Last updated on 2021-10-19 05:51:09 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.14.0 | 26.42 | 353.62 | 380.04 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.14.0 | 18.66 | 254.39 | 273.05 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.14.0 | 452.81 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.15.0 | 491.31 | OK | |||
| r-devel-windows-x86_64 | 0.15.0 | 29.00 | 475.00 | 504.00 | OK | |
| r-devel-windows-x86_64-gcc10-UCRT | 0.14.0 | ERROR | ||||
| r-patched-linux-x86_64 | 0.14.0 | 27.27 | 332.07 | 359.34 | ERROR | |
| r-patched-solaris-x86 | 0.14.0 | 542.50 | ERROR | |||
| r-release-linux-x86_64 | 0.14.0 | 24.59 | 330.99 | 355.58 | ERROR | |
| r-release-macos-arm64 | 0.14.0 | NOTE | ||||
| r-release-macos-x86_64 | 0.14.0 | NOTE | ||||
| r-release-windows-ix86+x86_64 | 0.14.0 | 35.00 | 439.00 | 474.00 | ERROR | |
| r-oldrel-macos-x86_64 | 0.14.0 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 0.14.0 | 52.00 | 428.00 | 480.00 | ERROR |
Version: 0.14.0
Check: tests
Result: ERROR
Running 'spelling.R' [0s/1s]
Running 'testthat.R' [140s/157s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> if (require("testthat")) {
+ library(parameters)
+ if (length(strsplit(packageDescription("parameters")$Version, "\\.")[[1]]) > 3) {
+ Sys.setenv("RunAllparametersTests" = "yes")
+ } else {
+ Sys.setenv("RunAllparametersTests" = "no")
+ }
+
+ osx <- tryCatch(
+ {
+ si <- Sys.info()
+ if (!is.null(si["sysname"])) {
+ si["sysname"] == "Darwin" || grepl("^darwin", R.version$os)
+ } else {
+ FALSE
+ }
+ },
+ error = function(e) {
+ FALSE
+ }
+ )
+
+ if (!osx) {
+ test_check("parameters")
+ }
+ }
Loading required package: testthat
Registered S3 methods overwritten by 'parameters':
method from
as.double.parameters_kurtosis datawizard
as.double.parameters_skewness datawizard
as.double.parameters_smoothness datawizard
as.numeric.parameters_kurtosis datawizard
as.numeric.parameters_skewness datawizard
as.numeric.parameters_smoothness datawizard
print.parameters_distribution datawizard
print.parameters_kurtosis datawizard
print.parameters_skewness datawizard
summary.parameters_kurtosis datawizard
summary.parameters_skewness datawizard
Loading required package: lme4
Loading required package: Matrix
Loading required package: GLMMadaptive
Attaching package: 'GLMMadaptive'
The following object is masked from 'package:lme4':
negative.binomial
Model has no zero-inflation component!
Model has no zero-inflation component!
Model has no zero-inflation component!
Loading required package: MCMCglmm
Loading required package: coda
Loading required package: ape
Loading required package: PMCMRplus
Loading required package: betareg
Loading required package: brglm2
Waiting for profiling to be done...
Computing bootstrap confidence intervals ...
167 message(s): boundary (singular) fit: see ?isSingular
Loading required package: insight
Loading required package: survival
Loading required package: bayestestR
Attaching package: 'bayestestR'
The following object is masked from 'package:insight':
reshape_ci
Loading required package: splines
Loading required package: pscl
Classes and Methods for R developed in the
Political Science Computational Laboratory
Department of Political Science
Stanford University
Simon Jackman
hurdle and zeroinfl functions by Achim Zeileis
Gu & Wahba 4 term additive model
4 term additive + random effectGu & Wahba 4 term additive model
Maximum number of PQL iterations: 20
iteration 1
iteration 2
iteration 3
Loading required package: gee
Beginning Cgee S-function, @(#) geeformula.q 4.13 98/01/27
running glm to get initial regression estimate
(Intercept) tensionM tensionH
36.38889 -10.00000 -14.72222
Loading required package: geepack
Loading required package: AER
Loading required package: car
Loading required package: carData
Loading required package: lmtest
Loading required package: zoo
Attaching package: 'zoo'
The following objects are masked from 'package:base':
as.Date, as.Date.numeric
Loading required package: sandwich
Loading required package: lavaan
This is lavaan 0.6-9
lavaan is FREE software! Please report any bugs.
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
Loading required package: logspline
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Contrasts set to contr.sum for the following variables: treatment, gender
Loading required package: effectsize
Loading required package: gam
Loading required package: foreach
Loaded gam 1.20
Attaching package: 'gam'
The following objects are masked from 'package:mgcv':
gam, gam.control, gam.fit, s
Loading required package: blme
Loading required package: cplm
Attaching package: 'cplm'
The following object is masked from 'package:nlme':
VarCorr
The following object is masked from 'package:lme4':
VarCorr
Loading required package: psych
Attaching package: 'psych'
The following object is masked from 'package:effectsize':
phi
The following object is masked from 'package:lavaan':
cor2cov
The following object is masked from 'package:car':
logit
The following object is masked from 'package:testthat':
describe
Loading required package: FactoMineR
Loading required namespace: GPArotation
Loading required package: multcomp
Loading required package: mvtnorm
Loading required package: TH.data
Loading required package: MASS
Attaching package: 'MASS'
The following object is masked from 'package:GLMMadaptive':
negative.binomial
Attaching package: 'TH.data'
The following object is masked from 'package:MASS':
geyser
Loading required package: boot
Attaching package: 'boot'
The following object is masked from 'package:psych':
logit
The following object is masked from 'package:car':
logit
The following object is masked from 'package:survival':
aml
Loading required package: mediation
mediation: Causal Mediation Analysis
Version: 4.5.0
Attaching package: 'mediation'
The following object is masked from 'package:psych':
mediate
Loading required package: metafor
Loading the 'metafor' package (version 3.0-2). For an
introduction to the package please type: help(metafor)
Attaching package: 'metafor'
The following object is masked from 'package:cplm':
ranef
The following object is masked from 'package:car':
vif
Loading required package: mfx
Loading required package: bbmle
Loading required package: stats4
Loading required package: truncreg
Loading required package: maxLik
Loading required package: miscTools
Attaching package: 'miscTools'
The following object is masked from 'package:bbmle':
stdEr
Please cite the 'maxLik' package as:
Henningsen, Arne and Toomet, Ott (2011). maxLik: A package for maximum likelihood estimation in R. Computational Statistics 26(3), 443-458. DOI 10.1007/s00180-010-0217-1.
If you have questions, suggestions, or comments regarding the 'maxLik' package, please use a forum or 'tracker' at maxLik's R-Forge site:
https://r-forge.r-project.org/projects/maxlik/
Loading required package: VGAM
Attaching package: 'VGAM'
The following object is masked from 'package:bbmle':
AICc
The following objects are masked from 'package:boot':
logit, simplex
The following objects are masked from 'package:psych':
fisherz, logistic, logit
The following object is masked from 'package:gam':
s
The following object is masked from 'package:AER':
tobit
The following object is masked from 'package:lmtest':
lrtest
The following object is masked from 'package:car':
logit
The following object is masked from 'package:mgcv':
s
The following object is masked from 'package:coda':
nvar
Loading required package: lmerTest
Attaching package: 'lmerTest'
The following object is masked from 'package:lme4':
lmer
The following object is masked from 'package:stats':
step
Loading required package: pbkrtest
Loading required package: clubSandwich
Loading required package: nFactors
Loading required package: lattice
Attaching package: 'lattice'
The following object is masked from 'package:boot':
melanoma
Attaching package: 'nFactors'
The following object is masked from 'package:lattice':
parallel
Loading required package: plm
Attaching package: 'plm'
The following objects are masked from 'package:VGAM':
has.intercept, nobs
The following object is masked from 'package:stats4':
nobs
The following objects are masked from 'package:cplm':
fixef, ranef
The following object is masked from 'package:lavaan':
nobs
== Skipped tests ===============================================================
* On CRAN (5)
== Failed tests ================================================================
-- Failure (test-model_parameters.aov_es_ci.R:15:5): model_parameters.aov ------
mp$Omega2_CI_low (`actual`) not equal to c(0.29018, NA) (`expected`).
`actual`: 0.31 NA
`expected`: 0.29 NA
-- Failure (test-model_parameters.aov_es_ci.R:29:5): model_parameters.aov ------
mp$Eta2_CI_low (`actual`) not equal to c(0.53866, 0, 0, 0, 0, 0, 0, NA) (`expected`).
`actual[1:4]`: 0.56 0.00 0.00 0.00
`expected[1:4]`: 0.54 0.00 0.00 0.00
-- Failure (test-model_parameters.aov_es_ci.R:89:7): model_parameters.car-anova --
mp$Omega2_CI_low (`actual`) not equal to c(0, 0.0284, 0, NA) (`expected`).
`actual`: 0.000 0.051 0.007 NA
`expected`: 0.000 0.028 0.000 NA
-- Failure (test-model_parameters.aov_es_ci.R:112:5): model_parameters.maov ----
mp$Omega2_CI_low (`actual`) not equal to c(0.71218, NA, 0.50841, NA, 0.53774, NA) (`expected`).
`actual`: 0.74 NA 0.55 NA 0.58 NA
`expected`: 0.71 NA 0.51 NA 0.54 NA
-- Error (test-model_parameters.htest.R:37:5): (code run outside of `test_that()`) --
Error: Cramer's V not applicable to goodness-of-fit tests.
Backtrace:
x
1. +-parameters::model_parameters(...) test-model_parameters.htest.R:37:4
2. \-parameters:::model_parameters.htest(...)
3. \-parameters:::.extract_parameters_htest(...)
4. \-parameters:::.add_effectsize_chi2(...)
5. +-effectsize::effectsize(...)
6. \-effectsize:::effectsize.htest(...)
7. \-effectsize:::f(...)
[ FAIL 5 | WARN 0 | SKIP 5 | PASS 424 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.14.0
Check: tests
Result: ERROR
Running ‘spelling.R’ [0s/1s]
Running ‘testthat.R’ [96s/137s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> if (require("testthat")) {
+ library(parameters)
+ if (length(strsplit(packageDescription("parameters")$Version, "\\.")[[1]]) > 3) {
+ Sys.setenv("RunAllparametersTests" = "yes")
+ } else {
+ Sys.setenv("RunAllparametersTests" = "no")
+ }
+
+ osx <- tryCatch(
+ {
+ si <- Sys.info()
+ if (!is.null(si["sysname"])) {
+ si["sysname"] == "Darwin" || grepl("^darwin", R.version$os)
+ } else {
+ FALSE
+ }
+ },
+ error = function(e) {
+ FALSE
+ }
+ )
+
+ if (!osx) {
+ test_check("parameters")
+ }
+ }
Loading required package: testthat
Registered S3 methods overwritten by 'parameters':
method from
as.double.parameters_kurtosis datawizard
as.double.parameters_skewness datawizard
as.double.parameters_smoothness datawizard
as.numeric.parameters_kurtosis datawizard
as.numeric.parameters_skewness datawizard
as.numeric.parameters_smoothness datawizard
print.parameters_distribution datawizard
print.parameters_kurtosis datawizard
print.parameters_skewness datawizard
summary.parameters_kurtosis datawizard
summary.parameters_skewness datawizard
Loading required package: lme4
Loading required package: Matrix
Loading required package: GLMMadaptive
Attaching package: 'GLMMadaptive'
The following object is masked from 'package:lme4':
negative.binomial
Model has no zero-inflation component!
Model has no zero-inflation component!
Model has no zero-inflation component!
Loading required package: MCMCglmm
Loading required package: coda
Loading required package: ape
Loading required package: PMCMRplus
Loading required package: betareg
Loading required package: brglm2
Waiting for profiling to be done...
Computing bootstrap confidence intervals ...
167 message(s): boundary (singular) fit: see ?isSingular
Loading required package: insight
Loading required package: survival
Loading required package: bayestestR
Attaching package: 'bayestestR'
The following object is masked from 'package:insight':
reshape_ci
Loading required package: splines
Loading required package: pscl
Classes and Methods for R developed in the
Political Science Computational Laboratory
Department of Political Science
Stanford University
Simon Jackman
hurdle and zeroinfl functions by Achim Zeileis
Gu & Wahba 4 term additive model
4 term additive + random effectGu & Wahba 4 term additive model
Maximum number of PQL iterations: 20
iteration 1
iteration 2
iteration 3
Loading required package: gee
Beginning Cgee S-function, @(#) geeformula.q 4.13 98/01/27
running glm to get initial regression estimate
(Intercept) tensionM tensionH
36.38889 -10.00000 -14.72222
Loading required package: geepack
Loading required package: AER
Loading required package: car
Loading required package: carData
Loading required package: lmtest
Loading required package: zoo
Attaching package: 'zoo'
The following objects are masked from 'package:base':
as.Date, as.Date.numeric
Loading required package: sandwich
Loading required package: lavaan
This is lavaan 0.6-9
lavaan is FREE software! Please report any bugs.
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
Loading required package: logspline
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Contrasts set to contr.sum for the following variables: treatment, gender
Loading required package: effectsize
Loading required package: gam
Loading required package: foreach
Loaded gam 1.20
Attaching package: 'gam'
The following objects are masked from 'package:mgcv':
gam, gam.control, gam.fit, s
Loading required package: blme
Loading required package: cplm
Attaching package: 'cplm'
The following object is masked from 'package:nlme':
VarCorr
The following object is masked from 'package:lme4':
VarCorr
Loading required package: psych
Attaching package: 'psych'
The following object is masked from 'package:effectsize':
phi
The following object is masked from 'package:lavaan':
cor2cov
The following object is masked from 'package:car':
logit
The following object is masked from 'package:testthat':
describe
Loading required package: FactoMineR
Loading required namespace: GPArotation
Loading required package: multcomp
Loading required package: mvtnorm
Loading required package: TH.data
Loading required package: MASS
Attaching package: 'MASS'
The following object is masked from 'package:GLMMadaptive':
negative.binomial
Attaching package: 'TH.data'
The following object is masked from 'package:MASS':
geyser
Loading required package: boot
Attaching package: 'boot'
The following object is masked from 'package:psych':
logit
The following object is masked from 'package:car':
logit
The following object is masked from 'package:survival':
aml
Loading required package: mediation
mediation: Causal Mediation Analysis
Version: 4.5.0
Attaching package: 'mediation'
The following object is masked from 'package:psych':
mediate
Loading required package: metafor
Loading the 'metafor' package (version 3.0-2). For an
introduction to the package please type: help(metafor)
Attaching package: 'metafor'
The following object is masked from 'package:cplm':
ranef
The following object is masked from 'package:car':
vif
Loading required package: mfx
Loading required package: bbmle
Loading required package: stats4
Loading required package: truncreg
Loading required package: maxLik
Loading required package: miscTools
Attaching package: 'miscTools'
The following object is masked from 'package:bbmle':
stdEr
Please cite the 'maxLik' package as:
Henningsen, Arne and Toomet, Ott (2011). maxLik: A package for maximum likelihood estimation in R. Computational Statistics 26(3), 443-458. DOI 10.1007/s00180-010-0217-1.
If you have questions, suggestions, or comments regarding the 'maxLik' package, please use a forum or 'tracker' at maxLik's R-Forge site:
https://r-forge.r-project.org/projects/maxlik/
Loading required package: VGAM
Attaching package: 'VGAM'
The following object is masked from 'package:bbmle':
AICc
The following objects are masked from 'package:boot':
logit, simplex
The following objects are masked from 'package:psych':
fisherz, logistic, logit
The following object is masked from 'package:gam':
s
The following object is masked from 'package:AER':
tobit
The following object is masked from 'package:lmtest':
lrtest
The following object is masked from 'package:car':
logit
The following object is masked from 'package:mgcv':
s
The following object is masked from 'package:coda':
nvar
Loading required package: lmerTest
Attaching package: 'lmerTest'
The following object is masked from 'package:lme4':
lmer
The following object is masked from 'package:stats':
step
Loading required package: pbkrtest
Loading required package: clubSandwich
Loading required package: nFactors
Loading required package: lattice
Attaching package: 'lattice'
The following object is masked from 'package:boot':
melanoma
Attaching package: 'nFactors'
The following object is masked from 'package:lattice':
parallel
Loading required package: plm
Attaching package: 'plm'
The following objects are masked from 'package:VGAM':
has.intercept, nobs
The following object is masked from 'package:stats4':
nobs
The following objects are masked from 'package:cplm':
fixef, ranef
The following object is masked from 'package:lavaan':
nobs
══ Skipped tests ═══════════════════════════════════════════════════════════════
• On CRAN (5)
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure (test-model_parameters.aov_es_ci.R:15:5): model_parameters.aov ──────
mp$Omega2_CI_low (`actual`) not equal to c(0.29018, NA) (`expected`).
`actual`: 0.31 NA
`expected`: 0.29 NA
── Failure (test-model_parameters.aov_es_ci.R:29:5): model_parameters.aov ──────
mp$Eta2_CI_low (`actual`) not equal to c(0.53866, 0, 0, 0, 0, 0, 0, NA) (`expected`).
`actual[1:4]`: 0.56 0.00 0.00 0.00
`expected[1:4]`: 0.54 0.00 0.00 0.00
── Failure (test-model_parameters.aov_es_ci.R:89:7): model_parameters.car-anova ──
mp$Omega2_CI_low (`actual`) not equal to c(0, 0.0284, 0, NA) (`expected`).
`actual`: 0.000 0.051 0.007 NA
`expected`: 0.000 0.028 0.000 NA
── Failure (test-model_parameters.aov_es_ci.R:112:5): model_parameters.maov ────
mp$Omega2_CI_low (`actual`) not equal to c(0.71218, NA, 0.50841, NA, 0.53774, NA) (`expected`).
`actual`: 0.74 NA 0.55 NA 0.58 NA
`expected`: 0.71 NA 0.51 NA 0.54 NA
── Error (test-model_parameters.htest.R:37:5): (code run outside of `test_that()`) ──
Error: Cramer's V not applicable to goodness-of-fit tests.
Backtrace:
█
1. ├─parameters::model_parameters(...) test-model_parameters.htest.R:37:4
2. └─parameters:::model_parameters.htest(...)
3. └─parameters:::.extract_parameters_htest(...)
4. └─parameters:::.add_effectsize_chi2(...)
5. ├─effectsize::effectsize(...)
6. └─effectsize:::effectsize.htest(...)
7. └─effectsize:::f(...)
[ FAIL 5 | WARN 0 | SKIP 5 | PASS 424 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.14.0
Check: tests
Result: ERROR
Running ‘spelling.R’
Running ‘testthat.R’ [152s/219s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> if (require("testthat")) {
+ library(parameters)
+ if (length(strsplit(packageDescription("parameters")$Version, "\\.")[[1]]) > 3) {
+ Sys.setenv("RunAllparametersTests" = "yes")
+ } else {
+ Sys.setenv("RunAllparametersTests" = "no")
+ }
+
+ osx <- tryCatch(
+ {
+ si <- Sys.info()
+ if (!is.null(si["sysname"])) {
+ si["sysname"] == "Darwin" || grepl("^darwin", R.version$os)
+ } else {
+ FALSE
+ }
+ },
+ error = function(e) {
+ FALSE
+ }
+ )
+
+ if (!osx) {
+ test_check("parameters")
+ }
+ }
Loading required package: testthat
Registered S3 methods overwritten by 'parameters':
method from
as.double.parameters_kurtosis datawizard
as.double.parameters_skewness datawizard
as.double.parameters_smoothness datawizard
as.numeric.parameters_kurtosis datawizard
as.numeric.parameters_skewness datawizard
as.numeric.parameters_smoothness datawizard
print.parameters_distribution datawizard
print.parameters_kurtosis datawizard
print.parameters_skewness datawizard
summary.parameters_kurtosis datawizard
summary.parameters_skewness datawizard
Loading required package: lme4
Loading required package: Matrix
Loading required package: GLMMadaptive
Attaching package: 'GLMMadaptive'
The following object is masked from 'package:lme4':
negative.binomial
Model has no zero-inflation component!
