Last updated on 2025-12-07 07:50:24 CET.
| Package | ERROR | WARN | OK |
|---|---|---|---|
| easystats | 1 | 12 | |
| esc | 13 | ||
| ggeffects | 7 | 6 | |
| sjlabelled | 1 | 12 | |
| sjmisc | 1 | 12 | |
| sjPlot | 1 | 12 | |
| sjstats | 13 |
Current CRAN status: WARN: 1, OK: 12
Version: 0.7.5
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'DHARMa', 'DT', 'flexdashboard', 'knitr', 'pak', 'rmarkdown'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.7.5
Check: package vignettes
Result: NOTE
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Flavor: r-devel-linux-x86_64-debian-gcc
Current CRAN status: OK: 13
Current CRAN status: ERROR: 7, OK: 6
Version: 2.3.1
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'gam', 'gt', 'knitr', 'mclogit', 'rmarkdown', 'rms', 'rstanarm'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.3.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [77s/81s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(ggeffects)
> test_check("ggeffects")
You are calculating adjusted predictions on the population-level (i.e.
`type = "fixed"`) for a *generalized* linear mixed model.
This may produce biased estimates due to Jensen's inequality. Consider
setting `bias_correction = TRUE` to correct for this bias.
See also the documentation of the `bias_correction` argument.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Running model...
Done!
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
NOTE: Results may be misleading due to involvement in interactions
NOTE: Results may be misleading due to involvement in interactions
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Could not compute variance-covariance matrix of predictions. No
confidence intervals are returned.
Saving _problems/test-poly-zeroinf-27.R
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: Invalid operation on a survival time
You may try `ggpredict()` or `ggemmeans()`.
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: non-conformable arguments
You may try `ggpredict()` or `ggemmeans()`.
[ FAIL 1 | WARN 0 | SKIP 74 | PASS 480 ]
══ Skipped tests (74) ══════════════════════════════════════════════════════════
• On CRAN (58): 'test-MCMCglmm.R:1:1', 'test-MixMod.R:1:1',
'test-averaging.R:1:1', 'test-avg_predictions.R:1:1',
'test-backtransform_response.R:1:1', 'test-bias_correction.R:1:1',
'test-brms-categ-cum.R:1:1', 'test-brms-monotonic.R:1:1',
'test-brms-ppd.R:1:1', 'test-brms-trial.R:1:1', 'test-clean_vars.R:1:1',
'test-clm.R:1:1', 'test-clm2.R:1:1', 'test-clmm.R:1:1',
'test-condition.R:1:1', 'test-correct_se_sorting.R:1:1',
'test-decimals.R:1:1', 'test-fixest.R:1:1', 'test-focal_only_random.R:1:1',
'test-format.R:1:1', 'test-gamlss.R:1:1', 'test-gamm4.R:1:1',
'test-glmer.R:2:1', 'test-glmmTMB.R:1:1', 'test-interval_re.R:1:1',
'test-ivreg.R:1:1', 'test-list_terms.R:32:1', 'test-lmer.R:1:1',
'test-mgcv.R:1:1', 'test-plot-from-vignettes.R:5:1',
'test-plot-ordinal-latent.R:1:1', 'test-plot-show_data.R:1:1',
'test-plot-survival.R:2:1', 'test-plot.R:1:1', 'test-polr.R:13:5',
'test-polr.R:43:5', 'test-pool_comparisons.R:1:1', 'test-print.R:1:1',
'test-print_digits.R:1:1', 'test-print_md.R:1:1',
'test-print_zero_inflation.R:1:1', 'test-resid_over_grid.R:33:5',
'test-rstanarm-ppd.R:1:1', 'test-rstanarm.R:1:1', 'test-sdmTMB.R:1:1',
'test-simulate.R:1:1', 'test-test_predictions-margin.R:1:1',
'test-test_predictions-mixed.R:1:1', 'test-test_predictions_emmeans.R:58:1',
'test-test_predictions_emmeans.R:73:1',
'test-test_predictions_ggeffects.R:115:1',
'test-test_predictions_ggeffects.R:164:1',
'test-test_predictions_ggeffects.R:183:3',
'test-test_predictions_ggeffects.R:226:5', 'test-vcov.R:1:1',
'test-vglm.R:1:1', 'test-zeroinfl.R:27:3', 'test-zi_prob.R:1:1'
• On Linux (10): 'test-brglm.R:1:1', 'test-ci_backticks-names.R:1:1',
'test-emmeans-weights.R:1:1', 'test-gee.R:1:1', 'test-ggaverage.R:1:1',
'test-glm.R:1:1', 'test-ordinal.R:1:1', 'test-print_subsets.R:1:1',
'test-print_test_predictions-ordinal.R:1:1',
'test-print_test_predictions.R:1:1'
• empty test (2): 'test-polr.R:136:5', 'test-polr.R:142:5'
• {gam} is not installed (1): 'test-Gam2.R:2:1'
• {mclogit} is not installed (1): 'test-mclogit.R:2:1'
• {rms} is not installed (2): 'test-lrm.R:2:1', 'test-orm.R:2:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-poly-zeroinf.R:27:3'): ggpredict, glmmTMB ──────────────────────
Error in `exp(prdat.sim$cond)`: non-numeric argument to mathematical function
Backtrace:
▆
1. └─ggeffects::ggpredict(...) at test-poly-zeroinf.R:27:3
2. ├─base::do.call(ggpredict_helper, full_args)
3. └─ggeffects (local) `<fn>`(...)
