 100% code coverage in Add unit tests for lin.test achieving 100% code coverage #102
• Add test suite for gammadr() with 100% code coverage in Add test suite for gammadr() with 100% code coverage #112
• Add unit tests for getMeanFunctions, remove dead code in Add unit tests for getMeanFunctions, remove dead code #111
• Fix bugs in relpot() and add comprehensive test suite in Fix bugs in relpot() and add comprehensive test suite #110
• Add 100% test coverage for drmEMstandard and remove dead code in Add 100% test coverage for drmEMstandard and remove dead code #108
• Add unit tests for idrm() achieving 100% code coverage in Add unit tests for idrm() achieving 100% code coverage #109
• Add test suite for twophase() with 100% code coverage in Add test suite for twophase() with 100% code coverage #115
• Add unit tests for threephase function with 100% coverage in Add unit tests for threephase function with 100% coverage #116
• Add unit tests for drmEMssd and drmLOFssd achieving 100% coverage in Add unit tests for drmEMssd and drmLOFssd achieving 100% coverage #119
• Add unit tests for simDR and fix hardcoded rownames bug in Add unit tests for simDR and fix hardcoded rownames bug #117
• Add test suite for gompertzd() achieving 100% code coverage in Add test suite for gompertzd() achieving 100% code coverage #114
• Add unit tests for rdrm() with 100% code coverage in Add unit tests for rdrm() with 100% code coverage #113
• Add unit tests for repChar achieving 100% code coverage in Add unit tests for repChar achieving 100% code coverage #120
• Add unit tests for drmEMeventtime achieving 100% code coverage in Add unit tests for drmEMeventtime achieving 100% code coverage #118
• Add test suite for getInitial achieving 100% coverage in Add test suite for getInitial achieving 100% coverage #122
• Add test suite for backfit() achieving 100% code coverage in Add test suite for backfit() achieving 100% code coverage #121
• Remove dead code: iband.R in Remove dead code: iband.R #124
• Add test suite for noEffect function with 100% coverage in Add test suite for noEffect function with 100% coverage #125
• Add tests for searchdrc function in Add tests for searchdrc function #126
• Achieve 100% test coverage for summary.drc and print.summary.drc, fix bugs found during coverage analysis in Achieve 100% test coverage for summary.drc and print.summary.drc, fix bugs found during coverage analysis #127
• Fix searchdrc regex crash and clean devtools::check() to 0 errors/warnings/notes in Fix searchdrc regex crash and clean devtools::check() to 0 errors/warnings/notes #130
• Fix inverted otrace/silentVal logic in drmOpt in Fix inverted otrace/silentVal logic in drmOpt #131
• Document Weibull starting value method parameter and default behavior in Document Weibull starting value method parameter and default behavior #135
• Fix SE calculation in ED() for type="absolute": missing chain-rule gradient through absToRel in Fix SE calculation in ED() for type="absolute": missing chain-rule gradient through absToRel #137
• Fix all issues in ucedergreen() — align with cedergreen() reference implementation in Fix all issues in ucedergreen() — align with cedergreen() reference implementation #136
• Fix incorrect SE ordering assertion in test-ED.R in Fix incorrect SE ordering assertion in test-ED.R #138
• Add wiki pages and documentation links for GitHub Pages site in Add wiki pages and documentation links for GitHub Pages site #140
• Fix boundary detection bugs in MAX() and add 100% coverage test suite in Fix boundary detection bugs in MAX() and add 100% coverage test suite #142
• Fix PR() dropping ... args for single-curve models; add 100% coverage tests in Fix PR() dropping ... args for single-curve models; add 100% coverage tests #144
• Migrate legacy news file to formatted NEWS.md in Migrate legacy news file to formatted NEWS.md #146
• Add PLoS ONE 2015 article and CRC Press 2019 book references to CITATION.cff in Add PLoS ONE 2015 article and CRC Press 2019 book references to CITATION.cff #145
• Fix citation URL to return GitHub repo instead of r-project.org in Fix citation URL to return GitHub repo instead of r-project.org #147
• Update NEWS.md with missing 3.3.0.02 entries and fix ED_robust/maED_robust descriptions in Update NEWS.md with missing 3.3.0.02 entries and fix ED_robust/maED_robust descriptions #148
• Fix gammadr deriv1 chain rule error, CRS.4b fctText typo, and add W1.x/LL.x tests in Fix gammadr deriv1 chain rule error, CRS.4b fctText typo, and add W1.x/LL.x tests #151
• Add unit tests for logistic.ssf achieving 100% code coverage in Add unit tests for logistic.ssf achieving 100% code coverage #152
• Implement rss() function for residual sum of squares in Implement rss() function for residual sum of squares #153
• Fix ED() and noEffect() for models with fixed parameters (EXD.3, LL.5) in Fix ED() and noEffect() for models with fixed parameters (EXD.3, LL.5) #154
• Fix maED() to handle non-finite ED values from model averaging in Fix maED() to handle non-finite ED values from model averaging #155
• Enhance roxygen2 documentation for ED and ED.drc functions in Enhance roxygen2 documentation for ED and ED.drc functions #156
• Add unit tests for EXD.2 and EXD.3 in weibull1.R in Add unit tests for EXD.2 and EXD.3 in weibull1.R #157
• Achieve 100% test coverage for searchdrc in Achieve 100% test coverage for searchdrc #158
• Add comprehensive test suite for EDcomp.R achieving 100% coverage in Add comprehensive test suite for EDcomp.R achieving 100% coverage #159
• Add comprehensive test suite for modelFit.R achieving 100% coverage in Add comprehensive test suite for modelFit.R achieving 100% coverage #160
• Fix ED.lin bugs: dead code, missing parameterNames, debug print; add 100% coverage tests in Fix ED.lin bugs: dead code, missing parameterNames, debug print; add 100% coverage tests #161
• Add comprehensive unit tests for mselect.R achieving 100% coverage in Add comprehensive unit tests for mselect.R achieving 100% coverage #162
• Add unit tests for modelFunction achieving 100% coverage in Add unit tests for modelFunction achieving 100% coverage #163
• Add unit tests for drmOpt achieving 100% code coverage in Add unit tests for drmOpt achieving 100% code coverage #164
• Add 100% coverage test suite for anova.drclist in Add 100% coverage test suite for anova.drclist #165
• Update NEWS.md with undocumented changes since last changelog entry in Update NEWS.md with undocumented changes since last changelog entry #166
• Update README installation section to recommend dev/beta versions over outdated CRAN in Update README installation section to recommend dev/beta versions over outdated CRAN #168
• Update package maintainer from Christian Ritz to Hannes Reinwald in Update package maintainer from Christian Ritz to Hannes Reinwald #169
• Fix DRC logo display on GitHub Pages in Fix DRC logo display on GitHub Pages #170
• Add regression tests for EXD.3 ED() with two fixed parameters in Add regression tests for EXD.3 ED() with two fixed parameters #171
• Update NEWS.md with ED() bug fix for exponential decay models with two fixed parameters in Update NEWS.md with ED() bug fix for exponential decay models with two fixed parameters #172
• Updated docs for version 3.3.0.03 in Updated docs for version 3.3.0.03 #173

Full Changelog: https://github.com/hreinwald/drc/commits/3.3.0.03

---

This discussion was created from the release 3.3.0.03.