Last updated on 2020-08-07 01:49:36 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.1.0 | 2.22 | 52.76 | 54.98 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.1.0 | 1.83 | 40.81 | 42.64 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.1.0 | 72.95 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.1.0 | 63.82 | OK | |||
| r-devel-windows-ix86+x86_64 | 1.1.0 | 9.00 | 145.00 | 154.00 | OK | |
| r-patched-linux-x86_64 | 1.1.0 | 2.20 | 51.11 | 53.31 | OK | |
| r-patched-solaris-x86 | 1.1.0 | 189.80 | OK | |||
| r-release-linux-x86_64 | 1.1.0 | 2.41 | 51.89 | 54.30 | OK | |
| r-release-macos-x86_64 | 1.1.0 | OK | ||||
| r-release-windows-ix86+x86_64 | 1.1.0 | 17.00 | 55.00 | 72.00 | ERROR | |
| r-oldrel-macos-x86_64 | 1.1.0 | OK | ||||
| r-oldrel-windows-ix86+x86_64 | 1.1.0 | 4.00 | 96.00 | 100.00 | OK |
Version: 1.1.0
Check: examples
Result: ERROR
Running examples in 'bootImpute-Ex.R' failed
The error most likely occurred in:
> ### Name: bootImpute
> ### Title: Bootstrap then impute an incomplete dataset
> ### Aliases: bootImpute
>
> ### ** Examples
>
> #this example shows how you can use bootImpute to impute using the mice
> #package. If you do want to impute using MICE you can instead use the
> #bootMice function, which essentially contains the code below
> library(mice)
Attaching package: 'mice'
The following objects are masked from 'package:base':
cbind, rbind
>
> #write a wrapper function to call mice with one imputation and return
> #the imputed dataset
> impOnce <- function(inputData) {
+ oneImp <- mice::mice(inputData, m=1)
+ mice::complete(oneImp)
+ }
>
> #bootstrap twice and impute each twice
> #in practice you should bootstrap many more times, e.g. at least 200
> imps <- bootImpute(ex_linquad, impOnce, nBoot=2, nImp=2, seed=564764)
Warning in bootImpute(ex_linquad, impOnce, nBoot = 2, nImp = 2, seed = 564764) :
It is recommended to use at least 200 bootstraps.
iter imp variable
1 1 xError in matcher(yhatobs, yhatmis, k = donors) :
function 'enterRNGScope' not provided by package 'Rcpp'
Calls: bootImpute ... sampler.univ -> do.call -> mice.impute.pmm -> matcher
Execution halted
Flavor: r-release-windows-ix86+x86_64
Version: 1.1.0
Check: tests
Result: ERROR
Running 'testthat.R' [18s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(bootImpute)
>
> test_check("bootImpute")
Estimate Std. error 95% CI lower 95% CI upper p
(Intercept) 0.07915058 0.19747184 -0.3108593 0.4691604 6.890917e-01
x 0.87482487 0.16079989 0.5572895 1.1923603 1.931226e-07
x2 -0.01858405 0.06370239 -0.1451103 0.1079422 7.711511e-01
Estimate Std. error 95% CI lower 95% CI upper p
[1,] 1 0 NaN NaN NaN
iter imp variable
1 1 x-- 1. Failure: Testing bootMice works (@test_bootImpute.r#75) -----------------
`{ ... }` threw an error.
Message: function 'enterRNGScope' not provided by package 'Rcpp'
Class: simpleError/error/condition
Backtrace:
1. testthat::expect_error(...)
6. bootImpute::bootMice(ex_linquad, nBoot = 10, nImp = 2)
7. bootImpute::bootImpute(...)
8. bootImpute:::impfun(obsdata[bsIndices, ], ...)
9. mice::mice(inputData, m = 1, ...)
10. mice:::sampler(...)
11. mice:::sampler.univ(...)
13. mice::mice.impute.pmm(...)
