R Under development (unstable) (2024-09-25 r87194 ucrt) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > if (require("testthat")) { + pkg <- "glmmTMB" + require(pkg, character.only=TRUE) + print(sessionInfo()) + test_check(pkg, reporter="summary") + print(warnings()) # TODO? catch most of these by expect_warning(..) + } else { + warnings("Package 'testthat' not available, cannot run unit tests for package", + sQuote(pkg)) + } Loading required package: testthat Loading required package: glmmTMB R Under development (unstable) (2024-09-25 r87194 ucrt) Platform: x86_64-w64-mingw32/x64 Running under: Windows Server 2022 x64 (build 20348) Matrix products: default locale: [1] LC_COLLATE=C LC_CTYPE=German_Germany.utf8 [3] LC_MONETARY=C LC_NUMERIC=C [5] LC_TIME=C time zone: Europe/Berlin tzcode source: internal attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] glmmTMB_1.1.10 testthat_3.2.1.1 loaded via a namespace (and not attached): [1] nlme_3.1-166 cli_3.6.3 TH.data_1.1-2 [4] rlang_1.1.4 estimability_1.5.1 reformulas_0.3.0 [7] xtable_1.8-4 minqa_1.2.8 zoo_1.8-12 [10] TMB_1.9.15 lme4_1.1-35.5 brio_1.1.5 [13] grid_4.5.0 MASS_7.3-61 mvtnorm_1.3-1 [16] numDeriv_2016.8-1.1 multcomp_1.4-26 compiler_4.5.0 [19] codetools_0.2-20 sandwich_3.1-1 emmeans_1.10.4 [22] coda_0.19-4.1 Rcpp_1.0.13 mgcv_1.9-1 [25] lattice_0.22-6 nloptr_2.1.1 R6_2.5.1 [28] Rdpack_2.6.1 splines_4.5.0 rbibutils_2.2.16 [31] magrittr_2.0.3 Matrix_1.7-0 tools_4.5.0 [34] boot_1.3-31 survival_3.7-0 Anova: ............... VarCorr: ............... altopt: alternative optimizers: S basics: .............SS.....S......S trickier examples: SS.SSSS........ bootMer: bootMer: SS checkRank: ................................................ control: SS. diagnose: .S disp: ... downstream: S..... edgecases: test edge cases: . env: basic examples: ... families: .....................SSSSSSSSS.................................. formulas: formula parsing: ................ mapequal: ........ mapopt: methods: ...............................S..........................................S..............S....................... misc: . offset: SSSSSSSSS predict: .....SSS Predict two-column response case: SS.................S..SSS....S..S...S.............S....... priors: ...........S propto: ..... reml: ........ rr: ......... saveload: Saving and loading glmmTMB objects: . simulate: ......... simulate_new: ....S......... smooths: ...... sparseX: sparse X models: ....... start: .. utils: ......................................................................................................... varstruc: variance structures: ........SSS. weight: ......... zi: ZI models: SS ══ Skipped ═════════════════════════════════════════════════════════════════════ 1. downstream methods work with optim() ('test-altopt.R:11:3') - Reason: On CRAN 2. Update Gaussian ('test-basics.R:85:3') - Reason: On CRAN 3. Variance structures ('test-basics.R:94:3') - Reason: On CRAN 4. Multiple RE, reordering ('test-basics.R:124:6') - Reason: On CRAN 5. close to lme4 results ('test-basics.R:164:5') - Reason: On CRAN 6. basic zero inflation ('test-basics.R:217:8') - Reason: On CRAN 7. alternative binomial model specifications ('test-basics.R:236:5') - Reason: On CRAN 8. NA handling ('test-basics.R:257:5') - Reason: On CRAN 9. quine NB fit ('test-basics.R:275:5') - Reason: On CRAN 10. contrasts arg ('test-basics.R:286:5') - Reason: On