Last updated on 2025-11-14 01:51:53 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.0.4.5 | 41.40 | 618.16 | 659.56 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.0.4.5 | 30.27 | 348.88 | 379.15 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.0.4.5 | 97.00 | 906.28 | 1003.28 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 0.0.4.5 | 187.00 | 825.07 | 1012.07 | ERROR | |
| r-devel-windows-x86_64 | 0.0.4.5 | 45.00 | 565.00 | 610.00 | OK | |
| r-patched-linux-x86_64 | 0.0.4.5 | 40.98 | 530.21 | 571.19 | OK | |
| r-release-linux-x86_64 | 0.0.4.5 | 41.41 | 528.07 | 569.48 | OK | |
| r-release-macos-arm64 | 0.0.4.5 | 22.00 | 194.00 | 216.00 | OK | |
| r-release-macos-x86_64 | 0.0.4.5 | 39.00 | 605.00 | 644.00 | OK | |
| r-release-windows-x86_64 | 0.0.4.5 | 44.00 | 647.00 | 691.00 | OK | |
| r-oldrel-macos-arm64 | 0.0.4.5 | 23.00 | 217.00 | 240.00 | OK | |
| r-oldrel-macos-x86_64 | 0.0.4.5 | 39.00 | 557.00 | 596.00 | OK | |
| r-oldrel-windows-x86_64 | 0.0.4.5 | 62.00 | 730.00 | 792.00 | OK |
Version: 0.0.4.5
Check: tests
Result: ERROR
Running ‘testthat.R’ [8m/19m]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(TrialEmulation)
>
> data.table::setDTthreads(2)
> test_check("TrialEmulation")
Starting data manipulation
Starting data extension
Summary of extended data:
Number of observations: 1939053
------------------------------------------------------------
Saving _problems/test-data_preparation-18.R
Starting data manipulation
P(treatment = 1 | previous treatment = 0) for denominator
Call:
glm(formula = treatment ~ 1, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -3.84325 0.04785 -80.31 <2e-16 ***
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 4329.7 on 21263 degrees of freedom
Residual deviance: 4329.7 on 21263 degrees of freedom
AIC: 4331.7
Number of Fisher Scoring iterations: 6
P(treatment = 1 | previous treatment = 0) for numerator
Call:
glm(formula = treatment ~ 1, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -3.84325 0.04785 -80.31 <2e-16 ***
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 4329.7 on 21263 degrees of freedom
Residual deviance: 4329.7 on 21263 degrees of freedom
AIC: 4331.7
Number of Fisher Scoring iterations: 6
P(treatment = 1 | previous treatment = 1) for denominator
Call:
glm(formula = treatment ~ 1, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 4.37616 0.06815 64.21 <2e-16 ***
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 2346.7 on 17555 degrees of freedom
Residual deviance: 2346.7 on 17555 degrees of freedom
AIC: 2348.7
Number of Fisher Scoring iterations: 7
P(treatment = 1 | previous treatment = 1) for numerator
Call:
glm(formula = treatment ~ 1, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 4.37616 0.06815 64.21 <2e-16 ***
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 2346.7 on 17555 degrees of freedom
Residual deviance: 2346.7 on 17555 degrees of freedom
AIC: 2348.7
Number of Fisher Scoring iterations: 7
Starting data extension
Summary of extended data:
Number of observations: 963883
------------------------------------------------------------
Saving _problems/test-data_preparation-126.R
Starting data manipulation
P(treatment = 1 | previous treatment = 0) for denominator
Call:
glm(formula = treatment ~ 1, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -3.32517 0.03599 -92.4 <2e-16 ***
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 6948.7 on 23042 degrees of freedom
Residual deviance: 6948.7 on 23042 degrees of freedom
AIC: 6950.7
Number of Fisher Scoring iterations: 6
P(treatment = 1 | previous treatment = 0) for numerator
Call:
glm(formula = treatment ~ 1, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -3.32517 0.03599 -92.4 <2e-16 ***
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 6948.7 on 23042 degrees of freedom
Residual deviance: 6948.7 on 23042 degrees of freedom
AIC: 6950.7
Number of Fisher Scoring iterations: 6
P(treatment = 1 | previous treatment = 1) for denominator
Call:
glm(formula = treatment ~ 1, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 3.9124 0.0453 86.37 <2e-16 ***
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 4892.8 on 25356 degrees of freedom
Residual deviance: 4892.8 on 25356 degrees of freedom
AIC: 4894.8
Number of Fisher Scoring iterations: 6
P(treatment = 1 | previous treatment = 1) for numerator
Call:
glm(formula = treatment ~ 1, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 3.9124 0.0453 86.37 <2e-16 ***
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 4892.8 on 25356 degrees of freedom
Residual deviance: 4892.8 on 25356 degrees of freedom
AIC: 4894.8
Number of Fisher Scoring iterations: 6
Starting data extension
Summary of extended data:
Number of observations: 1939053
------------------------------------------------------------
Saving _problems/test-data_preparation-149.R
Saving _problems/test-data_preparation-175.R
Starting data manipulation
P(treatment = 1 | previous treatment = 0) for denominator
Call:
glm(formula = treatment ~ age_s + x4 + x2 + x1, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) -0.13699 0.25792 -0.531 0.5953
age_s -0.04014 0.19890 -0.202 0.8401
x4 1.09583 0.21355 5.131 2.88e-07 ***
x2 0.09687 0.19430 0.499 0.6181
x1 0.61385 0.36325 1.690 0.0911 .
