Last updated on 2025-02-06 19:49:24 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2.1.0 | 12.87 | 242.49 | 255.36 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 2.2.0 | 8.70 | 145.11 | 153.81 | OK | |
| r-devel-linux-x86_64-fedora-clang | 2.2.0 | 427.39 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 2.2.0 | 413.56 | OK | |||
| r-devel-windows-x86_64 | 2.1.0 | 18.00 | 242.00 | 260.00 | ERROR | |
| r-patched-linux-x86_64 | 2.1.0 | 12.45 | 214.89 | 227.34 | ERROR | |
| r-release-linux-x86_64 | 2.1.0 | 13.46 | 214.36 | 227.82 | ERROR | |
| r-release-macos-arm64 | 2.1.0 | 63.00 | OK | |||
| r-release-macos-x86_64 | 2.2.0 | 214.00 | OK | |||
| r-release-windows-x86_64 | 2.2.0 | 19.00 | 241.00 | 260.00 | OK | |
| r-oldrel-macos-arm64 | 2.0.0 | 54.00 | OK | |||
| r-oldrel-macos-x86_64 | 2.0.0 | 119.00 | OK | |||
| r-oldrel-windows-x86_64 | 2.1.0 | 18.00 | 322.00 | 340.00 | ERROR |
Version: 2.1.0
Check: examples
Result: ERROR
Running examples in ‘ggeffects-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: pool_comparisons
> ### Title: Pool contrasts and comparisons from 'test_predictions()'
> ### Aliases: pool_comparisons
>
> ### ** Examples
>
> ## Don't show:
> if (require("mice")) (if (getRversion() >= "3.4") withAutoprint else force)({ # examplesIf
+ ## End(Don't show)
+ data("nhanes2", package = "mice")
+ imp <- mice::mice(nhanes2, printFlag = FALSE)
+ comparisons <- lapply(1:5, function(i) {
+ m <- lm(bmi ~ age + hyp + chl, data = mice::complete(imp, action = i))
+ test_predictions(m, "age")
+ })
+ pool_comparisons(comparisons)
+ ## Don't show:
+ }) # examplesIf
Loading required package: mice
Attaching package: ‘mice’
The following object is masked from ‘package:stats’:
filter
The following objects are masked from ‘package:base’:
cbind, rbind
> data("nhanes2", package = "mice")
> imp <- mice::mice(nhanes2, printFlag = FALSE)
> comparisons <- lapply(1:5, function(i) {
+ m <- lm(bmi ~ age + hyp + chl, data = mice::complete(imp, action = i))
+ test_predictions(m, "age")
+ })
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Execution halted
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
collapse_by_group 3.547 0.249 5.044
Flavor: r-devel-linux-x86_64-debian-clang
Version: 2.1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [145s/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
Data were 'prettified'. Consider using `terms="price [all]"` to get
smooth plots.
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
Could not compute variance-covariance matrix of predictions. No
confidence intervals are returned.
Model contains splines or polynomial terms. Consider using `terms="mined
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="cover
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="mined
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="cover
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
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 15 | WARN 0 | SKIP 74 | PASS 500 ]
══ Skipped tests (74) ══════════════════════════════════════════════════════════
• On CRAN (61): '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-johnson_neyman.R:1:1',
'test-johnson_neyman_numcat.R:1:1', 'test-list_terms.R:36:3',
'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:21:7',
'test-polr.R:60:7', '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-formula.R:1:1',
'test-test_predictions-margin.R:1:1', 'test-test_predictions-mixed.R:1:1',
'test-test_predictions_emmeans.R:133:3',
'test-test_predictions_emmeans.R:168:3',
'test-test_predictions_ggeffects.R:140:3',
'test-test_predictions_ggeffects.R:184:3',
'test-test_predictions_ggeffects.R:193:3',
'test-test_predictions_ggeffects.R:236:5', 'test-vcov.R:1:1',
'test-vglm.R:1:1', 'test-zeroinfl.R:27:3', 'test-zi_prob.R:1:1'
• On Linux (11): '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-parsnip.R:94:3',
'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-betareg.R:51:3'): ggpredict ────────────────────────────────────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(p) at test-betareg.R:51:3
2. └─ggeffects:::test_predictions.ggeffects(p)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:30:3'): test_predictions, categorical, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model1, c("groups", "episode")) at test-test_predictions.R:30:3
2. └─ggeffects:::test_predictions.default(model1, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:63:3'): test_predictions, categorical, pairwise, p_adjust ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model1, c("groups", "episode")) at test-test_predictions.R:63:3
2. └─ggeffects:::test_predictions.default(model1, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:107:3'): test_predictions, interaction ──────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model2, c("Sepal.Length", "Species")) at test-test_predictions.R:107:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me("slopes", fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects::comparisons(...)
7. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
8. └─checkmate::assert(...)
9. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
10. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:125:3'): test_predictions, by-argument ──────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(prfilter, by = "c161sex") at test-test_predictions.R:125:3
2. └─ggeffects:::test_predictions.ggeffects(prfilter, by = "c161sex")
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:155:3'): test_predictions, categorical, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model3, c("groups", "episode")) at test-test_predictions.R:155:3
2. └─ggeffects:::test_predictions.default(model3, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:221:3'): test_predictions, categorical, one focal, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "Sex") at test-test_predictions.R:221:3
2. └─ggeffects:::test_predictions.default(m, "Sex")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:244:3'): test_predictions, masked chars in levels ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model, c("groups", "sex")) at test-test_predictions.R:244:3
2. └─ggeffects:::test_predictions.default(model, c("groups", "sex"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:268:3'): test_predictions, don't drop single columns ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─testthat::expect_s3_class(...) at test-test_predictions.R:268:3
2. │ └─testthat::quasi_label(enquo(object), arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─ggeffects::test_predictions(m, c("Sepal.Width.factor", "Petal.Width [0.5]"))
5. └─ggeffects:::test_predictions.default(...)
6. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
7. ├─base::suppressMessages(...)
8. │ └─base::withCallingHandlers(...)
9. ├─base::suppressWarnings(...)
10. │ └─base::withCallingHandlers(...)
11. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
12. └─marginaleffects (local) `<fn>`(...)
13. └─marginaleffects::predictions(...)
14. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
15. └─checkmate::assert(...)
16. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
17. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:284:3'): test_predictions, make sure random effects group is categorical ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(ggpredict(m, c("Days", "grp"))) at test-test_predictions.R:284:3
2. └─ggeffects:::test_predictions.ggeffects(...)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me("slopes", fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::comparisons(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:307:3'): test_predictions, works with glmmTMB and w/o vcov ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(predictions, verbose = FALSE) at test-test_predictions.R:307:3
2. └─ggeffects:::test_predictions.ggeffects(predictions, verbose = FALSE)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::predictions(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:331:3'): test_predictions, correct order of character vectors ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(pr1) at test-test_predictions.R:331:3
2. └─ggeffects:::test_predictions.ggeffects(pr1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:350:3'): test_predictions, zero-inflated models ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(pr1) at test-test_predictions.R:350:3
2. └─ggeffects:::test_predictions.ggeffects(pr1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::predictions(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions_emmeans.R:18:3'): test_predictions, engine emmeans ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "c172code") at test-test_predictions_emmeans.R:18:3
2. └─ggeffects:::test_predictions.default(m, "c172code")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions_emmeans.R:80:3'): test_predictions, engine emmeans, glm binomial ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "var_binom", margin = "marginaleffects") at test-test_predictions_emmeans.R:80:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", margin = "marginaleffects")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
[ FAIL 15 | WARN 0 | SKIP 74 | PASS 500 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 2.1.0
Check: examples
Result: ERROR
Running examples in 'ggeffects-Ex.R' failed
The error most likely occurred in:
> ### Name: pool_comparisons
> ### Title: Pool contrasts and comparisons from 'test_predictions()'
> ### Aliases: pool_comparisons
>
> ### ** Examples
>
> ## Don't show:
> if (require("mice")) (if (getRversion() >= "3.4") withAutoprint else force)({ # examplesIf
+ ## End(Don't show)
+ data("nhanes2", package = "mice")
+ imp <- mice::mice(nhanes2, printFlag = FALSE)
+ comparisons <- lapply(1:5, function(i) {
+ m <- lm(bmi ~ age + hyp + chl, data = mice::complete(imp, action = i))
+ test_predictions(m, "age")
+ })
+ pool_comparisons(comparisons)
+ ## Don't show:
+ }) # examplesIf
Loading required package: mice
Attaching package: 'mice'
The following object is masked from 'package:stats':
filter
The following objects are masked from 'package:base':
cbind, rbind
> data("nhanes2", package = "mice")
> imp <- mice::mice(nhanes2, printFlag = FALSE)
> comparisons <- lapply(1:5, function(i) {
+ m <- lm(bmi ~ age + hyp + chl, data = mice::complete(imp, action = i))
+ test_predictions(m, "age")
+ })
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Execution halted
Flavors: r-devel-windows-x86_64, r-oldrel-windows-x86_64
Version: 2.1.0
Check: tests
Result: ERROR
Running 'testthat.R' [141s]
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
Data were 'prettified'. Consider using `terms="price [all]"` to get
smooth plots.
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
Could not compute variance-covariance matrix of predictions. No
confidence intervals are returned.