4. ├─ggeffects::get_predictions(...)
5. └─ggeffects:::get_predictions.glmmTMB(...)
[ FAIL 1 | WARN 0 | SKIP 74 | PASS 480 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.3.1
Check: package vignettes
Result: NOTE
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.3.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [197s/240s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(ggeffects)
> test_check("ggeffects")
You are calculating adjusted predictions on the population-level (i.e.
`type = "fixed"`) for a *generalized* linear mixed model.
This may produce biased estimates due to Jensen's inequality. Consider
setting `bias_correction = TRUE` to correct for this bias.
See also the documentation of the `bias_correction` argument.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Running model...
Done!
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Iteration 1 - deviance = 39.74973 - criterion = 0.8590917
Iteration 2 - deviance = 10.50328 - criterion = 2.758244
Iteration 3 - deviance = 9.231325 - criterion = 0.1363107
Iteration 4 - deviance = 9.227742 - criterion = 0.0003840654
Iteration 5 - deviance = 9.227742 - criterion = 3.446463e-09
converged
NOTE: Results may be misleading due to involvement in interactions
NOTE: Results may be misleading due to involvement in interactions
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Could not compute variance-covariance matrix of predictions. No
confidence intervals are returned.
Saving _problems/test-poly-zeroinf-27.R
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: Invalid operation on a survival time
You may try `ggpredict()` or `ggemmeans()`.
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: non-conformable arguments
You may try `ggpredict()` or `ggemmeans()`.
[ FAIL 1 | WARN 0 | SKIP 70 | PASS 496 ]
══ Skipped tests (70) ══════════════════════════════════════════════════════════
• On CRAN (58): 'test-MCMCglmm.R:1:1', 'test-MixMod.R:1:1',
'test-averaging.R:1:1', 'test-avg_predictions.R:1:1',
'test-backtransform_response.R:1:1', 'test-bias_correction.R:1:1',
'test-brms-categ-cum.R:1:1', 'test-brms-monotonic.R:1:1',
'test-brms-ppd.R:1:1', 'test-brms-trial.R:1:1', 'test-clean_vars.R:1:1',
'test-clm.R:1:1', 'test-clm2.R:1:1', 'test-clmm.R:1:1',
'test-condition.R:1:1', 'test-correct_se_sorting.R:1:1',
'test-decimals.R:1:1', 'test-fixest.R:1:1', 'test-focal_only_random.R:1:1',
'test-format.R:1:1', 'test-gamlss.R:1:1', 'test-gamm4.R:1:1',
'test-glmer.R:2:1', 'test-glmmTMB.R:1:1', 'test-interval_re.R:1:1',
'test-ivreg.R:1:1', 'test-list_terms.R:32:1', 'test-lmer.R:1:1',
'test-mgcv.R:1:1', 'test-plot-from-vignettes.R:5:1',
'test-plot-ordinal-latent.R:1:1', 'test-plot-show_data.R:1:1',
'test-plot-survival.R:2:1', 'test-plot.R:1:1', 'test-polr.R:13:5',
'test-polr.R:43:5', 'test-pool_comparisons.R:1:1', 'test-print.R:1:1',
'test-print_digits.R:1:1', 'test-print_md.R:1:1',
'test-print_zero_inflation.R:1:1', 'test-resid_over_grid.R:33:5',
'test-rstanarm-ppd.R:1:1', 'test-rstanarm.R:1:1', 'test-sdmTMB.R:1:1',
'test-simulate.R:1:1', 'test-test_predictions-margin.R:1:1',
'test-test_predictions-mixed.R:1:1', 'test-test_predictions_emmeans.R:58:1',
'test-test_predictions_emmeans.R:73:1',
'test-test_predictions_ggeffects.R:115:1',
'test-test_predictions_ggeffects.R:164:1',
'test-test_predictions_ggeffects.R:183:3',
'test-test_predictions_ggeffects.R:226:5', 'test-vcov.R:1:1',
'test-vglm.R:1:1', 'test-zeroinfl.R:27:3', 'test-zi_prob.R:1:1'
• On Linux (10): 'test-brglm.R:1:1', 'test-ci_backticks-names.R:1:1',
'test-emmeans-weights.R:1:1', 'test-gee.R:1:1', 'test-ggaverage.R:1:1',
'test-glm.R:1:1', 'test-ordinal.R:1:1', 'test-print_subsets.R:1:1',
'test-print_test_predictions-ordinal.R:1:1',
'test-print_test_predictions.R:1:1'
• empty test (2): 'test-polr.R:136:5', 'test-polr.R:142:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-poly-zeroinf.R:27:3'): ggpredict, glmmTMB ──────────────────────
Error in `exp(prdat.sim$cond)`: non-numeric argument to mathematical function
Backtrace:
▆
1. └─ggeffects::ggpredict(...) at test-poly-zeroinf.R:27:3
2. ├─base::do.call(ggpredict_helper, full_args)
3. └─ggeffects (local) `<fn>`(...)