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 232.27 on 169 degrees of freedom
Residual deviance: 185.41 on 165 degrees of freedom
AIC: 195.41
Number of Fisher Scoring iterations: 4
P(treatment = 1 | previous treatment = 0) for numerator
Call:
glm(formula = treatment ~ age_s + x4, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 0.12031 0.20308 0.592 0.554
age_s 0.01215 0.19512 0.062 0.950
x4 1.10863 0.21415 5.177 2.26e-07 ***
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 232.27 on 169 degrees of freedom
Residual deviance: 188.62 on 167 degrees of freedom
AIC: 194.62
Number of Fisher Scoring iterations: 4
P(treatment = 1 | previous treatment = 1) for denominator
Call:
glm(formula = treatment ~ age_s + x4 + x2 + x1, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 0.6783 0.2797 2.425 0.015318 *
age_s -0.1924 0.2115 -0.910 0.362887
x4 0.8536 0.2218 3.849 0.000119 ***
x2 0.3246 0.1963 1.653 0.098252 .
x1 0.7923 0.4914 1.612 0.106867
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 188.83 on 150 degrees of freedom
Residual deviance: 164.85 on 146 degrees of freedom
AIC: 174.85
Number of Fisher Scoring iterations: 4
P(treatment = 1 | previous treatment = 1) for numerator
Call:
glm(formula = treatment ~ age_s + x4, family = binomial(link = "logit"),
data = data)
Coefficients:
Estimate Std. Error z value Pr(>|z|)
(Intercept) 0.7476 0.2520 2.967 0.003011 **
age_s -0.1686 0.2081 -0.810 0.417888
x4 0.7935 0.2163 3.669 0.000244 ***
---
Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
(Dispersion parameter for binomial family taken to be 1)
Null deviance: 188.83 on 150 degrees of freedom
Residual deviance: 170.78 on 148 degrees of freedom
AIC: 176.78
Number of Fisher Scoring iterations: 4
Starting data extension
Summary of extended data:
Number of observations: 500
------------------------------------------------------------
[ FAIL 4 | WARN 0 | SKIP 33 | PASS 458 ]
══ Skipped tests (33) ══════════════════════════════════════════════════════════
• On CRAN (33): 'test-data_utils.R:1:1', 'test-data_utils.R:100:1',
'test-data_utils.R:115:1', 'test-generics.R:1:1', 'test-generics.R:41:1',
'test-generics.R:72:1', 'test-modelling.R:99:3', 'test-modelling.R:154:3',
'test-modelling.R:175:3', 'test-modelling.R:205:3', 'test-modelling.R:229:3',
'test-modelling.R:266:3', 'test-modelling.R:290:3', 'test-modelling.R:314:3',
'test-modelling.R:357:3', 'test-modelling.R:378:1', 'test-predict.R:1:1',
'test-predict.R:34:1', 'test-predict.R:86:1', 'test-predict.R:140:1',
'test-sampling.R:1:1', 'test-sampling.R:11:1', 'test-sampling.R:18:1',
'test-sampling.R:40:1', 'test-sampling.R:70:1', 'test-sampling.R:89:1',
'test-sampling.R:180:3', 'test-te_weights.R:1:1', 'test-te_weights.R:44:1',
'test-trial_sequence.R:40:1', 'test-trial_sequence.R:44:1',
'test-trial_sequence.R:48:1', 'test-trial_sequence.R:52:1'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-data_preparation.R:18:3'): data_preparation works as expected ──
Error in `expect(nrow(result$data), result$N)`: `ok` must be `TRUE` or `FALSE`, not the number 1939053.
Backtrace:
▆
1. └─testthat::expect(ok = nrow(result$data)) at test-data_preparation.R:18:3
2. └─testthat:::check_bool(ok)
3. └─testthat:::stop_input_type(...)
4. └─rlang::abort(message, ..., call = call, arg = arg)
── Error ('test-data_preparation.R:126:3'): data_preparation works with PP estimand type ──
Error in `expect(nrow(result$data), result$N)`: `ok` must be `TRUE` or `FALSE`, not the number 963883.
Backtrace:
▆
1. └─testthat::expect(ok = nrow(result$data)) at test-data_preparation.R:126:3
2. └─testthat:::check_bool(ok)
3. └─testthat:::stop_input_type(...)
4. └─rlang::abort(message, ..., call = call, arg = arg)
── Error ('test-data_preparation.R:149:3'): data_preparation works with As-Treated estimand type ──
Error in `expect(nrow(result$data), result$N)`: `ok` must be `TRUE` or `FALSE`, not the number 1939053.
Backtrace:
▆
1. └─testthat::expect(ok = nrow(result$data)) at test-data_preparation.R:149:3
2. └─testthat:::check_bool(ok)
3. └─testthat:::stop_input_type(...)
4. └─rlang::abort(message, ..., call = call, arg = arg)
── Error ('test-data_preparation.R:175:3'): data_preparation works with ITT and censor weights ──
Error in `expect(nrow(result$data), result$N)`: `ok` must be `TRUE` or `FALSE`, not the number 8795.
Backtrace:
▆
1. └─testthat::expect(ok = nrow(result$data)) at test-data_preparation.R:175:3
2. └─testthat:::check_bool(ok)
3. └─testthat:::stop_input_type(...)
4. └─rlang::abort(message, ..., call = call, arg = arg)
[ FAIL 4 | WARN 0 | SKIP 33 | PASS 458 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc