CRAN Package Check Results for Package glmmTMB

Last updated on 2025-08-09 05:48:37 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	1.1.11	229.34	357.00	586.34	ERROR
r-devel-linux-x86_64-debian-gcc	1.1.11	185.86	279.44	465.30	OK
r-devel-linux-x86_64-fedora-clang	1.1.11			675.81	OK
r-devel-linux-x86_64-fedora-gcc	1.1.11			642.85	OK
r-devel-windows-x86_64	1.1.11	228.00	328.00	556.00	OK	--no-vignettes
r-patched-linux-x86_64	1.1.11	252.21	346.60	598.81	OK
r-release-linux-x86_64	1.1.11	250.22	344.18	594.40	OK
r-release-macos-arm64	1.1.11			255.00	OK
r-release-macos-x86_64	1.1.11			562.00	OK
r-release-windows-x86_64	1.1.11	222.00	326.00	548.00	OK	--no-vignettes
r-oldrel-macos-arm64	1.1.11			262.00	NOTE
r-oldrel-macos-x86_64	1.1.11			531.00	NOTE
r-oldrel-windows-x86_64	1.1.11	280.00	375.00	655.00	NOTE	--no-vignettes

Check Details

Version: 1.1.11
Check: tests
Result: ERROR Running ‘AAAtest-all.R’ [119s/141s] Running the tests in ‘tests/AAAtest-all.R’ failed. Complete output: > 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) (2025-08-06 r88516) Platform: x86_64-pc-linux-gnu Running under: Debian GNU/Linux 13 (trixie) Matrix products: default BLAS: /home/hornik/tmp/R.check/r-devel-clang/Work/build/lib/libRblas.so LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.12.1; LAPACK version 3.12.0 locale: [1] LC_CTYPE=C.UTF-8 LC_NUMERIC=C LC_TIME=C.UTF-8 [4] LC_COLLATE=C LC_MONETARY=C.UTF-8 LC_MESSAGES=C.UTF-8 [7] LC_PAPER=C.UTF-8 LC_NAME=C LC_ADDRESS=C [10] LC_TELEPHONE=C LC_MEASUREMENT=C.UTF-8 LC_IDENTIFICATION=C time zone: Europe/Vienna tzcode source: system (glibc) attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] glmmTMB_1.1.11 testthat_3.2.3 loaded via a namespace (and not attached): [1] nlme_3.1-168 cli_3.6.5 TH.data_1.1-3 [4] rlang_1.1.6 estimability_1.5.1 reformulas_0.4.1 [7] xtable_1.8-4 minqa_1.2.8 zoo_1.8-14 [10] TMB_1.9.17 lme4_1.1-37 brio_1.1.5 [13] grid_4.6.0 MASS_7.3-65 mvtnorm_1.3-3 [16] numDeriv_2016.8-1.1 multcomp_1.4-28 compiler_4.6.0 [19] codetools_0.2-20 sandwich_3.1-1 emmeans_1.11.2 [22] coda_0.19-4.1 Rcpp_1.1.0 mgcv_1.9-3 [25] lattice_0.22-7 nloptr_2.2.1 R6_2.6.1 [28] Rdpack_2.6.4 splines_4.6.0 rbibutils_2.3 [31] magrittr_2.0.3 Matrix_1.7-3 tools_4.6.0 [34] boot_1.3-31 survival_3.8-3 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: .....SSSSS.................S..SSS....S..S...S.............S........ priors: ...........SS propto: ...... reml: ........ rr: .......... saveload: Saving and loading glmmTMB objects: . simulate: ......... simulate_new: ....S......... smooths: 1... sparseX: sparse X models: ....... start: .. utils: ......................................................................................................... varstruc: .........SSS.S 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:59:5') - Reason: On CRAN 43. Prediction with dispformula=~0 ('test-predict.R:67:5') - Reason: On CRAN 44. scale ('test-predict.R:181:5') - Reason: On CRAN 45. scale_RE ('test-predict.R:203:5') - Reason: On CRAN 46. complex bases in dispformula ('test-predict.R:210:5') - Reason: On CRAN 47. fix_predvars works for I(x^2) ('test-predict.R:223:5') - Reason: On CRAN 48. contrasts carried over ('test-predict.R:291:5') - Reason: On CRAN 49. offset-only model (GH #625) ('test-predict.R:330:5') - Reason: On CRAN 50. inverse-link prediction ('test-predict.R:349:3') - Reason: On CRAN 51. nzprob doesn't segfault ('test-predict.R:440:5') - Reason: On CRAN 52. prior specs ('test-priors.R:125:5') - Reason: On CRAN 53. dropping priors for rank-def X matrix ('test-priors.R:166:1') - Reason: empty test 54. simulate_new, returning pars ('test-simulate_new.R:49:1') - Reason: empty test 55. ar1 requires factor time ('test-varstruc.R:66:3') - Reason: On CRAN 56. varcorr_print ('test-varstruc.R:86:5') - Reason: On CRAN 57. cov_struct_order ('test-varstruc.R:139:5') - Reason: On CRAN 58. het ar1 ('test-varstruc.R:156:5') - Reason: On CRAN 59. zi ('test-zi.R:12:3') - Reason: On CRAN 60. zi beta and Gamma ('test-zi.R:37:5') - Reason: On CRAN ══ Failed ══════════════════════════════════════════════════════════════════════ ── 1. Error ('test-smooths.R:13:5'): basic smooth ────────────────────────────── Error in ``[<-.ts`(`*tmp*`, ri, value = structure(c(1871, 1872, 1873, 1874, 1875, 1876, 1877, 1878, 1879, 1880, 1881, 1882, 1883, 1884, 1885, 1886, 1887, 1888, 1889, 1890, 1891, 1892, 1893, 1894, 1895, 1896, 1897, 1898, 1899, 1900, 1901, 1902, 1903, 1904, 1905, 1906, 1907, 1908, 1909, 1910, 1911, 1912, 1913, 1914, 1915, 1916, 1917, 1918, 1919, 1920, 1921, 1922, 1923, 1924, 1925, 1926, 1927, 1928, 1929, 1930, 1931, 1932, 1933, 1934, 1935, 1936, 1937, 1938, 1939, 1940, 1941, 1942, 1943, 1944, 1945, 1946, 1947, 1948, 1949, 1950, 1951, 1952, 1953, 1954, 1955, 1956, 1957, 1958, 1959, 1960, 1961, 1962, 1963, 1964, 1965, 1966, 1967, 1968, 1969, 1970), tsp = c(1871, 1970, 1), class = "ts"))`: only replacement of elements is allowed Backtrace: ▆ 1. ├─testthat::expect_equal(predict(sm1), predict(sm1, newdata = ndat)) at test-smooths.R:13:5 2. │ └─testthat::quasi_label(enquo(expected), expected.label, arg = "expected") 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. ├─stats::predict(sm1, newdata = ndat) 5. └─glmmTMB:::predict.glmmTMB(sm1, newdata = ndat) 6. └─base::rbind(object$frame, newFr) 7. └─base::rbind(deparse.level, ...) 8. ├─base::`[<-`(`*tmp*`, ri, value = `<ts>`) 9. └─stats:::`[<-.ts`(`*tmp*`, ri, value = `<ts>`) ══ DONE ════════════════════════════════════════════════════════════════════════ Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-debian-clang

Version: 1.1.11
Check: installed package size
Result: NOTE installed size is 97.2Mb sub-directories of 1Mb or more: doc 1.7Mb libs 91.3Mb test_data 2.7Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64

Version: 1.1.11
Flags: --no-vignettes
Check: installed package size
Result: NOTE installed size is 10.2Mb sub-directories of 1Mb or more: doc 1.7Mb libs 4.4Mb test_data 2.7Mb Flavor: r-oldrel-windows-x86_64