4. ├─ggeffects::get_predictions(...)
5. └─ggeffects:::get_predictions.glmmTMB(...)
[ FAIL 1 | WARN 0 | SKIP 70 | PASS 496 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 2.3.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [190s/266s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(ggeffects)
> test_check("ggeffects")
You are calculating adjusted predictions on the population-level (i.e.
`type = "fixed"`) for a *generalized* linear mixed model.
This may produce biased estimates due to Jensen's inequality. Consider
setting `bias_correction = TRUE` to correct for this bias.
See also the documentation of the `bias_correction` argument.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Running model...
Done!
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Iteration 1 - deviance = 39.74973 - criterion = 0.8590917
Iteration 2 - deviance = 10.50328 - criterion = 2.758244
Iteration 3 - deviance = 9.231325 - criterion = 0.1363107
Iteration 4 - deviance = 9.227742 - criterion = 0.0003840654
Iteration 5 - deviance = 9.227742 - criterion = 3.446463e-09
converged
NOTE: Results may be misleading due to involvement in interactions
NOTE: Results may be misleading due to involvement in interactions
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Could not compute variance-covariance matrix of predictions. No
confidence intervals are returned.
Saving _problems/test-poly-zeroinf-27.R
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: Invalid operation on a survival time
You may try `ggpredict()` or `ggemmeans()`.
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: non-conformable arguments
You may try `ggpredict()` or `ggemmeans()`.
[ FAIL 1 | WARN 0 | SKIP 70 | PASS 496 ]
══ Skipped tests (70) ══════════════════════════════════════════════════════════
• On CRAN (58): 'test-MCMCglmm.R:1:1', 'test-MixMod.R:1:1',
'test-averaging.R:1:1', 'test-avg_predictions.R:1:1',
'test-backtransform_response.R:1:1', 'test-bias_correction.R:1:1',
'test-brms-categ-cum.R:1:1', 'test-brms-monotonic.R:1:1',
'test-brms-ppd.R:1:1', 'test-brms-trial.R:1:1', 'test-clean_vars.R:1:1',
'test-clm.R:1:1', 'test-clm2.R:1:1', 'test-clmm.R:1:1',
'test-condition.R:1:1', 'test-correct_se_sorting.R:1:1',
'test-decimals.R:1:1', 'test-fixest.R:1:1', 'test-focal_only_random.R:1:1',
'test-format.R:1:1', 'test-gamlss.R:1:1', 'test-gamm4.R:1:1',
'test-glmer.R:2:1', 'test-glmmTMB.R:1:1', 'test-interval_re.R:1:1',
'test-ivreg.R:1:1', 'test-list_terms.R:32:1', 'test-lmer.R:1:1',
'test-mgcv.R:1:1', 'test-plot-from-vignettes.R:5:1',
'test-plot-ordinal-latent.R:1:1', 'test-plot-show_data.R:1:1',
'test-plot-survival.R:2:1', 'test-plot.R:1:1', 'test-polr.R:13:5',
'test-polr.R:43:5', 'test-pool_comparisons.R:1:1', 'test-print.R:1:1',
'test-print_digits.R:1:1', 'test-print_md.R:1:1',
'test-print_zero_inflation.R:1:1', 'test-resid_over_grid.R:33:5',
'test-rstanarm-ppd.R:1:1', 'test-rstanarm.R:1:1', 'test-sdmTMB.R:1:1',
'test-simulate.R:1:1', 'test-test_predictions-margin.R:1:1',
'test-test_predictions-mixed.R:1:1', 'test-test_predictions_emmeans.R:58:1',
'test-test_predictions_emmeans.R:73:1',
'test-test_predictions_ggeffects.R:115:1',
'test-test_predictions_ggeffects.R:164:1',
'test-test_predictions_ggeffects.R:183:3',
'test-test_predictions_ggeffects.R:226:5', 'test-vcov.R:1:1',
'test-vglm.R:1:1', 'test-zeroinfl.R:27:3', 'test-zi_prob.R:1:1'
• On Linux (10): 'test-brglm.R:1:1', 'test-ci_backticks-names.R:1:1',
'test-emmeans-weights.R:1:1', 'test-gee.R:1:1', 'test-ggaverage.R:1:1',
'test-glm.R:1:1', 'test-ordinal.R:1:1', 'test-print_subsets.R:1:1',
'test-print_test_predictions-ordinal.R:1:1',
'test-print_test_predictions.R:1:1'
• empty test (2): 'test-polr.R:136:5', 'test-polr.R:142:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-poly-zeroinf.R:27:3'): ggpredict, glmmTMB ──────────────────────
Error in `exp(prdat.sim$cond)`: non-numeric argument to mathematical function
Backtrace:
▆
1. └─ggeffects::ggpredict(...) at test-poly-zeroinf.R:27:3
2. ├─base::do.call(ggpredict_helper, full_args)
3. └─ggeffects (local) `<fn>`(...)
4. ├─ggeffects::get_predictions(...)
5. └─ggeffects:::get_predictions.glmmTMB(...)
[ FAIL 1 | WARN 0 | SKIP 70 | PASS 496 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 2.3.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [124s/171s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(ggeffects)
> test_check("ggeffects")
You are calculating adjusted predictions on the population-level (i.e.
`type = "fixed"`) for a *generalized* linear mixed model.
This may produce biased estimates due to Jensen's inequality. Consider
setting `bias_correction = TRUE` to correct for this bias.
See also the documentation of the `bias_correction` argument.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Running model...
Done!
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Iteration 1 - deviance = 39.74973 - criterion = 0.8590917
Iteration 2 - deviance = 10.50328 - criterion = 2.758244
Iteration 3 - deviance = 9.231325 - criterion = 0.1363107
Iteration 4 - deviance = 9.227742 - criterion = 0.0003840654
Iteration 5 - deviance = 9.227742 - criterion = 3.446463e-09
converged
NOTE: Results may be misleading due to involvement in interactions
NOTE: Results may be misleading due to involvement in interactions
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Could not compute variance-covariance matrix of predictions. No
confidence intervals are returned.
Saving _problems/test-poly-zeroinf-27.R
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: Invalid operation on a survival time
You may try `ggpredict()` or `ggemmeans()`.
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: non-conformable arguments
You may try `ggpredict()` or `ggemmeans()`.
[ FAIL 1 | WARN 0 | SKIP 70 | PASS 496 ]
══ Skipped tests (70) ══════════════════════════════════════════════════════════
• On CRAN (58): 'test-MCMCglmm.R:1:1', 'test-MixMod.R:1:1',
'test-averaging.R:1:1', 'test-avg_predictions.R:1:1',
'test-backtransform_response.R:1:1', 'test-bias_correction.R:1:1',
'test-brms-categ-cum.R:1:1', 'test-brms-monotonic.R:1:1',
'test-brms-ppd.R:1:1', 'test-brms-trial.R:1:1', 'test-clean_vars.R:1:1',
'test-clm.R:1:1', 'test-clm2.R:1:1', 'test-clmm.R:1:1',
'test-condition.R:1:1', 'test-correct_se_sorting.R:1:1',
'test-decimals.R:1:1', 'test-fixest.R:1:1', 'test-focal_only_random.R:1:1',
'test-format.R:1:1', 'test-gamlss.R:1:1', 'test-gamm4.R:1:1',
'test-glmer.R:2:1', 'test-glmmTMB.R:1:1', 'test-interval_re.R:1:1',
'test-ivreg.R:1:1', 'test-list_terms.R:32:1', 'test-lmer.R:1:1',
'test-mgcv.R:1:1', 'test-plot-from-vignettes.R:5:1',
'test-plot-ordinal-latent.R:1:1', 'test-plot-show_data.R:1:1',
'test-plot-survival.R:2:1', 'test-plot.R:1:1', 'test-polr.R:13:5',
'test-polr.R:43:5', 'test-pool_comparisons.R:1:1', 'test-print.R:1:1',
'test-print_digits.R:1:1', 'test-print_md.R:1:1',
'test-print_zero_inflation.R:1:1', 'test-resid_over_grid.R:33:5',
'test-rstanarm-ppd.R:1:1', 'test-rstanarm.R:1:1', 'test-sdmTMB.R:1:1',
'test-simulate.R:1:1', 'test-test_predictions-margin.R:1:1',
'test-test_predictions-mixed.R:1:1', 'test-test_predictions_emmeans.R:58:1',
'test-test_predictions_emmeans.R:73:1',
'test-test_predictions_ggeffects.R:115:1',
'test-test_predictions_ggeffects.R:164:1',
'test-test_predictions_ggeffects.R:183:3',
'test-test_predictions_ggeffects.R:226:5', 'test-vcov.R:1:1',
'test-vglm.R:1:1', 'test-zeroinfl.R:27:3', 'test-zi_prob.R:1:1'
• On Linux (10): 'test-brglm.R:1:1', 'test-ci_backticks-names.R:1:1',
'test-emmeans-weights.R:1:1', 'test-gee.R:1:1', 'test-ggaverage.R:1:1',
'test-glm.R:1:1', 'test-ordinal.R:1:1', 'test-print_subsets.R:1:1',
'test-print_test_predictions-ordinal.R:1:1',
'test-print_test_predictions.R:1:1'
• empty test (2): 'test-polr.R:136:5', 'test-polr.R:142:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-poly-zeroinf.R:27:3'): ggpredict, glmmTMB ──────────────────────
Error in `exp(prdat.sim$cond)`: non-numeric argument to mathematical function
Backtrace:
▆
1. └─ggeffects::ggpredict(...) at test-poly-zeroinf.R:27:3
2. ├─base::do.call(ggpredict_helper, full_args)
3. └─ggeffects (local) `<fn>`(...)
4. ├─ggeffects::get_predictions(...)
5. └─ggeffects:::get_predictions.glmmTMB(...)
[ FAIL 1 | WARN 0 | SKIP 70 | PASS 496 ]
Error:
! Test failures.
Execution halted
Flavor: r-patched-linux-x86_64
Version: 2.3.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [121s/146s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(ggeffects)
> test_check("ggeffects")
You are calculating adjusted predictions on the population-level (i.e.
`type = "fixed"`) for a *generalized* linear mixed model.
This may produce biased estimates due to Jensen's inequality. Consider
setting `bias_correction = TRUE` to correct for this bias.
See also the documentation of the `bias_correction` argument.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Running model...
Done!
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Iteration 1 - deviance = 39.74973 - criterion = 0.8590917
Iteration 2 - deviance = 10.50328 - criterion = 2.758244
Iteration 3 - deviance = 9.231325 - criterion = 0.1363107
Iteration 4 - deviance = 9.227742 - criterion = 0.0003840654
Iteration 5 - deviance = 9.227742 - criterion = 3.446463e-09
converged
NOTE: Results may be misleading due to involvement in interactions
NOTE: Results may be misleading due to involvement in interactions
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Could not compute variance-covariance matrix of predictions. No
confidence intervals are returned.
Saving _problems/test-poly-zeroinf-27.R
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: Invalid operation on a survival time
You may try `ggpredict()` or `ggemmeans()`.
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: non-conformable arguments
You may try `ggpredict()` or `ggemmeans()`.
[ FAIL 1 | WARN 0 | SKIP 70 | PASS 496 ]
══ Skipped tests (70) ══════════════════════════════════════════════════════════
• On CRAN (58): 'test-MCMCglmm.R:1:1', 'test-MixMod.R:1:1',
'test-averaging.R:1:1', 'test-avg_predictions.R:1:1',
'test-backtransform_response.R:1:1', 'test-bias_correction.R:1:1',
'test-brms-categ-cum.R:1:1', 'test-brms-monotonic.R:1:1',
'test-brms-ppd.R:1:1', 'test-brms-trial.R:1:1', 'test-clean_vars.R:1:1',
'test-clm.R:1:1', 'test-clm2.R:1:1', 'test-clmm.R:1:1',
'test-condition.R:1:1', 'test-correct_se_sorting.R:1:1',
'test-decimals.R:1:1', 'test-fixest.R:1:1', 'test-focal_only_random.R:1:1',
'test-format.R:1:1', 'test-gamlss.R:1:1', 'test-gamm4.R:1:1',
'test-glmer.R:2:1', 'test-glmmTMB.R:1:1', 'test-interval_re.R:1:1',
'test-ivreg.R:1:1', 'test-list_terms.R:32:1', 'test-lmer.R:1:1',
'test-mgcv.R:1:1', 'test-plot-from-vignettes.R:5:1',
'test-plot-ordinal-latent.R:1:1', 'test-plot-show_data.R:1:1',
'test-plot-survival.R:2:1', 'test-plot.R:1:1', 'test-polr.R:13:5',
'test-polr.R:43:5', 'test-pool_comparisons.R:1:1', 'test-print.R:1:1',
'test-print_digits.R:1:1', 'test-print_md.R:1:1',
'test-print_zero_inflation.R:1:1', 'test-resid_over_grid.R:33:5',
'test-rstanarm-ppd.R:1:1', 'test-rstanarm.R:1:1', 'test-sdmTMB.R:1:1',
'test-simulate.R:1:1', 'test-test_predictions-margin.R:1:1',
'test-test_predictions-mixed.R:1:1', 'test-test_predictions_emmeans.R:58:1',
'test-test_predictions_emmeans.R:73:1',
'test-test_predictions_ggeffects.R:115:1',
'test-test_predictions_ggeffects.R:164:1',
'test-test_predictions_ggeffects.R:183:3',
'test-test_predictions_ggeffects.R:226:5', 'test-vcov.R:1:1',
'test-vglm.R:1:1', 'test-zeroinfl.R:27:3', 'test-zi_prob.R:1:1'
• On Linux (10): 'test-brglm.R:1:1', 'test-ci_backticks-names.R:1:1',
'test-emmeans-weights.R:1:1', 'test-gee.R:1:1', 'test-ggaverage.R:1:1',
'test-glm.R:1:1', 'test-ordinal.R:1:1', 'test-print_subsets.R:1:1',
'test-print_test_predictions-ordinal.R:1:1',
'test-print_test_predictions.R:1:1'
• empty test (2): 'test-polr.R:136:5', 'test-polr.R:142:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-poly-zeroinf.R:27:3'): ggpredict, glmmTMB ──────────────────────
Error in `exp(prdat.sim$cond)`: non-numeric argument to mathematical function
Backtrace:
▆
1. └─ggeffects::ggpredict(...) at test-poly-zeroinf.R:27:3
2. ├─base::do.call(ggpredict_helper, full_args)
3. └─ggeffects (local) `<fn>`(...)
4. ├─ggeffects::get_predictions(...)
5. └─ggeffects:::get_predictions.glmmTMB(...)
[ FAIL 1 | WARN 0 | SKIP 70 | PASS 496 ]
Error:
! Test failures.
Execution halted
Flavor: r-release-linux-x86_64
Version: 2.3.1
Check: tests
Result: ERROR
Running 'testthat.R' [130s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(ggeffects)
> test_check("ggeffects")
(Intercept) tensionM tensionH
36.38889 -10.00000 -14.72222
You are calculating adjusted predictions on the population-level (i.e.
`type = "fixed"`) for a *generalized* linear mixed model.
This may produce biased estimates due to Jensen's inequality. Consider
setting `bias_correction = TRUE` to correct for this bias.
See also the documentation of the `bias_correction` argument.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Running model...
Done!
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Iteration 1 - deviance = 39.74973 - criterion = 0.8590917
Iteration 2 - deviance = 10.50328 - criterion = 2.758244
Iteration 3 - deviance = 9.231325 - criterion = 0.1363107
Iteration 4 - deviance = 9.227742 - criterion = 0.0003840654
Iteration 5 - deviance = 9.227742 - criterion = 3.446463e-09
converged
NOTE: Results may be misleading due to involvement in interactions
NOTE: Results may be misleading due to involvement in interactions
# weights: 16 (9 variable)
initial value 1149.238025
iter 10 value 1015.404427
final value 1013.443395
converged
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Could not compute variance-covariance matrix of predictions. No
confidence intervals are returned.
Saving _problems/test-poly-zeroinf-27.R
NOTE: Results may be misleading due to involvement in interactions
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: Invalid operation on a survival time
You may try `ggpredict()` or `ggemmeans()`.
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: non-conformable arguments
You may try `ggpredict()` or `ggemmeans()`.