Model has no zero-inflation component!
Model has no zero-inflation component!
Loading required package: MCMCglmm
Loading required package: coda
Loading required package: ape
Loading required package: PMCMRplus
Loading required package: betareg
Loading required package: brglm2
Waiting for profiling to be done...
Computing bootstrap confidence intervals ...
167 message(s): boundary (singular) fit: see ?isSingular
Loading required package: insight
Loading required package: survival
Loading required package: bayestestR
Attaching package: 'bayestestR'
The following object is masked from 'package:insight':
reshape_ci
Loading required package: splines
Loading required package: pscl
Classes and Methods for R developed in the
Political Science Computational Laboratory
Department of Political Science
Stanford University
Simon Jackman
hurdle and zeroinfl functions by Achim Zeileis
Gu & Wahba 4 term additive model
4 term additive + random effectGu & Wahba 4 term additive model
Maximum number of PQL iterations: 20
iteration 1
iteration 2
iteration 3
Loading required package: gee
Beginning Cgee S-function, @(#) geeformula.q 4.13 98/01/27
running glm to get initial regression estimate
(Intercept) tensionM tensionH
36.38889 -10.00000 -14.72222
Loading required package: geepack
Loading required package: AER
Loading required package: car
Loading required package: carData
Loading required package: lmtest
Loading required package: zoo
Attaching package: 'zoo'
The following objects are masked from 'package:base':
as.Date, as.Date.numeric
Loading required package: sandwich
Loading required package: lavaan
This is lavaan 0.6-9
lavaan is FREE software! Please report any bugs.
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
Loading required package: logspline
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Contrasts set to contr.sum for the following variables: treatment, gender
Loading required package: effectsize
Loading required package: gam
Loading required package: foreach
Loaded gam 1.20
Attaching package: 'gam'
The following objects are masked from 'package:mgcv':
gam, gam.control, gam.fit, s
Loading required package: blme
Loading required package: cplm
Attaching package: 'cplm'
The following object is masked from 'package:nlme':
VarCorr
The following object is masked from 'package:lme4':
VarCorr
Loading required package: psych
Attaching package: 'psych'
The following object is masked from 'package:effectsize':
phi
The following object is masked from 'package:lavaan':
cor2cov
The following object is masked from 'package:car':
logit
The following object is masked from 'package:testthat':
describe
Loading required package: FactoMineR
Loading required namespace: GPArotation
Loading required package: multcomp
Loading required package: mvtnorm
Loading required package: TH.data
Loading required package: MASS
Attaching package: 'MASS'
The following object is masked from 'package:GLMMadaptive':
negative.binomial
Attaching package: 'TH.data'
The following object is masked from 'package:MASS':
geyser
Loading required package: boot
Attaching package: 'boot'
The following object is masked from 'package:psych':
logit
The following object is masked from 'package:car':
logit
The following object is masked from 'package:survival':
aml
Loading required package: mediation
mediation: Causal Mediation Analysis
Version: 4.5.0
Attaching package: 'mediation'
The following object is masked from 'package:psych':
mediate
Loading required package: metafor
Loading the 'metafor' package (version 3.0-2). For an
introduction to the package please type: help(metafor)
Attaching package: 'metafor'
The following object is masked from 'package:cplm':
ranef
The following object is masked from 'package:car':
vif
Loading required package: mfx
Loading required package: bbmle
Loading required package: stats4
Loading required package: truncreg
Loading required package: maxLik
Loading required package: miscTools
Attaching package: 'miscTools'
The following object is masked from 'package:bbmle':
stdEr
Please cite the 'maxLik' package as:
Henningsen, Arne and Toomet, Ott (2011). maxLik: A package for maximum likelihood estimation in R. Computational Statistics 26(3), 443-458. DOI 10.1007/s00180-010-0217-1.
If you have questions, suggestions, or comments regarding the 'maxLik' package, please use a forum or 'tracker' at maxLik's R-Forge site:
https://r-forge.r-project.org/projects/maxlik/
Loading required package: VGAM
Attaching package: 'VGAM'
The following object is masked from 'package:bbmle':
AICc
The following objects are masked from 'package:boot':
logit, simplex
The following objects are masked from 'package:psych':
fisherz, logistic, logit
The following object is masked from 'package:gam':
s
The following object is masked from 'package:AER':
tobit
The following object is masked from 'package:lmtest':
lrtest
The following object is masked from 'package:car':
logit
The following object is masked from 'package:mgcv':
s
The following object is masked from 'package:coda':
nvar
Loading required package: lmerTest
Attaching package: 'lmerTest'
The following object is masked from 'package:lme4':
lmer
The following object is masked from 'package:stats':
step
Loading required package: pbkrtest
Loading required package: clubSandwich
Loading required package: nFactors
Loading required package: lattice
Attaching package: 'lattice'
The following object is masked from 'package:boot':
melanoma
Attaching package: 'nFactors'
The following object is masked from 'package:lattice':
parallel
Loading required package: plm
Attaching package: 'plm'
The following objects are masked from 'package:VGAM':
has.intercept, nobs
The following object is masked from 'package:stats4':
nobs
The following objects are masked from 'package:cplm':
fixef, ranef
The following object is masked from 'package:lavaan':
nobs
══ Skipped tests ═══════════════════════════════════════════════════════════════
• On CRAN (5)
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure (test-model_parameters.aov_es_ci.R:15:5): model_parameters.aov ──────
mp$Omega2_CI_low (`actual`) not equal to c(0.29018, NA) (`expected`).
`actual`: 0.31 NA
`expected`: 0.29 NA
── Failure (test-model_parameters.aov_es_ci.R:29:5): model_parameters.aov ──────
mp$Eta2_CI_low (`actual`) not equal to c(0.53866, 0, 0, 0, 0, 0, 0, NA) (`expected`).
`actual[1:4]`: 0.56 0.00 0.00 0.00
`expected[1:4]`: 0.54 0.00 0.00 0.00
── Failure (test-model_parameters.aov_es_ci.R:89:7): model_parameters.car-anova ──
mp$Omega2_CI_low (`actual`) not equal to c(0, 0.0284, 0, NA) (`expected`).
`actual`: 0.000 0.051 0.007 NA
`expected`: 0.000 0.028 0.000 NA
── Failure (test-model_parameters.aov_es_ci.R:112:5): model_parameters.maov ────
mp$Omega2_CI_low (`actual`) not equal to c(0.71218, NA, 0.50841, NA, 0.53774, NA) (`expected`).
`actual`: 0.74 NA 0.55 NA 0.58 NA
`expected`: 0.71 NA 0.51 NA 0.54 NA
── Error (test-model_parameters.htest.R:37:5): (code run outside of `test_that()`) ──
Error: Cramer's V not applicable to goodness-of-fit tests.
Backtrace:
█
1. ├─parameters::model_parameters(...) test-model_parameters.htest.R:37:4
2. └─parameters:::model_parameters.htest(...)
3. └─parameters:::.extract_parameters_htest(...)
4. └─parameters:::.add_effectsize_chi2(...)
5. ├─effectsize::effectsize(...)
6. └─effectsize:::effectsize.htest(...)
7. └─effectsize:::f(...)
[ FAIL 5 | WARN 0 | SKIP 5 | PASS 424 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.14.0
Check: tests
Result: ERROR
Running 'spelling.R'
Running 'testthat.R'
Running the tests in 'tests/testthat.R' failed.
Complete output:
> if (require("testthat")) {
+ library(parameters)
+ if (length(strsplit(packageDescription("parameters")$Version, "\\.")[[1]]) > 3) {
+ Sys.setenv("RunAllparametersTests" = "yes")
+ } else {
+ Sys.setenv("RunAllparametersTests" = "no")
+ }
+
+ osx <- tryCatch(
+ {
+ si <- Sys.info()
+ if (!is.null(si["sysname"])) {
+ si["sysname"] == "Darwin" || grepl("^darwin", R.version$os)
+ } else {
+ FALSE
+ }
+ },
+ error = function(e) {
+ FALSE
+ }
+ )
+
+ if (!osx) {
+ test_check("parameters")
+ }
+ }
Loading required package: testthat
Registered S3 methods overwritten by 'parameters':
method from
as.double.parameters_kurtosis datawizard
as.double.parameters_skewness datawizard
as.double.parameters_smoothness datawizard
as.numeric.parameters_kurtosis datawizard
as.numeric.parameters_skewness datawizard
as.numeric.parameters_smoothness datawizard
print.parameters_distribution datawizard
print.parameters_kurtosis datawizard
print.parameters_skewness datawizard
summary.parameters_kurtosis datawizard
summary.parameters_skewness datawizard
Loading required package: lme4
Loading required package: Matrix
Loading required package: GLMMadaptive
Attaching package: 'GLMMadaptive'
The following object is masked from 'package:lme4':
negative.binomial
Model has no zero-inflation component!
Model has no zero-inflation component!
Model has no zero-inflation component!
Loading required package: MCMCglmm
Loading required package: coda
Loading required package: ape
Loading required package: PMCMRplus
Loading required package: betareg
Loading required package: brglm2
Waiting for profiling to be done...
Computing bootstrap confidence intervals ...
167 message(s): boundary (singular) fit: see ?isSingular
Loading required package: insight
Loading required package: survival
Loading required package: bayestestR
Attaching package: 'bayestestR'
The following object is masked from 'package:insight':
reshape_ci
Loading required package: splines
Loading required package: pscl
Classes and Methods for R developed in the
Political Science Computational Laboratory
Department of Political Science
Stanford University
Simon Jackman
hurdle and zeroinfl functions by Achim Zeileis
Gu & Wahba 4 term additive model
4 term additive + random effectGu & Wahba 4 term additive model
Maximum number of PQL iterations: 20
iteration 1
iteration 2
iteration 3
Loading required package: gee
Beginning Cgee S-function, @(#) geeformula.q 4.13 98/01/27
running glm to get initial regression estimate
(Intercept) tensionM tensionH
36.38889 -10.00000 -14.72222
Loading required package: geepack
Loading required package: AER
Loading required package: car
Loading required package: carData
Loading required package: lmtest
Loading required package: zoo
Attaching package: 'zoo'
The following objects are masked from 'package:base':
as.Date, as.Date.numeric
Loading required package: sandwich
Loading required package: lavaan
This is lavaan 0.6-9
lavaan is FREE software! Please report any bugs.
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
Loading required package: logspline
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Contrasts set to contr.sum for the following variables: treatment, gender
Loading required package: effectsize
Loading required package: gam
Loading required package: foreach
Loaded gam 1.20
Attaching package: 'gam'
The following objects are masked from 'package:mgcv':
gam, gam.control, gam.fit, s
Loading required package: blme
Loading required package: cplm
Attaching package: 'cplm'
The following object is masked from 'package:nlme':
VarCorr
The following object is masked from 'package:lme4':
VarCorr
Loading required package: psych
Attaching package: 'psych'
The following object is masked from 'package:effectsize':
phi
The following object is masked from 'package:lavaan':
cor2cov
The following object is masked from 'package:car':
logit
The following object is masked from 'package:testthat':
describe
Loading required package: FactoMineR
Loading required namespace: GPArotation
Loading required package: multcomp
Loading required package: mvtnorm
Loading required package: TH.data
Loading required package: MASS
Attaching package: 'MASS'
The following object is masked from 'package:GLMMadaptive':
negative.binomial
Attaching package: 'TH.data'
The following object is masked from 'package:MASS':
geyser
Loading required package: boot
Attaching package: 'boot'
The following object is masked from 'package:psych':
logit
The following object is masked from 'package:car':
logit
The following object is masked from 'package:survival':
aml
Loading required package: mediation
mediation: Causal Mediation Analysis
Version: 4.5.0
Attaching package: 'mediation'
The following object is masked from 'package:psych':
mediate
Loading required package: metafor
Loading the 'metafor' package (version 3.0-2). For an
introduction to the package please type: help(metafor)
Attaching package: 'metafor'
The following object is masked from 'package:cplm':
ranef
The following object is masked from 'package:car':
vif
Loading required package: mfx
Loading required package: bbmle
Loading required package: stats4
Loading required package: truncreg
Loading required package: maxLik
Loading required package: miscTools
Attaching package: 'miscTools'
The following object is masked from 'package:bbmle':
stdEr
Please cite the 'maxLik' package as:
Henningsen, Arne and Toomet, Ott (2011). maxLik: A package for maximum likelihood estimation in R. Computational Statistics 26(3), 443-458. DOI 10.1007/s00180-010-0217-1.
If you have questions, suggestions, or comments regarding the 'maxLik' package, please use a forum or 'tracker' at maxLik's R-Forge site:
https://r-forge.r-project.org/projects/maxlik/
Loading required package: VGAM
Attaching package: 'VGAM'
The following object is masked from 'package:bbmle':
AICc
The following objects are masked from 'package:boot':
logit, simplex
The following objects are masked from 'package:psych':
fisherz, logistic, logit
The following object is masked from 'package:gam':
s
The following object is masked from 'package:AER':
tobit
The following object is masked from 'package:lmtest':
lrtest
The following object is masked from 'package:car':
logit
The following object is masked from 'package:mgcv':
s
The following object is masked from 'package:coda':
nvar
Loading required package: lmerTest
Attaching package: 'lmerTest'
The following object is masked from 'package:lme4':
lmer
The following object is masked from 'package:stats':
step
Loading required package: pbkrtest
Loading required package: clubSandwich
Loading required package: nFactors
Loading required package: lattice
Attaching package: 'lattice'
The following object is masked from 'package:boot':
melanoma
Attaching package: 'nFactors'
The following object is masked from 'package:lattice':
parallel
Loading required package: plm
Attaching package: 'plm'
The following objects are masked from 'package:VGAM':
has.intercept, nobs
The following object is masked from 'package:stats4':
nobs
The following objects are masked from 'package:cplm':
fixef, ranef
The following object is masked from 'package:lavaan':
nobs
══ Skipped tests ═══════════════════════════════════════════════════════════════
• On CRAN (5)
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure (test-model_parameters.aov_es_ci.R:15:5): model_parameters.aov ──────
mp$Omega2_CI_low (`actual`) not equal to c(0.29018, NA) (`expected`).
`actual`: 0.31 NA
`expected`: 0.29 NA
── Failure (test-model_parameters.aov_es_ci.R:29:5): model_parameters.aov ──────
mp$Eta2_CI_low (`actual`) not equal to c(0.53866, 0, 0, 0, 0, 0, 0, NA) (`expected`).
`actual[1:4]`: 0.56 0.00 0.00 0.00
`expected[1:4]`: 0.54 0.00 0.00 0.00
── Failure (test-model_parameters.aov_es_ci.R:89:7): model_parameters.car-anova ──
mp$Omega2_CI_low (`actual`) not equal to c(0, 0.0284, 0, NA) (`expected`).
`actual`: 0.000 0.051 0.007 NA
`expected`: 0.000 0.028 0.000 NA
── Failure (test-model_parameters.aov_es_ci.R:112:5): model_parameters.maov ────
mp$Omega2_CI_low (`actual`) not equal to c(0.71218, NA, 0.50841, NA, 0.53774, NA) (`expected`).
`actual`: 0.74 NA 0.55 NA 0.58 NA
`expected`: 0.71 NA 0.51 NA 0.54 NA
── Error (test-model_parameters.htest.R:37:5): (code run outside of `test_that()`) ──
Error: Cramer's V not applicable to goodness-of-fit tests.
Backtrace:
█
1. ├─parameters::model_parameters(...) test-model_parameters.htest.R:37:4
2. └─parameters:::model_parameters.htest(...)
3. └─parameters:::.extract_parameters_htest(...)
4. └─parameters:::.add_effectsize_chi2(...)
5. ├─effectsize::effectsize(...)
6. └─effectsize:::effectsize.htest(...)
7. └─effectsize:::f(...)
[ FAIL 5 | WARN 0 | SKIP 5 | PASS 424 ]
Error: Test failures
Execution halted
Flavor: r-devel-windows-x86_64-gcc10-UCRT
Version: 0.14.0
Check: tests
Result: ERROR
Running ‘spelling.R’ [0s/1s]
Running ‘testthat.R’ [123s/135s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> if (require("testthat")) {
+ library(parameters)
+ if (length(strsplit(packageDescription("parameters")$Version, "\\.")[[1]]) > 3) {
+ Sys.setenv("RunAllparametersTests" = "yes")
+ } else {
+ Sys.setenv("RunAllparametersTests" = "no")
+ }
+
+ osx <- tryCatch(
+ {
+ si <- Sys.info()
+ if (!is.null(si["sysname"])) {
+ si["sysname"] == "Darwin" || grepl("^darwin", R.version$os)
+ } else {
+ FALSE
+ }
+ },
+ error = function(e) {
+ FALSE
+ }
+ )
+
+ if (!osx) {
+ test_check("parameters")
+ }
+ }
Loading required package: testthat
Registered S3 methods overwritten by 'parameters':
method from
as.double.parameters_kurtosis datawizard
as.double.parameters_skewness datawizard
as.double.parameters_smoothness datawizard
as.numeric.parameters_kurtosis datawizard
as.numeric.parameters_skewness datawizard
as.numeric.parameters_smoothness datawizard
print.parameters_distribution datawizard
print.parameters_kurtosis datawizard
print.parameters_skewness datawizard
summary.parameters_kurtosis datawizard
summary.parameters_skewness datawizard
Loading required package: lme4
Loading required package: Matrix
Loading required package: GLMMadaptive
Attaching package: 'GLMMadaptive'
The following object is masked from 'package:lme4':
negative.binomial
Model has no zero-inflation component!
Model has no zero-inflation component!
Model has no zero-inflation component!
Loading required package: MCMCglmm
Loading required package: coda
Loading required package: ape
Loading required package: PMCMRplus
Loading required package: betareg
Loading required package: brglm2
Waiting for profiling to be done...
Computing bootstrap confidence intervals ...
167 message(s): boundary (singular) fit: see ?isSingular
Loading required package: insight
Loading required package: survival
Loading required package: bayestestR
Attaching package: 'bayestestR'
The following object is masked from 'package:insight':
reshape_ci
Loading required package: splines
Loading required package: pscl
Classes and Methods for R developed in the
Political Science Computational Laboratory
Department of Political Science
Stanford University
Simon Jackman
hurdle and zeroinfl functions by Achim Zeileis
Gu & Wahba 4 term additive model
4 term additive + random effectGu & Wahba 4 term additive model
Maximum number of PQL iterations: 20
iteration 1
iteration 2
iteration 3
Loading required package: gee
Beginning Cgee S-function, @(#) geeformula.q 4.13 98/01/27
running glm to get initial regression estimate
(Intercept) tensionM tensionH
36.38889 -10.00000 -14.72222
Loading required package: geepack
Loading required package: AER
Loading required package: car
Loading required package: carData
Loading required package: lmtest
Loading required package: zoo
Attaching package: 'zoo'
The following objects are masked from 'package:base':
as.Date, as.Date.numeric
Loading required package: sandwich
Loading required package: lavaan
This is lavaan 0.6-9
lavaan is FREE software! Please report any bugs.
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
Loading required package: logspline
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Contrasts set to contr.sum for the following variables: treatment, gender
Loading required package: effectsize
Loading required package: gam
Loading required package: foreach
Loaded gam 1.20
Attaching package: 'gam'
The following objects are masked from 'package:mgcv':
gam, gam.control, gam.fit, s
Loading required package: blme
Loading required package: cplm
Attaching package: 'cplm'
The following object is masked from 'package:nlme':
VarCorr
The following object is masked from 'package:lme4':
VarCorr
Loading required package: psych
Attaching package: 'psych'
The following object is masked from 'package:effectsize':
phi
The following object is masked from 'package:lavaan':
cor2cov
The following object is masked from 'package:car':
logit
The following object is masked from 'package:testthat':
describe
Loading required package: FactoMineR
Loading required namespace: GPArotation
Loading required package: multcomp
Loading required package: mvtnorm
Loading required package: TH.data
Loading required package: MASS
Attaching package: 'MASS'
The following object is masked from 'package:GLMMadaptive':
negative.binomial
Attaching package: 'TH.data'
The following object is masked from 'package:MASS':
geyser
Loading required package: boot
Attaching package: 'boot'
The following object is masked from 'package:psych':
logit
The following object is masked from 'package:car':
logit
The following object is masked from 'package:survival':
aml
Loading required package: mediation
mediation: Causal Mediation Analysis
Version: 4.5.0
Attaching package: 'mediation'
The following object is masked from 'package:psych':
mediate
Loading required package: metafor
Loading the 'metafor' package (version 3.0-2). For an
introduction to the package please type: help(metafor)
Attaching package: 'metafor'
The following object is masked from 'package:cplm':
ranef
The following object is masked from 'package:car':
vif
Loading required package: mfx
Loading required package: bbmle
Loading required package: stats4
Loading required package: truncreg
Loading required package: maxLik
Loading required package: miscTools
Attaching package: 'miscTools'
The following object is masked from 'package:bbmle':
stdEr
Please cite the 'maxLik' package as:
Henningsen, Arne and Toomet, Ott (2011). maxLik: A package for maximum likelihood estimation in R. Computational Statistics 26(3), 443-458. DOI 10.1007/s00180-010-0217-1.
If you have questions, suggestions, or comments regarding the 'maxLik' package, please use a forum or 'tracker' at maxLik's R-Forge site:
https://r-forge.r-project.org/projects/maxlik/
Loading required package: VGAM
Attaching package: 'VGAM'
The following object is masked from 'package:bbmle':
AICc
The following objects are masked from 'package:boot':
logit, simplex
The following objects are masked from 'package:psych':
fisherz, logistic, logit
The following object is masked from 'package:gam':
s
The following object is masked from 'package:AER':
tobit
The following object is masked from 'package:lmtest':
lrtest
The following object is masked from 'package:car':
logit
The following object is masked from 'package:mgcv':
s
The following object is masked from 'package:coda':
nvar
Loading required package: lmerTest
Attaching package: 'lmerTest'
The following object is masked from 'package:lme4':
lmer
The following object is masked from 'package:stats':
step
Loading required package: pbkrtest
Loading required package: clubSandwich
Loading required package: nFactors
Loading required package: lattice
Attaching package: 'lattice'
The following object is masked from 'package:boot':
melanoma
Attaching package: 'nFactors'
The following object is masked from 'package:lattice':
parallel
Loading required package: plm
Attaching package: 'plm'
The following objects are masked from 'package:VGAM':
has.intercept, nobs
The following object is masked from 'package:stats4':
nobs
The following objects are masked from 'package:cplm':
fixef, ranef
The following object is masked from 'package:lavaan':
nobs
══ Skipped tests ═══════════════════════════════════════════════════════════════
• On CRAN (5)
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure (test-model_parameters.aov_es_ci.R:15:5): model_parameters.aov ──────
mp$Omega2_CI_low (`actual`) not equal to c(0.29018, NA) (`expected`).
`actual`: 0.31 NA
`expected`: 0.29 NA
── Failure (test-model_parameters.aov_es_ci.R:29:5): model_parameters.aov ──────
mp$Eta2_CI_low (`actual`) not equal to c(0.53866, 0, 0, 0, 0, 0, 0, NA) (`expected`).
`actual[1:4]`: 0.56 0.00 0.00 0.00
`expected[1:4]`: 0.54 0.00 0.00 0.00
── Failure (test-model_parameters.aov_es_ci.R:89:7): model_parameters.car-anova ──
mp$Omega2_CI_low (`actual`) not equal to c(0, 0.0284, 0, NA) (`expected`).
`actual`: 0.000 0.051 0.007 NA
`expected`: 0.000 0.028 0.000 NA
── Failure (test-model_parameters.aov_es_ci.R:112:5): model_parameters.maov ────
mp$Omega2_CI_low (`actual`) not equal to c(0.71218, NA, 0.50841, NA, 0.53774, NA) (`expected`).
`actual`: 0.74 NA 0.55 NA 0.58 NA
`expected`: 0.71 NA 0.51 NA 0.54 NA
── Error (test-model_parameters.htest.R:37:5): (code run outside of `test_that()`) ──
Error: Cramer's V not applicable to goodness-of-fit tests.
Backtrace:
█
1. ├─parameters::model_parameters(...) test-model_parameters.htest.R:37:4
2. └─parameters:::model_parameters.htest(...)
3. └─parameters:::.extract_parameters_htest(...)
4. └─parameters:::.add_effectsize_chi2(...)
5. ├─effectsize::effectsize(...)
6. └─effectsize:::effectsize.htest(...)
7. └─effectsize:::f(...)
[ FAIL 5 | WARN 0 | SKIP 5 | PASS 424 ]
Error: Test failures
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.14.0
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking: 'glmmTMB', 'M3C'
Flavor: r-patched-solaris-x86
Version: 0.14.0
Check: tests
Result: ERROR
Running ‘spelling.R’
Running ‘testthat.R’ [201s/234s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> if (require("testthat")) {
+ library(parameters)
+ if (length(strsplit(packageDescription("parameters")$Version, "\\.")[[1]]) > 3) {
+ Sys.setenv("RunAllparametersTests" = "yes")
+ } else {
+ Sys.setenv("RunAllparametersTests" = "no")
+ }
+
+ osx <- tryCatch(
+ {
+ si <- Sys.info()
+ if (!is.null(si["sysname"])) {
+ si["sysname"] == "Darwin" || grepl("^darwin", R.version$os)
+ } else {
+ FALSE
+ }
+ },
+ error = function(e) {
+ FALSE
+ }
+ )
+
+ if (!osx) {
+ test_check("parameters")
+ }
+ }
Loading required package: testthat
Registered S3 methods overwritten by 'parameters':
method from
as.double.parameters_kurtosis datawizard
as.double.parameters_skewness datawizard
as.double.parameters_smoothness datawizard
as.numeric.parameters_kurtosis datawizard
as.numeric.parameters_skewness datawizard
as.numeric.parameters_smoothness datawizard
print.parameters_distribution datawizard
print.parameters_kurtosis datawizard
print.parameters_skewness datawizard
summary.parameters_kurtosis datawizard
summary.parameters_skewness datawizard
Loading required package: lme4
Loading required package: Matrix
Loading required package: GLMMadaptive
Attaching package: 'GLMMadaptive'
The following object is masked from 'package:lme4':
negative.binomial
Model has no zero-inflation component!
Model has no zero-inflation component!
Model has no zero-inflation component!
Loading required package: MCMCglmm
Loading required package: coda
Loading required package: ape
Loading required package: PMCMRplus
Loading required package: betareg
Loading required package: brglm2
Waiting for profiling to be done...
Computing bootstrap confidence intervals ...
167 message(s): boundary (singular) fit: see ?isSingular
Loading required package: insight
Loading required package: survival
Loading required package: bayestestR
Attaching package: 'bayestestR'
The following object is masked from 'package:insight':
reshape_ci
Loading required package: splines
Loading required package: pscl
Classes and Methods for R developed in the
Political Science Computational Laboratory
Department of Political Science
Stanford University
Simon Jackman
hurdle and zeroinfl functions by Achim Zeileis
Gu & Wahba 4 term additive model
4 term additive + random effectGu & Wahba 4 term additive model
Maximum number of PQL iterations: 20
iteration 1
iteration 2
iteration 3
Loading required package: gee
Beginning Cgee S-function, @(#) geeformula.q 4.13 98/01/27
running glm to get initial regression estimate
(Intercept) tensionM tensionH
36.38889 -10.00000 -14.72222
Loading required package: geepack
Loading required package: AER
Loading required package: car
Loading required package: carData
Loading required package: lmtest
Loading required package: zoo
Attaching package: 'zoo'
The following objects are masked from 'package:base':
as.Date, as.Date.numeric
Loading required package: sandwich
Loading required package: lavaan
This is lavaan 0.6-9
lavaan is FREE software! Please report any bugs.
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
Loading required package: logspline
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Contrasts set to contr.sum for the following variables: treatment, gender
Loading required package: effectsize
Loading required package: gam
Loading required package: foreach
Loaded gam 1.20
Attaching package: 'gam'
The following objects are masked from 'package:mgcv':
gam, gam.control, gam.fit, s
Loading required package: blme
Loading required package: cplm
Attaching package: 'cplm'
The following object is masked from 'package:nlme':
VarCorr
The following object is masked from 'package:lme4':
VarCorr
Loading required package: psych
Attaching package: 'psych'
The following object is masked from 'package:effectsize':
phi
The following object is masked from 'package:lavaan':
cor2cov
The following object is masked from 'package:car':
logit
The following object is masked from 'package:testthat':
describe
Loading required package: FactoMineR
Loading required namespace: GPArotation
Loading required package: multcomp
Loading required package: mvtnorm
Loading required package: TH.data
Loading required package: MASS
Attaching package: 'MASS'
The following object is masked from 'package:GLMMadaptive':
negative.binomial
Attaching package: 'TH.data'
The following object is masked from 'package:MASS':
geyser
Loading required package: boot
Attaching package: 'boot'
The following object is masked from 'package:psych':
logit
The following object is masked from 'package:car':
logit
The following object is masked from 'package:survival':
aml
Loading required package: mediation
mediation: Causal Mediation Analysis
Version: 4.5.0
Attaching package: 'mediation'
The following object is masked from 'package:psych':
mediate
Loading required package: metafor
Loading the 'metafor' package (version 3.0-2). For an
introduction to the package please type: help(metafor)
Attaching package: 'metafor'
The following object is masked from 'package:cplm':
ranef
The following object is masked from 'package:car':
vif
Loading required package: mfx
Loading required package: bbmle
Loading required package: stats4
Loading required package: truncreg
Loading required package: maxLik
Loading required package: miscTools
Attaching package: 'miscTools'
The following object is masked from 'package:bbmle':
stdEr
Please cite the 'maxLik' package as:
Henningsen, Arne and Toomet, Ott (2011). maxLik: A package for maximum likelihood estimation in R. Computational Statistics 26(3), 443-458. DOI 10.1007/s00180-010-0217-1.