14. mice:::matcher(yhatobs, yhatmis, k = donors)
[1] "Outcome variable(s): y"
[1] "Passive variables: xsq"
[1] "Partially obs. variables: x"
[1] "Fully obs. substantive model variables: z"
[1] "Imputation 1"
[1] "Imputing: x using z plus outcome"
[1] "Outcome variable(s): y"
[1] "Passive variables: xsq"
[1] "Partially obs. variables: x"
[1] "Fully obs. substantive model variables: z"
[1] "Imputation 1"
[1] "Imputing: x using z plus outcome"
[1] "Outcome variable(s): y"
[1] "Passive variables: xsq"
[1] "Partially obs. variables: x"
[1] "Fully obs. substantive model variables: z"
[1] "Imputation 1"
[1] "Imputing: x using z plus outcome"
[1] "Outcome variable(s): y"
[1] "Passive variables: xsq"
[1] "Partially obs. variables: x"
[1] "Fully obs. substantive model variables: z"
[1] "Imputation 1"
[1] "Imputing: x using z plus outcome"
Estimate Std. error 95% CI lower 95% CI upper p
(Intercept) 0.07324015 0.17813009 -0.2786614 0.4251417 6.815276e-01
x 0.87813736 0.15575323 0.5706295 1.1856452 7.227343e-08
x2 -0.01727423 0.06691675 -0.1501987 0.1156503 7.968788e-01
Estimate Std. error 95% CI lower 95% CI upper p
(Intercept) 0.07324015 0.17813009 -0.2786614 0.4251417 6.815276e-01
x 0.87813736 0.15575323 0.5706295 1.1856452 7.227343e-08
x2 -0.01727423 0.06691675 -0.1501987 0.1156503 7.968788e-01
-- 2. Failure: Test bootImpute runs using multiple cores with mice (@test_parall
`{ ... }` threw an error.
Message: 2 nodes produced errors; first error: function 'enterRNGScope' not provided by package 'Rcpp'
Class: simpleError/error/condition
Backtrace:
1. testthat::expect_error(...)
6. bootImpute::bootMice(...)
7. bootImpute::bootImpute(...)
8. parallel::parLapply(...)
10. parallel::clusterApply(...)
11. parallel:::staticClusterApply(cl, fun, length(x), argfun)
12. parallel:::checkForRemoteErrors(val)
-- 3. Failure: Test bootImpute runs using multiple cores with mice with extra ar
`{ ... }` threw an error.
Message: 2 nodes produced errors; first error: function 'enterRNGScope' not provided by package 'Rcpp'
Class: simpleError/error/condition
Backtrace:
1. testthat::expect_error(...)
6. bootImpute::bootMice(...)
7. bootImpute::bootImpute(...)
8. parallel::parLapply(...)
10. parallel::clusterApply(...)
11. parallel:::staticClusterApply(cl, fun, length(x), argfun)
12. parallel:::checkForRemoteErrors(val)
Estimate Std. error 95% CI lower 95% CI upper p
(Intercept) -0.01028169 0.2680221 -0.6223072 0.6017438 0.9702874228
x 0.96952393 0.1163650 0.6835377 1.2555102 0.0001782262
Estimate Std. error 95% CI lower 95% CI upper p
(Intercept) -0.01028169 0.2680221 -0.6223072 0.6017438 0.9702874228
x 0.96952393 0.1163650 0.6835377 1.2555102 0.0001782262
== testthat results ===========================================================
[ OK: 7 | SKIPPED: 0 | WARNINGS: 3 | FAILED: 3 ]
1. Failure: Testing bootMice works (@test_bootImpute.r#75)
2. Failure: Test bootImpute runs using multiple cores with mice (@test_parallel.R#35)
3. Failure: Test bootImpute runs using multiple cores with mice with extra arguments (@test_parallel.R#49)
Error: testthat unit tests failed
In addition: Warning messages:
1: In for (i in seq_len(n)) { :
closing unused connection 7 (<-CRANwin.fb05.statistik.uni-dortmund.de:11071)
2: In for (i in seq_len(n)) { :
closing unused connection 6 (<-CRANwin.fb05.statistik.uni-dortmund.de:11071)
3: In for (i in seq_len(n)) { :
closing unused connection 5 (<-CRANwin.fb05.statistik.uni-dortmund.de:11071)
4: In for (i in seq_len(n)) { :
closing unused connection 4 (<-CRANwin.fb05.statistik.uni-dortmund.de:11071)
Execution halted
Flavor: r-release-windows-ix86+x86_64