[ FAIL 1 | WARN 0 | SKIP 71 | PASS 565 ]
══ Skipped tests (71) ══════════════════════════════════════════════════════════
• !interactive() is TRUE (1): 'test-print_test_predictions-ordinal.R:7:1'
• On CRAN (68): 'test-MCMCglmm.R:1:1', 'test-MixMod.R:1:1',
'test-averaging.R:1:1', 'test-avg_predictions.R:1:1',
'test-backtransform_response.R:1:1', 'test-bias_correction.R:1:1',
'test-brglm.R:4:1', 'test-brms-categ-cum.R:1:1', 'test-brms-monotonic.R:1:1',
'test-brms-ppd.R:1:1', 'test-brms-trial.R:1:1', 'test-clean_vars.R:1:1',
'test-clm.R:1:1', 'test-clm2.R:1:1', 'test-clmm.R:1:1',
'test-condition.R:1:1', 'test-correct_se_sorting.R:1:1',
'test-decimals.R:1:1', 'test-fixest.R:1:1', 'test-focal_only_random.R:1:1',
'test-format.R:1:1', 'test-gamlss.R:1:1', 'test-gamm4.R:1:1',
'test-glmer.R:2:1', 'test-glmmTMB.R:1:1', 'test-interval_re.R:1:1',
'test-ivreg.R:1:1', 'test-list_terms.R:32:1', 'test-lmer.R:1:1',
'test-mgcv.R:1:1', 'test-plot-from-vignettes.R:5:1',
'test-plot-ordinal-latent.R:1:1', 'test-plot-show_data.R:1:1',
'test-plot-survival.R:2:1', 'test-plot.R:1:1', 'test-polr.R:13:5',
'test-polr.R:43:5', 'test-pool_comparisons.R:1:1', 'test-print.R:1:1',
'test-print_digits.R:1:1', 'test-print_md.R:1:1', 'test-print_subsets.R:4:1',
'test-print_subsets.R:9:1', 'test-print_test_predictions.R:18:1',
'test-print_test_predictions.R:22:1', 'test-print_test_predictions.R:27:1',
'test-print_test_predictions.R:60:1', 'test-print_test_predictions.R:72:1',
'test-print_test_predictions.R:82:1', 'test-print_test_predictions.R:99:1',
'test-print_zero_inflation.R:1:1', 'test-resid_over_grid.R:33:5',
'test-rstanarm-ppd.R:1:1', 'test-rstanarm.R:1:1', 'test-sdmTMB.R:1:1',
'test-simulate.R:1:1', 'test-test_predictions-margin.R:1:1',
'test-test_predictions-mixed.R:1:1', 'test-test_predictions_emmeans.R:58:1',
'test-test_predictions_emmeans.R:73:1',
'test-test_predictions_ggeffects.R:115:1',
'test-test_predictions_ggeffects.R:164:1',
'test-test_predictions_ggeffects.R:183:3',
'test-test_predictions_ggeffects.R:226:5', 'test-vcov.R:1:1',
'test-vglm.R:1:1', 'test-zeroinfl.R:27:3', 'test-zi_prob.R:1:1'
• empty test (2): 'test-polr.R:136:5', 'test-polr.R:142:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-poly-zeroinf.R:27:3'): ggpredict, glmmTMB ──────────────────────
Error in `exp(prdat.sim$cond)`: non-numeric argument to mathematical function
Backtrace:
▆
1. └─ggeffects::ggpredict(...) at test-poly-zeroinf.R:27:3
2. ├─base::do.call(ggpredict_helper, full_args)
3. └─ggeffects (local) `<fn>`(...)
4. ├─ggeffects::get_predictions(...)
5. └─ggeffects:::get_predictions.glmmTMB(...)
[ FAIL 1 | WARN 0 | SKIP 71 | PASS 565 ]
Error:
! Test failures.
Execution halted
Flavor: r-release-windows-x86_64
Version: 2.3.1
Check: tests
Result: ERROR
Running 'testthat.R' [183s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(ggeffects)
> test_check("ggeffects")
(Intercept) tensionM tensionH
36.38889 -10.00000 -14.72222
You are calculating adjusted predictions on the population-level (i.e.
`type = "fixed"`) for a *generalized* linear mixed model.
This may produce biased estimates due to Jensen's inequality. Consider
setting `bias_correction = TRUE` to correct for this bias.
See also the documentation of the `bias_correction` argument.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Not all rows are shown in the output. Use `print(..., n = Inf)` to show
all rows.
Running model...
Done!
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Some of the focal terms are of type `character`. This may lead to
unexpected results. It is recommended to convert these variables to
factors before fitting the model.
The following variables are of type character: `brand`
Iteration 1 - deviance = 39.74973 - criterion = 0.8590917
Iteration 2 - deviance = 10.50328 - criterion = 2.758244
Iteration 3 - deviance = 9.231325 - criterion = 0.1363107
Iteration 4 - deviance = 9.227742 - criterion = 0.0003840654
Iteration 5 - deviance = 9.227742 - criterion = 3.446463e-09
converged
NOTE: Results may be misleading due to involvement in interactions
NOTE: Results may be misleading due to involvement in interactions
# weights: 16 (9 variable)
initial value 1149.238025
iter 10 value 1015.404427
final value 1013.443395
converged
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Re-fitting to get Hessian
Saving _problems/test-poly-zeroinf-27.R
NOTE: Results may be misleading due to involvement in interactions
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: Invalid operation on a survival time
You may try `ggpredict()` or `ggemmeans()`.
Can't compute adjusted predictions, `effects::Effect()` returned an error.
Reason: non-conformable arguments
You may try `ggpredict()` or `ggemmeans()`.