If you have questions, suggestions, or comments regarding the 'maxLik' package, please use a forum or 'tracker' at maxLik's R-Forge site:
https://r-forge.r-project.org/projects/maxlik/
Loading required package: VGAM
Attaching package: 'VGAM'
The following object is masked from 'package:bbmle':
AICc
The following objects are masked from 'package:boot':
logit, simplex
The following objects are masked from 'package:psych':
fisherz, logistic, logit
The following object is masked from 'package:gam':
s
The following object is masked from 'package:AER':
tobit
The following object is masked from 'package:lmtest':
lrtest
The following object is masked from 'package:car':
logit
The following object is masked from 'package:mgcv':
s
The following object is masked from 'package:coda':
nvar
Loading required package: lmerTest
Attaching package: 'lmerTest'
The following object is masked from 'package:lme4':
lmer
The following object is masked from 'package:stats':
step
Loading required package: pbkrtest
Loading required package: clubSandwich
Loading required package: nFactors
Loading required package: lattice
Attaching package: 'lattice'
The following object is masked from 'package:boot':
melanoma
Attaching package: 'nFactors'
The following object is masked from 'package:lattice':
parallel
Loading required package: plm
Attaching package: 'plm'
The following objects are masked from 'package:VGAM':
has.intercept, nobs
The following object is masked from 'package:stats4':
nobs
The following objects are masked from 'package:cplm':
fixef, ranef
The following object is masked from 'package:lavaan':
nobs
══ Skipped tests ═══════════════════════════════════════════════════════════════
• On CRAN (5)
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure (test-model_parameters.aov_es_ci.R:15:5): model_parameters.aov ──────
mp$Omega2_CI_low (`actual`) not equal to c(0.29018, NA) (`expected`).
`actual`: 0.31 NA
`expected`: 0.29 NA
── Failure (test-model_parameters.aov_es_ci.R:29:5): model_parameters.aov ──────
mp$Eta2_CI_low (`actual`) not equal to c(0.53866, 0, 0, 0, 0, 0, 0, NA) (`expected`).
`actual[1:4]`: 0.56 0.00 0.00 0.00
`expected[1:4]`: 0.54 0.00 0.00 0.00
── Failure (test-model_parameters.aov_es_ci.R:89:7): model_parameters.car-anova ──
mp$Omega2_CI_low (`actual`) not equal to c(0, 0.0284, 0, NA) (`expected`).
`actual`: 0.000 0.051 0.007 NA
`expected`: 0.000 0.028 0.000 NA
── Failure (test-model_parameters.aov_es_ci.R:112:5): model_parameters.maov ────
mp$Omega2_CI_low (`actual`) not equal to c(0.71218, NA, 0.50841, NA, 0.53774, NA) (`expected`).
`actual`: 0.74 NA 0.55 NA 0.58 NA
`expected`: 0.71 NA 0.51 NA 0.54 NA
── Error (test-model_parameters.htest.R:37:5): (code run outside of `test_that()`) ──
Error: Cramer's V not applicable to goodness-of-fit tests.
Backtrace:
█
1. ├─parameters::model_parameters(...) test-model_parameters.htest.R:37:4
2. └─parameters:::model_parameters.htest(...)
3. └─parameters:::.extract_parameters_htest(...)
4. └─parameters:::.add_effectsize_chi2(...)
5. ├─effectsize::effectsize(...)
6. └─effectsize:::effectsize.htest(...)
7. └─effectsize:::f(...)
[ FAIL 5 | WARN 0 | SKIP 5 | PASS 424 ]
Error: Test failures
Execution halted
Flavor: r-patched-solaris-x86
Version: 0.14.0
Check: tests
Result: ERROR
Running ‘spelling.R’ [0s/1s]
Running ‘testthat.R’ [125s/139s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> if (require("testthat")) {
+ library(parameters)
+ if (length(strsplit(packageDescription("parameters")$Version, "\\.")[[1]]) > 3) {
+ Sys.setenv("RunAllparametersTests" = "yes")
+ } else {
+ Sys.setenv("RunAllparametersTests" = "no")
+ }
+
+ osx <- tryCatch(
+ {
+ si <- Sys.info()
+ if (!is.null(si["sysname"])) {
+ si["sysname"] == "Darwin" || grepl("^darwin", R.version$os)
+ } else {
+ FALSE
+ }
+ },
+ error = function(e) {
+ FALSE
+ }
+ )
+
+ if (!osx) {
+ test_check("parameters")
+ }
+ }
Loading required package: testthat
Registered S3 methods overwritten by 'parameters':
method from
as.double.parameters_kurtosis datawizard
as.double.parameters_skewness datawizard
as.double.parameters_smoothness datawizard
as.numeric.parameters_kurtosis datawizard
as.numeric.parameters_skewness datawizard
as.numeric.parameters_smoothness datawizard
print.parameters_distribution datawizard
print.parameters_kurtosis datawizard
print.parameters_skewness datawizard
summary.parameters_kurtosis datawizard
summary.parameters_skewness datawizard
Loading required package: lme4
Loading required package: Matrix
Loading required package: GLMMadaptive
Attaching package: 'GLMMadaptive'
The following object is masked from 'package:lme4':
negative.binomial
Model has no zero-inflation component!
Model has no zero-inflation component!
Model has no zero-inflation component!
Loading required package: MCMCglmm
Loading required package: coda
Loading required package: ape
Loading required package: PMCMRplus
Loading required package: betareg
Loading required package: brglm2
Waiting for profiling to be done...
Computing bootstrap confidence intervals ...
167 message(s): boundary (singular) fit: see ?isSingular
Loading required package: insight
Loading required package: survival
Loading required package: bayestestR
Attaching package: 'bayestestR'
The following object is masked from 'package:insight':
reshape_ci
Loading required package: splines
Loading required package: pscl
Classes and Methods for R developed in the
Political Science Computational Laboratory
Department of Political Science
Stanford University
Simon Jackman
hurdle and zeroinfl functions by Achim Zeileis
Gu & Wahba 4 term additive model
4 term additive + random effectGu & Wahba 4 term additive model
Maximum number of PQL iterations: 20
iteration 1
iteration 2
iteration 3
Loading required package: gee
Beginning Cgee S-function, @(#) geeformula.q 4.13 98/01/27
running glm to get initial regression estimate
(Intercept) tensionM tensionH
36.38889 -10.00000 -14.72222
Loading required package: geepack
Loading required package: AER
Loading required package: car
Loading required package: carData
Loading required package: lmtest
Loading required package: zoo
Attaching package: 'zoo'
The following objects are masked from 'package:base':
as.Date, as.Date.numeric
Loading required package: sandwich
Loading required package: lavaan
This is lavaan 0.6-9
lavaan is FREE software! Please report any bugs.
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
Loading required package: logspline
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Contrasts set to contr.sum for the following variables: treatment, gender
Loading required package: effectsize
Loading required package: gam
Loading required package: foreach
Loaded gam 1.20
Attaching package: 'gam'
The following objects are masked from 'package:mgcv':
gam, gam.control, gam.fit, s
Loading required package: blme
Loading required package: cplm
Attaching package: 'cplm'
The following object is masked from 'package:nlme':
VarCorr
The following object is masked from 'package:lme4':
VarCorr
Loading required package: psych
Attaching package: 'psych'
The following object is masked from 'package:effectsize':
phi
The following object is masked from 'package:lavaan':
cor2cov
The following object is masked from 'package:car':
logit
The following object is masked from 'package:testthat':
describe
Loading required package: FactoMineR
Loading required namespace: GPArotation
Loading required package: multcomp
Loading required package: mvtnorm
Loading required package: TH.data
Loading required package: MASS
Attaching package: 'MASS'
The following object is masked from 'package:GLMMadaptive':
negative.binomial
Attaching package: 'TH.data'
The following object is masked from 'package:MASS':
geyser
Loading required package: boot
Attaching package: 'boot'
The following object is masked from 'package:psych':
logit
The following object is masked from 'package:car':
logit
The following object is masked from 'package:survival':
aml
Loading required package: mediation
mediation: Causal Mediation Analysis
Version: 4.5.0
Attaching package: 'mediation'
The following object is masked from 'package:psych':
mediate
Loading required package: metafor
Loading the 'metafor' package (version 3.0-2). For an
introduction to the package please type: help(metafor)
Attaching package: 'metafor'
The following object is masked from 'package:cplm':
ranef
The following object is masked from 'package:car':
vif
Loading required package: mfx
Loading required package: bbmle
Loading required package: stats4
Loading required package: truncreg
Loading required package: maxLik
Loading required package: miscTools
Attaching package: 'miscTools'
The following object is masked from 'package:bbmle':
stdEr
Please cite the 'maxLik' package as:
Henningsen, Arne and Toomet, Ott (2011). maxLik: A package for maximum likelihood estimation in R. Computational Statistics 26(3), 443-458. DOI 10.1007/s00180-010-0217-1.
If you have questions, suggestions, or comments regarding the 'maxLik' package, please use a forum or 'tracker' at maxLik's R-Forge site:
https://r-forge.r-project.org/projects/maxlik/
Loading required package: VGAM
Attaching package: 'VGAM'
The following object is masked from 'package:bbmle':
AICc
The following objects are masked from 'package:boot':
logit, simplex
The following objects are masked from 'package:psych':
fisherz, logistic, logit
The following object is masked from 'package:gam':
s
The following object is masked from 'package:AER':
tobit
The following object is masked from 'package:lmtest':
lrtest
The following object is masked from 'package:car':
logit
The following object is masked from 'package:mgcv':
s
The following object is masked from 'package:coda':
nvar
Loading required package: lmerTest
Attaching package: 'lmerTest'
The following object is masked from 'package:lme4':
lmer
The following object is masked from 'package:stats':
step
Loading required package: pbkrtest
Loading required package: clubSandwich
Loading required package: nFactors
Loading required package: lattice
Attaching package: 'lattice'
The following object is masked from 'package:boot':
melanoma
Attaching package: 'nFactors'
The following object is masked from 'package:lattice':
parallel
Loading required package: plm
Attaching package: 'plm'
The following objects are masked from 'package:VGAM':
has.intercept, nobs
The following object is masked from 'package:stats4':
nobs
The following objects are masked from 'package:cplm':
fixef, ranef
The following object is masked from 'package:lavaan':
nobs
══ Skipped tests ═══════════════════════════════════════════════════════════════
• On CRAN (5)
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure (test-model_parameters.aov_es_ci.R:15:5): model_parameters.aov ──────
mp$Omega2_CI_low (`actual`) not equal to c(0.29018, NA) (`expected`).
`actual`: 0.31 NA
`expected`: 0.29 NA
── Failure (test-model_parameters.aov_es_ci.R:29:5): model_parameters.aov ──────
mp$Eta2_CI_low (`actual`) not equal to c(0.53866, 0, 0, 0, 0, 0, 0, NA) (`expected`).
`actual[1:4]`: 0.56 0.00 0.00 0.00
`expected[1:4]`: 0.54 0.00 0.00 0.00
── Failure (test-model_parameters.aov_es_ci.R:89:7): model_parameters.car-anova ──
mp$Omega2_CI_low (`actual`) not equal to c(0, 0.0284, 0, NA) (`expected`).
`actual`: 0.000 0.051 0.007 NA
`expected`: 0.000 0.028 0.000 NA
── Failure (test-model_parameters.aov_es_ci.R:112:5): model_parameters.maov ────
mp$Omega2_CI_low (`actual`) not equal to c(0.71218, NA, 0.50841, NA, 0.53774, NA) (`expected`).
`actual`: 0.74 NA 0.55 NA 0.58 NA
`expected`: 0.71 NA 0.51 NA 0.54 NA
── Error (test-model_parameters.htest.R:37:5): (code run outside of `test_that()`) ──
Error: Cramer's V not applicable to goodness-of-fit tests.
Backtrace:
█
1. ├─parameters::model_parameters(...) test-model_parameters.htest.R:37:4
2. └─parameters:::model_parameters.htest(...)
3. └─parameters:::.extract_parameters_htest(...)
4. └─parameters:::.add_effectsize_chi2(...)
5. ├─effectsize::effectsize(...)
6. └─effectsize:::effectsize.htest(...)
7. └─effectsize:::f(...)
[ FAIL 5 | WARN 0 | SKIP 5 | PASS 424 ]
Error: Test failures
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.14.0
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘M3C’
Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-x86_64
Version: 0.14.0
Check: tests
Result: ERROR
Running 'spelling.R' [0s]
Running 'testthat.R' [177s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> if (require("testthat")) {
+ library(parameters)
+ if (length(strsplit(packageDescription("parameters")$Version, "\\.")[[1]]) > 3) {
+ Sys.setenv("RunAllparametersTests" = "yes")
+ } else {
+ Sys.setenv("RunAllparametersTests" = "no")
+ }
+
+ osx <- tryCatch(
+ {
+ si <- Sys.info()
+ if (!is.null(si["sysname"])) {
+ si["sysname"] == "Darwin" || grepl("^darwin", R.version$os)
+ } else {
+ FALSE
+ }
+ },
+ error = function(e) {
+ FALSE
+ }
+ )
+
+ if (!osx) {
+ test_check("parameters")
+ }
+ }
Loading required package: testthat
Registered S3 methods overwritten by 'parameters':
method from
as.double.parameters_kurtosis datawizard
as.double.parameters_skewness datawizard
as.double.parameters_smoothness datawizard
as.numeric.parameters_kurtosis datawizard
as.numeric.parameters_skewness datawizard
as.numeric.parameters_smoothness datawizard
print.parameters_distribution datawizard
print.parameters_kurtosis datawizard
print.parameters_skewness datawizard
summary.parameters_kurtosis datawizard
summary.parameters_skewness datawizard
Loading required package: lme4
Loading required package: Matrix
Loading required package: GLMMadaptive
Attaching package: 'GLMMadaptive'
The following object is masked from 'package:lme4':
negative.binomial
Model has no zero-inflation component!
Model has no zero-inflation component!
Model has no zero-inflation component!
Loading required package: MCMCglmm
Loading required package: coda
Loading required package: ape
Loading required package: PMCMRplus
Loading required package: betareg
Loading required package: brglm2
Waiting for profiling to be done...
Computing bootstrap confidence intervals ...
167 message(s): boundary (singular) fit: see ?isSingular
Loading required package: insight
Loading required package: survival
Loading required package: bayestestR
Attaching package: 'bayestestR'
The following object is masked from 'package:insight':
reshape_ci
Loading required package: splines
Loading required package: pscl
Classes and Methods for R developed in the
Political Science Computational Laboratory
Department of Political Science
Stanford University
Simon Jackman
hurdle and zeroinfl functions by Achim Zeileis
Gu & Wahba 4 term additive model
4 term additive + random effectGu & Wahba 4 term additive model
Maximum number of PQL iterations: 20
iteration 1
iteration 2
iteration 3
Loading required package: gee
Beginning Cgee S-function, @(#) geeformula.q 4.13 98/01/27
running glm to get initial regression estimate
(Intercept) tensionM tensionH
36.38889 -10.00000 -14.72222
Loading required package: geepack
Loading required package: AER
Loading required package: car
Loading required package: carData
Loading required package: lmtest
Loading required package: zoo
Attaching package: 'zoo'
The following objects are masked from 'package:base':
as.Date, as.Date.numeric
Loading required package: sandwich
Loading required package: lavaan
This is lavaan 0.6-9
lavaan is FREE software! Please report any bugs.
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
Loading required package: logspline
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Contrasts set to contr.sum for the following variables: treatment, gender
Loading required package: effectsize
Loading required package: gam
Loading required package: foreach
Loaded gam 1.20
Attaching package: 'gam'
The following objects are masked from 'package:mgcv':
gam, gam.control, gam.fit, s
Loading required package: blme
Loading required package: cplm
Attaching package: 'cplm'
The following object is masked from 'package:nlme':
VarCorr
The following object is masked from 'package:lme4':
VarCorr
Loading required package: psych
Attaching package: 'psych'
The following object is masked from 'package:effectsize':
phi
The following object is masked from 'package:lavaan':
cor2cov
The following object is masked from 'package:car':
logit
The following object is masked from 'package:testthat':
describe
Loading required package: FactoMineR
Loading required namespace: GPArotation
Loading required package: multcomp
Loading required package: mvtnorm
Loading required package: TH.data
Loading required package: MASS
Attaching package: 'MASS'
The following object is masked from 'package:GLMMadaptive':
negative.binomial
Attaching package: 'TH.data'
The following object is masked from 'package:MASS':
geyser
Loading required package: boot
Attaching package: 'boot'
The following object is masked from 'package:psych':
logit
The following object is masked from 'package:car':
logit
The following object is masked from 'package:survival':
aml
Loading required package: mediation
mediation: Causal Mediation Analysis
Version: 4.5.0
Attaching package: 'mediation'
The following object is masked from 'package:psych':
mediate
Loading required package: metafor
Loading the 'metafor' package (version 3.0-2). For an
introduction to the package please type: help(metafor)
Attaching package: 'metafor'
The following object is masked from 'package:cplm':
ranef
The following object is masked from 'package:car':
vif
Loading required package: mfx
Loading required package: bbmle
Loading required package: stats4
Loading required package: truncreg
Loading required package: maxLik
Loading required package: miscTools
Attaching package: 'miscTools'
The following object is masked from 'package:bbmle':
stdEr
Please cite the 'maxLik' package as:
Henningsen, Arne and Toomet, Ott (2011). maxLik: A package for maximum likelihood estimation in R. Computational Statistics 26(3), 443-458. DOI 10.1007/s00180-010-0217-1.
If you have questions, suggestions, or comments regarding the 'maxLik' package, please use a forum or 'tracker' at maxLik's R-Forge site:
https://r-forge.r-project.org/projects/maxlik/
Loading required package: VGAM
Attaching package: 'VGAM'
The following object is masked from 'package:bbmle':
AICc
The following objects are masked from 'package:boot':
logit, simplex
The following objects are masked from 'package:psych':
fisherz, logistic, logit
The following object is masked from 'package:gam':
s
The following object is masked from 'package:AER':
tobit
The following object is masked from 'package:lmtest':
lrtest
The following object is masked from 'package:car':
logit
The following object is masked from 'package:mgcv':
s
The following object is masked from 'package:coda':
nvar
Loading required package: lmerTest
Attaching package: 'lmerTest'
The following object is masked from 'package:lme4':
lmer
The following object is masked from 'package:stats':
step
Loading required package: pbkrtest
Loading required package: clubSandwich
Loading required package: nFactors
Loading required package: lattice
Attaching package: 'lattice'
The following object is masked from 'package:boot':
melanoma
Attaching package: 'nFactors'
The following object is masked from 'package:lattice':
parallel
Loading required package: plm
Attaching package: 'plm'
The following objects are masked from 'package:VGAM':
has.intercept, nobs
The following object is masked from 'package:stats4':
nobs
The following objects are masked from 'package:cplm':
fixef, ranef
The following object is masked from 'package:lavaan':
nobs
== Skipped tests ===============================================================
* On CRAN (5)
== Failed tests ================================================================
-- Failure (test-model_parameters.aov_es_ci.R:15:5): model_parameters.aov ------
mp$Omega2_CI_low (`actual`) not equal to c(0.29018, NA) (`expected`).
`actual`: 0.31 NA
`expected`: 0.29 NA
-- Failure (test-model_parameters.aov_es_ci.R:29:5): model_parameters.aov ------
mp$Eta2_CI_low (`actual`) not equal to c(0.53866, 0, 0, 0, 0, 0, 0, NA) (`expected`).
`actual[1:4]`: 0.56 0.00 0.00 0.00
`expected[1:4]`: 0.54 0.00 0.00 0.00
-- Failure (test-model_parameters.aov_es_ci.R:89:7): model_parameters.car-anova --
mp$Omega2_CI_low (`actual`) not equal to c(0, 0.0284, 0, NA) (`expected`).
`actual`: 0.000 0.051 0.007 NA
`expected`: 0.000 0.028 0.000 NA
-- Failure (test-model_parameters.aov_es_ci.R:112:5): model_parameters.maov ----
mp$Omega2_CI_low (`actual`) not equal to c(0.71218, NA, 0.50841, NA, 0.53774, NA) (`expected`).
`actual`: 0.74 NA 0.55 NA 0.58 NA
`expected`: 0.71 NA 0.51 NA 0.54 NA
-- Error (test-model_parameters.htest.R:37:5): (code run outside of `test_that()`) --
Error: Cramer's V not applicable to goodness-of-fit tests.
Backtrace:
x
1. +-parameters::model_parameters(...) test-model_parameters.htest.R:37:4
2. \-parameters:::model_parameters.htest(...)
3. \-parameters:::.extract_parameters_htest(...)
4. \-parameters:::.add_effectsize_chi2(...)
5. +-effectsize::effectsize(...)
6. \-effectsize:::effectsize.htest(...)
7. \-effectsize:::f(...)
[ FAIL 5 | WARN 0 | SKIP 5 | PASS 424 ]
Error: Test failures
Execution halted
Flavor: r-release-windows-ix86+x86_64
Version: 0.14.0
Check: tests
Result: ERROR
Running 'spelling.R' [0s]
Running 'testthat.R' [162s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> if (require("testthat")) {
+ library(parameters)
+ if (length(strsplit(packageDescription("parameters")$Version, "\\.")[[1]]) > 3) {
+ Sys.setenv("RunAllparametersTests" = "yes")
+ } else {
+ Sys.setenv("RunAllparametersTests" = "no")
+ }
+
+ osx <- tryCatch(
+ {
+ si <- Sys.info()
+ if (!is.null(si["sysname"])) {
+ si["sysname"] == "Darwin" || grepl("^darwin", R.version$os)
+ } else {
+ FALSE
+ }
+ },
+ error = function(e) {
+ FALSE
+ }
+ )
+
+ if (!osx) {
+ test_check("parameters")
+ }
+ }
Loading required package: testthat
Registered S3 methods overwritten by 'parameters':
method from
as.double.parameters_kurtosis datawizard
as.double.parameters_skewness datawizard
as.double.parameters_smoothness datawizard
as.numeric.parameters_kurtosis datawizard
as.numeric.parameters_skewness datawizard
as.numeric.parameters_smoothness datawizard
print.parameters_distribution datawizard
print.parameters_kurtosis datawizard
print.parameters_skewness datawizard
summary.parameters_kurtosis datawizard
summary.parameters_skewness datawizard
Loading required package: lme4
Loading required package: Matrix
Loading required package: GLMMadaptive
Attaching package: 'GLMMadaptive'
The following object is masked from 'package:lme4':
negative.binomial
Model has no zero-inflation component!
Model has no zero-inflation component!
Model has no zero-inflation component!
Loading required package: MCMCglmm
Loading required package: coda
Loading required package: ape
Loading required package: PMCMRplus
Loading required package: betareg
Loading required package: brglm2
Waiting for profiling to be done...
Computing bootstrap confidence intervals ...
167 message(s): boundary (singular) fit: see ?isSingular
Loading required package: insight
Loading required package: survival
Loading required package: bayestestR
Attaching package: 'bayestestR'
The following object is masked from 'package:insight':
reshape_ci
Loading required package: splines
Loading required package: pscl
Classes and Methods for R developed in the
Political Science Computational Laboratory
Department of Political Science
Stanford University
Simon Jackman
hurdle and zeroinfl functions by Achim Zeileis
Gu & Wahba 4 term additive model
4 term additive + random effectGu & Wahba 4 term additive model
Maximum number of PQL iterations: 20
iteration 1
iteration 2
iteration 3
Loading required package: gee
Beginning Cgee S-function, @(#) geeformula.q 4.13 98/01/27
running glm to get initial regression estimate
(Intercept) tensionM tensionH
36.38889 -10.00000 -14.72222
Loading required package: geepack
Loading required package: AER
Loading required package: car
Loading required package: carData
Loading required package: lmtest
Loading required package: zoo
Attaching package: 'zoo'
The following objects are masked from 'package:base':
as.Date, as.Date.numeric
Loading required package: sandwich
Loading required package: lavaan
This is lavaan 0.6-9
lavaan is FREE software! Please report any bugs.
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
Loading required package: logspline
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Multiple `BFBayesFactor` models detected - posteriors are extracted from the first numerator model.
See help("get_parameters", package = "insight").
Contrasts set to contr.sum for the following variables: treatment, gender
Loading required package: effectsize
Loading required package: gam
Loading required package: foreach
Loaded gam 1.20
Attaching package: 'gam'
The following objects are masked from 'package:mgcv':
gam, gam.control, gam.fit, s
Loading required package: blme
Loading required package: cplm
Attaching package: 'cplm'
The following object is masked from 'package:nlme':
VarCorr
The following object is masked from 'package:lme4':
VarCorr
Loading required package: psych
Attaching package: 'psych'
The following object is masked from 'package:effectsize':
phi
The following object is masked from 'package:lavaan':
cor2cov
The following object is masked from 'package:car':
logit
The following object is masked from 'package:testthat':
describe
Loading required package: FactoMineR
Loading required namespace: GPArotation
Loading required package: multcomp
Loading required package: mvtnorm
Loading required package: TH.data
Loading required package: MASS
Attaching package: 'MASS'
The following object is masked from 'package:GLMMadaptive':
negative.binomial
Attaching package: 'TH.data'
The following object is masked from 'package:MASS':
geyser
Loading required package: boot
Attaching package: 'boot'
The following object is masked from 'package:psych':
logit
The following object is masked from 'package:car':
logit
The following object is masked from 'package:survival':
aml
Loading required package: mediation
mediation: Causal Mediation Analysis
Version: 4.5.0
Attaching package: 'mediation'
The following object is masked from 'package:psych':
mediate
Loading required package: metafor
Loading the 'metafor' package (version 3.0-2). For an
introduction to the package please type: help(metafor)
Attaching package: 'metafor'
The following object is masked from 'package:cplm':
ranef
The following object is masked from 'package:car':
vif
Loading required package: mfx
Loading required package: bbmle
Loading required package: stats4
Loading required package: truncreg
Loading required package: maxLik
Loading required package: miscTools
Attaching package: 'miscTools'
The following object is masked from 'package:bbmle':
stdEr
Please cite the 'maxLik' package as:
Henningsen, Arne and Toomet, Ott (2011). maxLik: A package for maximum likelihood estimation in R. Computational Statistics 26(3), 443-458. DOI 10.1007/s00180-010-0217-1.
If you have questions, suggestions, or comments regarding the 'maxLik' package, please use a forum or 'tracker' at maxLik's R-Forge site:
https://r-forge.r-project.org/projects/maxlik/
Loading required package: VGAM
Attaching package: 'VGAM'
The following object is masked from 'package:bbmle':
AICc
The following objects are masked from 'package:boot':
logit, simplex
The following objects are masked from 'package:psych':
fisherz, logistic, logit
The following object is masked from 'package:gam':
s
The following object is masked from 'package:AER':
tobit
The following object is masked from 'package:lmtest':
lrtest
The following object is masked from 'package:car':
logit
The following object is masked from 'package:mgcv':
s
The following object is masked from 'package:coda':
nvar
Loading required package: lmerTest
Attaching package: 'lmerTest'
The following object is masked from 'package:lme4':
lmer
The following object is masked from 'package:stats':
step
Loading required package: pbkrtest
Loading required package: clubSandwich
Loading required package: nFactors
Loading required package: lattice
Attaching package: 'lattice'
The following object is masked from 'package:boot':
melanoma
Attaching package: 'nFactors'
The following object is masked from 'package:lattice':
parallel
Loading required package: plm
Attaching package: 'plm'
The following objects are masked from 'package:VGAM':
has.intercept, nobs
The following object is masked from 'package:stats4':
nobs
The following objects are masked from 'package:cplm':
fixef, ranef
The following object is masked from 'package:lavaan':
nobs
== Skipped tests ===============================================================
* On CRAN (5)
== Failed tests ================================================================
-- Failure (test-model_parameters.aov_es_ci.R:15:5): model_parameters.aov ------
mp$Omega2_CI_low (`actual`) not equal to c(0.29018, NA) (`expected`).
`actual`: 0.31 NA
`expected`: 0.29 NA
-- Failure (test-model_parameters.aov_es_ci.R:29:5): model_parameters.aov ------
mp$Eta2_CI_low (`actual`) not equal to c(0.53866, 0, 0, 0, 0, 0, 0, NA) (`expected`).
`actual[1:4]`: 0.56 0.00 0.00 0.00
`expected[1:4]`: 0.54 0.00 0.00 0.00
-- Failure (test-model_parameters.aov_es_ci.R:89:7): model_parameters.car-anova --
mp$Omega2_CI_low (`actual`) not equal to c(0, 0.0284, 0, NA) (`expected`).
`actual`: 0.000 0.051 0.007 NA
`expected`: 0.000 0.028 0.000 NA
-- Failure (test-model_parameters.aov_es_ci.R:112:5): model_parameters.maov ----
mp$Omega2_CI_low (`actual`) not equal to c(0.71218, NA, 0.50841, NA, 0.53774, NA) (`expected`).
`actual`: 0.74 NA 0.55 NA 0.58 NA
`expected`: 0.71 NA 0.51 NA 0.54 NA
-- Error (test-model_parameters.htest.R:37:5): (code run outside of `test_that()`) --
Error: Cramer's V not applicable to goodness-of-fit tests.
Backtrace:
x
1. +-parameters::model_parameters(...) test-model_parameters.htest.R:37:4
2. \-parameters:::model_parameters.htest(...)
3. \-parameters:::.extract_parameters_htest(...)
4. \-parameters:::.add_effectsize_chi2(...)
5. +-effectsize::effectsize(...)
6. \-effectsize:::effectsize.htest(...)
7. \-effectsize:::f(...)
[ FAIL 5 | WARN 0 | SKIP 5 | PASS 424 ]
Error: Test failures
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64