Model contains splines or polynomial terms. Consider using `terms="mined
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="cover
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="mined
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="cover
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
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 31 | WARN 0 | SKIP 70 | PASS 565 ]
══ Skipped tests (70) ══════════════════════════════════════════════════════════
• 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-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-johnson_neyman.R:1:1',
'test-johnson_neyman_numcat.R:1:1', 'test-list_terms.R:36:3',
'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:21:7',
'test-polr.R:60:7', '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:7:3',
'test-print_subsets.R:12:3', 'test-print_test_predictions.R:24:3',
'test-print_test_predictions.R:40:3', 'test-print_test_predictions.R:44:3',
'test-print_test_predictions.R:53:3', 'test-print_test_predictions.R:65:3',
'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-formula.R:1:1',
'test-test_predictions-margin.R:1:1', 'test-test_predictions-mixed.R:1:1',
'test-test_predictions_emmeans.R:133:3',
'test-test_predictions_emmeans.R:168:3',
'test-test_predictions_ggeffects.R:140:3',
'test-test_predictions_ggeffects.R:184:3',
'test-test_predictions_ggeffects.R:193:3',
'test-test_predictions_ggeffects.R:236:5', '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-betareg.R:51:3'): ggpredict ────────────────────────────────────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(p) at test-betareg.R:51:3
2. └─ggeffects:::test_predictions.ggeffects(p)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-brglm.R:23:3'): ggpredict brglm ───────────────────────────────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(out) at test-brglm.R:23:3
2. └─ggeffects:::test_predictions.ggeffects(out)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-ggaverage.R:25:3'): ggaverage works with condition ─────────────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(out1) at test-ggaverage.R:25:3
2. └─ggeffects:::test_predictions.ggeffects(out1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions-ordinal.R:13:3'): print hypothesis_test ordinal outcome ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─base::suppressMessages(...) at test-print_test_predictions-ordinal.R:13:3
2. │ └─base::withCallingHandlers(...)
3. ├─base::suppressWarnings(...)
4. │ └─base::withCallingHandlers(...)
5. ├─ggeffects::hypothesis_test(ggpredict(m_polr, "Type"), scale = "probs")
6. └─ggeffects:::test_predictions.ggeffects(...)
7. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
8. └─ggeffects (local) `<fn>`(...)
9. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
13. └─checkmate::assert(...)
14. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
15. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:19:3'): print hypothesis_test simple contrast link scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, "var_binom", scale = "link") at test-print_test_predictions.R:19:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", scale = "link")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:27:3'): print hypothesis_test simple contrast exp scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, "var_binom", scale = "exp") at test-print_test_predictions.R:27:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", scale = "exp")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:31:3'): print hypothesis_test simple contrast odds ratio scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, "var_binom", scale = "oddsratios") at test-print_test_predictions.R:31:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", scale = "oddsratios")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:35:3'): print hypothesis_test simple contrast response scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, "var_binom", scale = "response") at test-print_test_predictions.R:35:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", scale = "response")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:48:3'): print hypothesis_test contrasts link scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, c("var_binom", "var_cont"), scale = "link") at test-print_test_predictions.R:48:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:56:3'): print hypothesis_test contrasts exp scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, c("var_binom", "var_cont"), scale = "exp") at test-print_test_predictions.R:56:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:60:3'): print hypothesis_test contrasts response scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, c("var_binom", "var_cont"), scale = "response") at test-print_test_predictions.R:60:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:74:3'): print hypothesis_test many rows ──
Error in `.tp_label_hypothesis_categorical(.comparisons, need_average_predictions = need_average_predictions,
margin = margin, object = object, by_variables = by_variables,
datagrid = datagrid, df = df, ci_level = ci_level, dot_args = dot_args,
include_random = include_random, focal = focal, test = test)`: object 'hypothesis_label' not found
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-print_test_predictions.R:74:3
2. │ └─base::withCallingHandlers(...)
3. ├─ggeffects::hypothesis_test(...)
4. └─ggeffects:::test_predictions.default(...)
5. └─ggeffects:::.tp_label_hypothesis_categorical(...)
── Error ('test-print_test_predictions.R:170:3'): print hypothesis_test comma and dash levels ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, c("f1", "f2")) at test-print_test_predictions.R:170:3
2. └─ggeffects:::test_predictions.default(m, c("f1", "f2"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:230:3'): print hypothesis_test collapse levels ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, c("c172code", "c161sex"), collapse_levels = TRUE) at test-print_test_predictions.R:230:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:238:3'): hypothesis_test, ci-level ────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, "Species") at test-print_test_predictions.R:238:3
2. └─ggeffects:::test_predictions.default(m, "Species")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:256:3'): glmmTMB, orderedbeta ─────────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. └─testthat::expect_snapshot(print(test_predictions(out2))) at test-print_test_predictions.R:256:3
2. └─rlang::cnd_signal(state$error)
── Error ('test-print_test_predictions.R:268:5'): print hypothesis_test collapse CI ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(pr) at test-print_test_predictions.R:268:5
2. └─ggeffects:::test_predictions.ggeffects(pr)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:30:3'): test_predictions, categorical, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model1, c("groups", "episode")) at test-test_predictions.R:30:3
2. └─ggeffects:::test_predictions.default(model1, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:63:3'): test_predictions, categorical, pairwise, p_adjust ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model1, c("groups", "episode")) at test-test_predictions.R:63:3
2. └─ggeffects:::test_predictions.default(model1, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:107:3'): test_predictions, interaction ──────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model2, c("Sepal.Length", "Species")) at test-test_predictions.R:107:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me("slopes", fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects::comparisons(...)
7. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
8. └─checkmate::assert(...)
9. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
10. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:125:3'): test_predictions, by-argument ──────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(prfilter, by = "c161sex") at test-test_predictions.R:125:3
2. └─ggeffects:::test_predictions.ggeffects(prfilter, by = "c161sex")
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:155:3'): test_predictions, categorical, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model3, c("groups", "episode")) at test-test_predictions.R:155:3
2. └─ggeffects:::test_predictions.default(model3, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:221:3'): test_predictions, categorical, one focal, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "Sex") at test-test_predictions.R:221:3
2. └─ggeffects:::test_predictions.default(m, "Sex")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:244:3'): test_predictions, masked chars in levels ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model, c("groups", "sex")) at test-test_predictions.R:244:3
2. └─ggeffects:::test_predictions.default(model, c("groups", "sex"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:268:3'): test_predictions, don't drop single columns ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─testthat::expect_s3_class(...) at test-test_predictions.R:268:3
2. │ └─testthat::quasi_label(enquo(object), arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─ggeffects::test_predictions(m, c("Sepal.Width.factor", "Petal.Width [0.5]"))
5. └─ggeffects:::test_predictions.default(...)
6. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
7. ├─base::suppressMessages(...)
8. │ └─base::withCallingHandlers(...)
9. ├─base::suppressWarnings(...)
10. │ └─base::withCallingHandlers(...)
11. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
12. └─marginaleffects (local) `<fn>`(...)
13. └─marginaleffects::predictions(...)
14. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
15. └─checkmate::assert(...)
16. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
17. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:284:3'): test_predictions, make sure random effects group is categorical ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(ggpredict(m, c("Days", "grp"))) at test-test_predictions.R:284:3
2. └─ggeffects:::test_predictions.ggeffects(...)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me("slopes", fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::comparisons(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:307:3'): test_predictions, works with glmmTMB and w/o vcov ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(predictions, verbose = FALSE) at test-test_predictions.R:307:3
2. └─ggeffects:::test_predictions.ggeffects(predictions, verbose = FALSE)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::predictions(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:331:3'): test_predictions, correct order of character vectors ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(pr1) at test-test_predictions.R:331:3
2. └─ggeffects:::test_predictions.ggeffects(pr1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:350:3'): test_predictions, zero-inflated models ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(pr1) at test-test_predictions.R:350:3
2. └─ggeffects:::test_predictions.ggeffects(pr1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::predictions(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions_emmeans.R:18:3'): test_predictions, engine emmeans ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "c172code") at test-test_predictions_emmeans.R:18:3
2. └─ggeffects:::test_predictions.default(m, "c172code")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions_emmeans.R:80:3'): test_predictions, engine emmeans, glm binomial ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "var_binom", margin = "marginaleffects") at test-test_predictions_emmeans.R:80:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", margin = "marginaleffects")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
[ FAIL 31 | WARN 0 | SKIP 70 | PASS 565 ]
Error: Test failures
Execution halted
Flavor: r-devel-windows-x86_64
Version: 2.1.0
Check: examples
Result: ERROR
Running examples in ‘ggeffects-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: pool_comparisons
> ### Title: Pool contrasts and comparisons from 'test_predictions()'
> ### Aliases: pool_comparisons
>
> ### ** Examples
>
> ## Don't show:
> if (require("mice")) (if (getRversion() >= "3.4") withAutoprint else force)({ # examplesIf
+ ## End(Don't show)
+ data("nhanes2", package = "mice")
+ imp <- mice::mice(nhanes2, printFlag = FALSE)
+ comparisons <- lapply(1:5, function(i) {
+ m <- lm(bmi ~ age + hyp + chl, data = mice::complete(imp, action = i))
+ test_predictions(m, "age")
+ })
+ pool_comparisons(comparisons)
+ ## Don't show:
+ }) # examplesIf
Loading required package: mice
Attaching package: ‘mice’
The following object is masked from ‘package:stats’:
filter
The following objects are masked from ‘package:base’:
cbind, rbind
> data("nhanes2", package = "mice")
> imp <- mice::mice(nhanes2, printFlag = FALSE)
> comparisons <- lapply(1:5, function(i) {
+ m <- lm(bmi ~ age + hyp + chl, data = mice::complete(imp, action = i))
+ test_predictions(m, "age")
+ })
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Execution halted
Flavors: r-patched-linux-x86_64, r-release-linux-x86_64
Version: 2.1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [127s/155s]
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
Data were 'prettified'. Consider using `terms="price [all]"` to get
smooth plots.
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
Model contains splines or polynomial terms. Consider using `terms="mined
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="cover
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="mined
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="cover
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
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 15 | WARN 0 | SKIP 74 | PASS 500 ]
══ Skipped tests (74) ══════════════════════════════════════════════════════════
• On CRAN (61): '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-johnson_neyman.R:1:1',
'test-johnson_neyman_numcat.R:1:1', 'test-list_terms.R:36:3',
'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:21:7',
'test-polr.R:60:7', '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-formula.R:1:1',
'test-test_predictions-margin.R:1:1', 'test-test_predictions-mixed.R:1:1',
'test-test_predictions_emmeans.R:133:3',
'test-test_predictions_emmeans.R:168:3',
'test-test_predictions_ggeffects.R:140:3',
'test-test_predictions_ggeffects.R:184:3',
'test-test_predictions_ggeffects.R:193:3',
'test-test_predictions_ggeffects.R:236:5', 'test-vcov.R:1:1',
'test-vglm.R:1:1', 'test-zeroinfl.R:27:3', 'test-zi_prob.R:1:1'
• On Linux (11): '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-parsnip.R:94:3',
'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-betareg.R:51:3'): ggpredict ────────────────────────────────────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(p) at test-betareg.R:51:3
2. └─ggeffects:::test_predictions.ggeffects(p)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:30:3'): test_predictions, categorical, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model1, c("groups", "episode")) at test-test_predictions.R:30:3
2. └─ggeffects:::test_predictions.default(model1, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:63:3'): test_predictions, categorical, pairwise, p_adjust ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model1, c("groups", "episode")) at test-test_predictions.R:63:3
2. └─ggeffects:::test_predictions.default(model1, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:107:3'): test_predictions, interaction ──────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model2, c("Sepal.Length", "Species")) at test-test_predictions.R:107:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me("slopes", fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects::comparisons(...)
7. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
8. └─checkmate::assert(...)
9. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
10. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:125:3'): test_predictions, by-argument ──────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(prfilter, by = "c161sex") at test-test_predictions.R:125:3
2. └─ggeffects:::test_predictions.ggeffects(prfilter, by = "c161sex")
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:155:3'): test_predictions, categorical, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model3, c("groups", "episode")) at test-test_predictions.R:155:3
2. └─ggeffects:::test_predictions.default(model3, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:221:3'): test_predictions, categorical, one focal, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "Sex") at test-test_predictions.R:221:3
2. └─ggeffects:::test_predictions.default(m, "Sex")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:244:3'): test_predictions, masked chars in levels ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model, c("groups", "sex")) at test-test_predictions.R:244:3
2. └─ggeffects:::test_predictions.default(model, c("groups", "sex"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:268:3'): test_predictions, don't drop single columns ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─testthat::expect_s3_class(...) at test-test_predictions.R:268:3
2. │ └─testthat::quasi_label(enquo(object), arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─ggeffects::test_predictions(m, c("Sepal.Width.factor", "Petal.Width [0.5]"))
5. └─ggeffects:::test_predictions.default(...)
6. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
7. ├─base::suppressMessages(...)
8. │ └─base::withCallingHandlers(...)
9. ├─base::suppressWarnings(...)
10. │ └─base::withCallingHandlers(...)
11. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
12. └─marginaleffects (local) `<fn>`(...)
13. └─marginaleffects::predictions(...)
14. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
15. └─checkmate::assert(...)
16. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
17. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:284:3'): test_predictions, make sure random effects group is categorical ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(ggpredict(m, c("Days", "grp"))) at test-test_predictions.R:284:3
2. └─ggeffects:::test_predictions.ggeffects(...)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me("slopes", fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::comparisons(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:307:3'): test_predictions, works with glmmTMB and w/o vcov ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(predictions, verbose = FALSE) at test-test_predictions.R:307:3
2. └─ggeffects:::test_predictions.ggeffects(predictions, verbose = FALSE)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::predictions(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:331:3'): test_predictions, correct order of character vectors ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(pr1) at test-test_predictions.R:331:3
2. └─ggeffects:::test_predictions.ggeffects(pr1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:350:3'): test_predictions, zero-inflated models ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(pr1) at test-test_predictions.R:350:3
2. └─ggeffects:::test_predictions.ggeffects(pr1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::predictions(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions_emmeans.R:18:3'): test_predictions, engine emmeans ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "c172code") at test-test_predictions_emmeans.R:18:3
2. └─ggeffects:::test_predictions.default(m, "c172code")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions_emmeans.R:80:3'): test_predictions, engine emmeans, glm binomial ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "var_binom", margin = "marginaleffects") at test-test_predictions_emmeans.R:80:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", margin = "marginaleffects")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
[ FAIL 15 | WARN 0 | SKIP 74 | PASS 500 ]
Error: Test failures
Execution halted
Flavor: r-patched-linux-x86_64
Version: 2.1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [130s/174s]
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
Data were 'prettified'. Consider using `terms="price [all]"` to get
smooth plots.
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
Model contains splines or polynomial terms. Consider using `terms="mined
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="cover
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="mined
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="cover
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
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 15 | WARN 0 | SKIP 74 | PASS 500 ]
══ Skipped tests (74) ══════════════════════════════════════════════════════════
• On CRAN (61): '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-johnson_neyman.R:1:1',
'test-johnson_neyman_numcat.R:1:1', 'test-list_terms.R:36:3',
'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:21:7',
'test-polr.R:60:7', '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-formula.R:1:1',
'test-test_predictions-margin.R:1:1', 'test-test_predictions-mixed.R:1:1',
'test-test_predictions_emmeans.R:133:3',
'test-test_predictions_emmeans.R:168:3',
'test-test_predictions_ggeffects.R:140:3',
'test-test_predictions_ggeffects.R:184:3',
'test-test_predictions_ggeffects.R:193:3',
'test-test_predictions_ggeffects.R:236:5', 'test-vcov.R:1:1',
'test-vglm.R:1:1', 'test-zeroinfl.R:27:3', 'test-zi_prob.R:1:1'
• On Linux (11): '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-parsnip.R:94:3',
'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-betareg.R:51:3'): ggpredict ────────────────────────────────────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(p) at test-betareg.R:51:3
2. └─ggeffects:::test_predictions.ggeffects(p)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:30:3'): test_predictions, categorical, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model1, c("groups", "episode")) at test-test_predictions.R:30:3
2. └─ggeffects:::test_predictions.default(model1, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:63:3'): test_predictions, categorical, pairwise, p_adjust ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model1, c("groups", "episode")) at test-test_predictions.R:63:3
2. └─ggeffects:::test_predictions.default(model1, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:107:3'): test_predictions, interaction ──────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model2, c("Sepal.Length", "Species")) at test-test_predictions.R:107:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me("slopes", fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects::comparisons(...)
7. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
8. └─checkmate::assert(...)
9. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
10. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:125:3'): test_predictions, by-argument ──────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(prfilter, by = "c161sex") at test-test_predictions.R:125:3
2. └─ggeffects:::test_predictions.ggeffects(prfilter, by = "c161sex")
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:155:3'): test_predictions, categorical, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model3, c("groups", "episode")) at test-test_predictions.R:155:3
2. └─ggeffects:::test_predictions.default(model3, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:221:3'): test_predictions, categorical, one focal, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "Sex") at test-test_predictions.R:221:3
2. └─ggeffects:::test_predictions.default(m, "Sex")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:244:3'): test_predictions, masked chars in levels ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model, c("groups", "sex")) at test-test_predictions.R:244:3
2. └─ggeffects:::test_predictions.default(model, c("groups", "sex"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:268:3'): test_predictions, don't drop single columns ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─testthat::expect_s3_class(...) at test-test_predictions.R:268:3
2. │ └─testthat::quasi_label(enquo(object), arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─ggeffects::test_predictions(m, c("Sepal.Width.factor", "Petal.Width [0.5]"))
5. └─ggeffects:::test_predictions.default(...)
6. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
7. ├─base::suppressMessages(...)
8. │ └─base::withCallingHandlers(...)
9. ├─base::suppressWarnings(...)
10. │ └─base::withCallingHandlers(...)
11. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
12. └─marginaleffects (local) `<fn>`(...)
13. └─marginaleffects::predictions(...)
14. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
15. └─checkmate::assert(...)
16. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
17. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:284:3'): test_predictions, make sure random effects group is categorical ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(ggpredict(m, c("Days", "grp"))) at test-test_predictions.R:284:3
2. └─ggeffects:::test_predictions.ggeffects(...)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me("slopes", fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::comparisons(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:307:3'): test_predictions, works with glmmTMB and w/o vcov ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(predictions, verbose = FALSE) at test-test_predictions.R:307:3
2. └─ggeffects:::test_predictions.ggeffects(predictions, verbose = FALSE)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::predictions(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:331:3'): test_predictions, correct order of character vectors ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(pr1) at test-test_predictions.R:331:3
2. └─ggeffects:::test_predictions.ggeffects(pr1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:350:3'): test_predictions, zero-inflated models ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(pr1) at test-test_predictions.R:350:3
2. └─ggeffects:::test_predictions.ggeffects(pr1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::predictions(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions_emmeans.R:18:3'): test_predictions, engine emmeans ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "c172code") at test-test_predictions_emmeans.R:18:3
2. └─ggeffects:::test_predictions.default(m, "c172code")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions_emmeans.R:80:3'): test_predictions, engine emmeans, glm binomial ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "var_binom", margin = "marginaleffects") at test-test_predictions_emmeans.R:80:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", margin = "marginaleffects")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
[ FAIL 15 | WARN 0 | SKIP 74 | PASS 500 ]
Error: Test failures
Execution halted
Flavor: r-release-linux-x86_64
Version: 2.1.0
Check: tests
Result: ERROR
Running 'testthat.R' [194s]
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
Data were 'prettified'. Consider using `terms="price [all]"` to get
smooth plots.
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
Model contains splines or polynomial terms. Consider using `terms="mined
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="cover
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="mined
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
Model contains splines or polynomial terms. Consider using `terms="cover
[all]"` to get smooth plots. See also package-vignette 'Adjusted
Predictions at Specific Values'.