[ FAIL 1 | WARN 0 | SKIP 71 | PASS 565 ]
══ Skipped tests (71) ══════════════════════════════════════════════════════════
• !interactive() is TRUE (1): 'test-print_test_predictions-ordinal.R:7:1'
• On CRAN (68): 'test-MCMCglmm.R:1:1', 'test-MixMod.R:1:1',
'test-averaging.R:1:1', 'test-avg_predictions.R:1:1',
'test-backtransform_response.R:1:1', 'test-bias_correction.R:1:1',
'test-brglm.R:4:1', 'test-brms-categ-cum.R:1:1', 'test-brms-monotonic.R:1:1',
'test-brms-ppd.R:1:1', 'test-brms-trial.R:1:1', 'test-clean_vars.R:1:1',
'test-clm.R:1:1', 'test-clm2.R:1:1', 'test-clmm.R:1:1',
'test-condition.R:1:1', 'test-correct_se_sorting.R:1:1',
'test-decimals.R:1:1', 'test-fixest.R:1:1', 'test-focal_only_random.R:1:1',
'test-format.R:1:1', 'test-gamlss.R:1:1', 'test-gamm4.R:1:1',
'test-glmer.R:2:1', 'test-glmmTMB.R:1:1', 'test-interval_re.R:1:1',
'test-ivreg.R:1:1', 'test-list_terms.R:32:1', 'test-lmer.R:1:1',
'test-mgcv.R:1:1', 'test-plot-from-vignettes.R:5:1',
'test-plot-ordinal-latent.R:1:1', 'test-plot-show_data.R:1:1',
'test-plot-survival.R:2:1', 'test-plot.R:1:1', 'test-polr.R:13:5',
'test-polr.R:43:5', 'test-pool_comparisons.R:1:1', 'test-print.R:1:1',
'test-print_digits.R:1:1', 'test-print_md.R:1:1', 'test-print_subsets.R:4:1',
'test-print_subsets.R:9:1', 'test-print_test_predictions.R:18:1',
'test-print_test_predictions.R:22:1', 'test-print_test_predictions.R:27:1',
'test-print_test_predictions.R:60:1', 'test-print_test_predictions.R:72:1',
'test-print_test_predictions.R:82:1', 'test-print_test_predictions.R:99:1',
'test-print_zero_inflation.R:1:1', 'test-resid_over_grid.R:33:5',
'test-rstanarm-ppd.R:1:1', 'test-rstanarm.R:1:1', 'test-sdmTMB.R:1:1',
'test-simulate.R:1:1', 'test-test_predictions-margin.R:1:1',
'test-test_predictions-mixed.R:1:1', 'test-test_predictions_emmeans.R:58:1',
'test-test_predictions_emmeans.R:73:1',
'test-test_predictions_ggeffects.R:115:1',
'test-test_predictions_ggeffects.R:164:1',
'test-test_predictions_ggeffects.R:183:3',
'test-test_predictions_ggeffects.R:226:5', 'test-vcov.R:1:1',
'test-vglm.R:1:1', 'test-zeroinfl.R:27:3', 'test-zi_prob.R:1:1'
• empty test (2): 'test-polr.R:136:5', 'test-polr.R:142:5'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-poly-zeroinf.R:27:3'): ggpredict, glmmTMB ──────────────────────
Error in `exp(prdat.sim$cond)`: non-numeric argument to mathematical function
Backtrace:
▆
1. └─ggeffects::ggpredict(...) at test-poly-zeroinf.R:27:3
2. ├─base::do.call(ggpredict_helper, full_args)
3. └─ggeffects (local) `<fn>`(...)
4. ├─ggeffects::get_predictions(...)
5. └─ggeffects:::get_predictions.glmmTMB(...)
[ FAIL 1 | WARN 0 | SKIP 71 | PASS 565 ]
Error:
! Test failures.
Execution halted
Flavor: r-oldrel-windows-x86_64
Current CRAN status: WARN: 1, OK: 12
Version: 1.2.0
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'sjPlot', 'knitr', 'rmarkdown'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.2.0
Check: package vignettes
Result: NOTE
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Flavor: r-devel-linux-x86_64-debian-gcc
Current CRAN status: WARN: 1, OK: 12
Version: 2.8.11
Check: package dependencies
Result: WARN
Cannot process vignettes
Packages suggested but not available for checking:
'sjPlot', 'knitr', 'rmarkdown'
VignetteBuilder package required for checking but not installed: ‘knitr’
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.8.11
Check: package vignettes
Result: NOTE
Package has ‘vignettes’ subdirectory but apparently no vignettes.
Perhaps the ‘VignetteBuilder’ information is missing from the
DESCRIPTION file?
Flavor: r-devel-linux-x86_64-debian-gcc
Current CRAN status: ERROR: 1, OK: 12
Version: 2.9.0
Check: package dependencies
Result: ERROR
Package required but not available: ‘knitr’
Packages suggested but not available for checking: 'rmarkdown', 'rstanarm'
VignetteBuilder package required for checking but not installed: ‘knitr’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Flavor: r-devel-linux-x86_64-debian-gcc
Current CRAN status: OK: 13