CRAN 11. zero disp setting ('test-basics.R:297:5') - Reason: On CRAN 12. Bernoulli responses ('test-bootMer.R:12:3') - Reason: On CRAN 13. binomial responses ('test-bootMer.R:22:5') - Reason: On CRAN 14. profile method ('test-control.R:16:3') - Reason: On CRAN 15. parallel regions ('test-control.R:50:3') - Reason: On CRAN 16. diagnose works with Tweedie fits ('test-diagnose.R:16:5') - Reason: On CRAN 17. emmeans ('test-downstream.R:22:5') - Reason: On CRAN 18. beta ('test-families.R:103:3') - Reason: On CRAN 19. nbinom ('test-families.R:125:5') - Reason: On CRAN 20. dbetabinom ('test-families.R:186:5') - Reason: On CRAN 21. truncated ('test-families.R:259:5') - Reason: On CRAN 22. truncated_genpois ('test-families.R:336:3') - Reason: On CRAN 23. truncated_compois ('test-families.R:352:5') - Reason: On CRAN 24. compois ('test-families.R:362:5') - Reason: On CRAN 25. genpois ('test-families.R:372:5') - Reason: On CRAN 26. tweedie ('test-families.R:380:5') - Reason: On CRAN 27. anova ML/REML checks ('test-methods.R:135:5') - Reason: On CRAN 28. simulate with re.form = NA ('test-methods.R:410:1') - Reason: empty test 29. various binomial response types work ('test-methods.R:490:3') - Reason: On CRAN 30. LM with offset as argument ('test-offset.R:27:3') - Reason: On CRAN 31. LM with offset in formula ('test-offset.R:35:5') - Reason: On CRAN 32. LM with offset in formula - variable not in environment ('test-offset.R:48:5') - Reason: On CRAN 33. LM with offset in dispersion formula ('test-offset.R:57:5') - Reason: On CRAN 34. LM with multiple offsets (cond/dispersion) ('test-offset.R:65:5') - Reason: On CRAN 35. LM with random crap in the formula ('test-offset.R:74:5') - Reason: On CRAN 36. offset in do.call ('test-offset.R:81:5') - Reason: On CRAN 37. LONG offset in do.call ('test-offset.R:90:5') - Reason: On CRAN 38. offset works with attributes ('test-offset.R:101:3') - Reason: On CRAN 39. new levels of fixed effect factor ('test-predict.R:37:5') - Reason: On CRAN 40. new levels in RE term ('test-predict.R:44:5') - Reason: On CRAN 41. new levels in AR1 (OK) ('test-predict.R:51:5') - Reason: On CRAN 42. two-column response ('test-predict.R:61:5') - Reason: On CRAN 43. Prediction with dispformula=~0 ('test-predict.R:69:5') - Reason: On CRAN 44. scale ('test-predict.R:183:5') - Reason: On CRAN 45. scale_RE ('test-predict.R:205:5') - Reason: On CRAN 46. complex bases in dispformula ('test-predict.R:212:5') - Reason: On CRAN 47. fix_predvars works for I(x^2) ('test-predict.R:225:5') - Reason: On CRAN 48. contrasts carried over ('test-predict.R:293:5') - Reason: On CRAN 49. offset-only model (GH #625) ('test-predict.R:332:5') - Reason: On CRAN 50. inverse-link prediction ('test-predict.R:351:3') - Reason: On CRAN 51. nzprob doesn't segfault ('test-predict.R:442:5') - Reason: On CRAN 52. prior specs ('test-priors.R:125:5') - Reason: On CRAN 53. simulate_new, returning pars ('test-simulate_new.R:49:1') - Reason: empty test 54. ar1 requires factor time ('test-varstruc.R:58:3') - Reason: On CRAN 55. varcorr_print ('test-varstruc.R:78:5') - Reason: On CRAN 56. cov_struct_order ('test-varstruc.R:109:5') - Reason: On CRAN 57. zi ('test-zi.R:12:3') - Reason: On CRAN 58. zi beta and Gamma ('test-zi.R:37:5') - Reason: On CRAN ══ DONE ════════════════════════════════════════════════════════════════════════ > > proc.time() user system elapsed 66.68 2.25 69.51