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 31 | WARN 0 | SKIP 70 | PASS 565 ]
══ Skipped tests (70) ══════════════════════════════════════════════════════════
• 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-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-johnson_neyman.R:1:1',
'test-johnson_neyman_numcat.R:1:1', 'test-list_terms.R:36:3',
'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:21:7',
'test-polr.R:60:7', '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:7:3',
'test-print_subsets.R:12:3', 'test-print_test_predictions.R:24:3',
'test-print_test_predictions.R:40:3', 'test-print_test_predictions.R:44:3',
'test-print_test_predictions.R:53:3', 'test-print_test_predictions.R:65:3',
'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-formula.R:1:1',
'test-test_predictions-margin.R:1:1', 'test-test_predictions-mixed.R:1:1',
'test-test_predictions_emmeans.R:133:3',
'test-test_predictions_emmeans.R:168:3',
'test-test_predictions_ggeffects.R:140:3',
'test-test_predictions_ggeffects.R:184:3',
'test-test_predictions_ggeffects.R:193:3',
'test-test_predictions_ggeffects.R:236:5', '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-betareg.R:51:3'): ggpredict ────────────────────────────────────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(p) at test-betareg.R:51:3
2. └─ggeffects:::test_predictions.ggeffects(p)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-brglm.R:23:3'): ggpredict brglm ───────────────────────────────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(out) at test-brglm.R:23:3
2. └─ggeffects:::test_predictions.ggeffects(out)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-ggaverage.R:25:3'): ggaverage works with condition ─────────────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(out1) at test-ggaverage.R:25:3
2. └─ggeffects:::test_predictions.ggeffects(out1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions-ordinal.R:13:3'): print hypothesis_test ordinal outcome ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─base::suppressMessages(...) at test-print_test_predictions-ordinal.R:13:3
2. │ └─base::withCallingHandlers(...)
3. ├─base::suppressWarnings(...)
4. │ └─base::withCallingHandlers(...)
5. ├─ggeffects::hypothesis_test(ggpredict(m_polr, "Type"), scale = "probs")
6. └─ggeffects:::test_predictions.ggeffects(...)
7. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
8. └─ggeffects (local) `<fn>`(...)
9. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
13. └─checkmate::assert(...)
14. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
15. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:19:3'): print hypothesis_test simple contrast link scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, "var_binom", scale = "link") at test-print_test_predictions.R:19:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", scale = "link")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:27:3'): print hypothesis_test simple contrast exp scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, "var_binom", scale = "exp") at test-print_test_predictions.R:27:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", scale = "exp")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:31:3'): print hypothesis_test simple contrast odds ratio scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, "var_binom", scale = "oddsratios") at test-print_test_predictions.R:31:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", scale = "oddsratios")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:35:3'): print hypothesis_test simple contrast response scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, "var_binom", scale = "response") at test-print_test_predictions.R:35:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", scale = "response")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:48:3'): print hypothesis_test contrasts link scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, c("var_binom", "var_cont"), scale = "link") at test-print_test_predictions.R:48:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:56:3'): print hypothesis_test contrasts exp scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, c("var_binom", "var_cont"), scale = "exp") at test-print_test_predictions.R:56:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:60:3'): print hypothesis_test contrasts response scale ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, c("var_binom", "var_cont"), scale = "response") at test-print_test_predictions.R:60:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:74:3'): print hypothesis_test many rows ──
Error in `.tp_label_hypothesis_categorical(.comparisons, need_average_predictions = need_average_predictions,
margin = margin, object = object, by_variables = by_variables,
datagrid = datagrid, df = df, ci_level = ci_level, dot_args = dot_args,
include_random = include_random, focal = focal, test = test)`: object 'hypothesis_label' not found
Backtrace:
▆
1. ├─base::suppressWarnings(...) at test-print_test_predictions.R:74:3
2. │ └─base::withCallingHandlers(...)
3. ├─ggeffects::hypothesis_test(...)
4. └─ggeffects:::test_predictions.default(...)
5. └─ggeffects:::.tp_label_hypothesis_categorical(...)
── Error ('test-print_test_predictions.R:170:3'): print hypothesis_test comma and dash levels ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, c("f1", "f2")) at test-print_test_predictions.R:170:3
2. └─ggeffects:::test_predictions.default(m, c("f1", "f2"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:230:3'): print hypothesis_test collapse levels ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, c("c172code", "c161sex"), collapse_levels = TRUE) at test-print_test_predictions.R:230:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:238:3'): hypothesis_test, ci-level ────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(m, "Species") at test-print_test_predictions.R:238:3
2. └─ggeffects:::test_predictions.default(m, "Species")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-print_test_predictions.R:256:3'): glmmTMB, orderedbeta ─────────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. └─testthat::expect_snapshot(print(test_predictions(out2))) at test-print_test_predictions.R:256:3
2. └─rlang::cnd_signal(state$error)
── Error ('test-print_test_predictions.R:268:5'): print hypothesis_test collapse CI ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::hypothesis_test(pr) at test-print_test_predictions.R:268:5
2. └─ggeffects:::test_predictions.ggeffects(pr)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:30:3'): test_predictions, categorical, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model1, c("groups", "episode")) at test-test_predictions.R:30:3
2. └─ggeffects:::test_predictions.default(model1, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:63:3'): test_predictions, categorical, pairwise, p_adjust ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model1, c("groups", "episode")) at test-test_predictions.R:63:3
2. └─ggeffects:::test_predictions.default(model1, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:107:3'): test_predictions, interaction ──────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model2, c("Sepal.Length", "Species")) at test-test_predictions.R:107:3
2. └─ggeffects:::test_predictions.default(...)
3. └─ggeffects:::.call_me("slopes", fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects::comparisons(...)
7. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
8. └─checkmate::assert(...)
9. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
10. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:125:3'): test_predictions, by-argument ──────
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(prfilter, by = "c161sex") at test-test_predictions.R:125:3
2. └─ggeffects:::test_predictions.ggeffects(prfilter, by = "c161sex")
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:155:3'): test_predictions, categorical, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model3, c("groups", "episode")) at test-test_predictions.R:155:3
2. └─ggeffects:::test_predictions.default(model3, c("groups", "episode"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:221:3'): test_predictions, categorical, one focal, pairwise ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "Sex") at test-test_predictions.R:221:3
2. └─ggeffects:::test_predictions.default(m, "Sex")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:244:3'): test_predictions, masked chars in levels ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(model, c("groups", "sex")) at test-test_predictions.R:244:3
2. └─ggeffects:::test_predictions.default(model, c("groups", "sex"))
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
9. └─marginaleffects (local) `<fn>`(...)
10. └─marginaleffects::predictions(...)
11. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
12. └─checkmate::assert(...)
13. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
14. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:268:3'): test_predictions, don't drop single columns ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─testthat::expect_s3_class(...) at test-test_predictions.R:268:3
2. │ └─testthat::quasi_label(enquo(object), arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. ├─ggeffects::test_predictions(m, c("Sepal.Width.factor", "Petal.Width [0.5]"))
5. └─ggeffects:::test_predictions.default(...)
6. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
7. ├─base::suppressMessages(...)
8. │ └─base::withCallingHandlers(...)
9. ├─base::suppressWarnings(...)
10. │ └─base::withCallingHandlers(...)
11. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
12. └─marginaleffects (local) `<fn>`(...)
13. └─marginaleffects::predictions(...)
14. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
15. └─checkmate::assert(...)
16. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
17. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:284:3'): test_predictions, make sure random effects group is categorical ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(ggpredict(m, c("Days", "grp"))) at test-test_predictions.R:284:3
2. └─ggeffects:::test_predictions.ggeffects(...)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me("slopes", fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::comparisons(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:307:3'): test_predictions, works with glmmTMB and w/o vcov ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(predictions, verbose = FALSE) at test-test_predictions.R:307:3
2. └─ggeffects:::test_predictions.ggeffects(predictions, verbose = FALSE)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::predictions(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:331:3'): test_predictions, correct order of character vectors ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(pr1) at test-test_predictions.R:331:3
2. └─ggeffects:::test_predictions.ggeffects(pr1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
7. └─marginaleffects (local) `<fn>`(...)
8. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
9. └─checkmate::assert(...)
10. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
11. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions.R:350:3'): test_predictions, zero-inflated models ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(pr1) at test-test_predictions.R:350:3
2. └─ggeffects:::test_predictions.ggeffects(pr1)
3. ├─base::do.call(test_predictions.default, c(my_args, dot_args))
4. └─ggeffects (local) `<fn>`(...)
5. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
6. ├─base::suppressMessages(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::suppressWarnings(...)
9. │ └─base::withCallingHandlers(...)
10. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
11. └─marginaleffects (local) `<fn>`(...)
12. └─marginaleffects::predictions(...)
13. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
14. └─checkmate::assert(...)
15. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
16. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions_emmeans.R:18:3'): test_predictions, engine emmeans ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "c172code") at test-test_predictions_emmeans.R:18:3
2. └─ggeffects:::test_predictions.default(m, "c172code")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
── Error ('test-test_predictions_emmeans.R:80:3'): test_predictions, engine emmeans, glm binomial ──
Error: Assertion failed. One of the following must apply:
* checkmate::check_character(hypothesis): Must comply to pattern '='
* checkmate::check_numeric(hypothesis): Must be of type 'numeric', not
* 'character'
* checkmate::check_formula(hypothesis): Must be a formula, not
* character
* checkmate::check_matrix(hypothesis): Must be of type 'matrix', not
* 'character'
* checkmate::check_function(hypothesis): Must be a function, not
* 'character'
* checkmate::check_null(hypothesis): Must be NULL
Backtrace:
▆
1. ├─ggeffects::test_predictions(m, "var_binom", margin = "marginaleffects") at test-test_predictions_emmeans.R:80:3
2. └─ggeffects:::test_predictions.default(m, "var_binom", margin = "marginaleffects")
3. └─ggeffects:::.call_me(fun, fun_args, dot_args, include_random)
4. ├─base::do.call(get(fun, asNamespace("marginaleffects")), all_args)
5. └─marginaleffects (local) `<fn>`(...)
6. └─marginaleffects:::sanitize_hypothesis(hypothesis, ...)
7. └─checkmate::assert(...)
8. └─checkmate:::mstopOrPush(res = msgs, v_name = .var.name, collection = add)
9. └─checkmate:::mstop("Assertion failed. %s", res)
[ FAIL 31 | WARN 0 | SKIP 70 | PASS 565 ]
Error: Test failures
Execution halted
Flavor: r-oldrel-windows-x86_64