Last updated on 2020-07-26 07:49:48 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.1 | 21.81 | 209.66 | 231.47 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 1.0.1 | 19.75 | 155.22 | 174.97 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.0.1 | 274.51 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0.1 | 399.12 | OK | |||
| r-devel-windows-ix86+x86_64 | 1.0.1 | 78.00 | 232.00 | 310.00 | ERROR | |
| r-patched-linux-x86_64 | 1.0.1 | 16.65 | 202.46 | 219.11 | ERROR | |
| r-patched-solaris-x86 | 1.0.1 | 452.40 | ERROR | |||
| r-release-linux-x86_64 | 1.0.1 | 15.26 | 202.60 | 217.86 | ERROR | |
| r-release-windows-ix86+x86_64 | 1.0.1 | 44.00 | 239.00 | 283.00 | ERROR | |
| r-oldrel-macos-x86_64 | 1.0.1 | OK | ||||
| r-oldrel-windows-ix86+x86_64 | 1.0.1 | 41.00 | 224.00 | 265.00 | ERROR |
Version: 1.0.1
Check: examples
Result: ERROR
Running examples in 'missCompare-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: MAP
> ### Title: Missing data spike-in in MAP pattern
> ### Aliases: MAP
>
> ### ** Examples
>
> cleaned <- clean(clindata_miss, missingness_coding = -9)
Variable(s) sex, education converted to numeric.
Variable(s) PPG removed due to exceeding the pre-defined removal threshold (>50%) for missingness.
> metadata <- get_data(cleaned)
Error in value[[3L]](cond) :
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Calls: get_data ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 1.0.1
Check: tests
Result: ERROR
Running 'testthat.R' [43s/100s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(missCompare)
Attaching package: 'missCompare'
The following object is masked from 'package:stats':
simulate
>
> test_check("missCompare")
-- 1. Error: (unknown) (@test.get_data.R#14) ----------------------------------
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=18290 on localhost:11262 at 01:37:49.310
starting worker pid=18291 on localhost:11262 at 01:37:49.406
[1] "missForest imputation - in progress"
There were 16 warnings (use warnings() to see them)
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=24961 on localhost:11262 at 01:38:06.806
starting worker pid=24960 on localhost:11262 at 01:38:06.848
There were 11 warnings (use warnings() to see them)
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=2834 on localhost:11262 at 01:38:33.228
starting worker pid=2836 on localhost:11262 at 01:38:33.246
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=10203 on localhost:11262 at 01:38:58.840
starting worker pid=10204 on localhost:11262 at 01:38:58.882
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
-- 2. Error: (unknown) (@test.imp_simulation.R#8) -----------------------------
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
== testthat results ===========================================================
[ OK: 27 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 2 ]
1. Error: (unknown) (@test.get_data.R#14)
2. Error: (unknown) (@test.imp_simulation.R#8)
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.0.1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building 'misscompare.Rmd' using rmarkdown
Quitting from lines 136-139 (misscompare.Rmd)
Error: processing vignette 'misscompare.Rmd' failed with diagnostics:
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
--- failed re-building 'misscompare.Rmd'
SUMMARY: processing the following file failed:
'misscompare.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 1.0.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [31s/96s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(missCompare)
Attaching package: 'missCompare'
The following object is masked from 'package:stats':
simulate
>
> test_check("missCompare")
── 1. Error: (unknown) (@test.get_data.R#14) ──────────────────────────────────
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=10570 on localhost:11815 at 22:39:21.004
starting worker pid=10569 on localhost:11815 at 22:39:21.010
[1] "missForest imputation - in progress"
There were 15 warnings (use warnings() to see them)
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=18317 on localhost:11815 at 22:39:38.448
starting worker pid=18316 on localhost:11815 at 22:39:38.477
Warning messages:
1: algorithm did not converge
2: algorithm did not converge
3: algorithm did not converge
4: algorithm did not converge
5: algorithm did not converge
6: algorithm did not converge
7: algorithm did not converge
8: algorithm did not converge
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=30598 on localhost:11815 at 22:40:05.486
starting worker pid=30597 on localhost:11815 at 22:40:05.535
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=8998 on localhost:11815 at 22:40:29.454
starting worker pid=8999 on localhost:11815 at 22:40:29.577
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
── 2. Error: (unknown) (@test.imp_simulation.R#8) ─────────────────────────────
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 27 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 2 ]
1. Error: (unknown) (@test.get_data.R#14)
2. Error: (unknown) (@test.imp_simulation.R#8)
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.0.1
Check: examples
Result: ERROR
Running examples in ‘missCompare-Ex.R’ failed
The error most likely occurred in:
> ### Name: MAP
> ### Title: Missing data spike-in in MAP pattern
> ### Aliases: MAP
>
> ### ** Examples
>
> cleaned <- clean(clindata_miss, missingness_coding = -9)
Variable(s) sex, education converted to numeric.
Variable(s) PPG removed due to exceeding the pre-defined removal threshold (>50%) for missingness.
> metadata <- get_data(cleaned)
Error in value[[3L]](cond) :
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Calls: get_data ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous>
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-ix86+x86_64, r-patched-solaris-x86, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [43s/117s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(missCompare)
Attaching package: 'missCompare'
The following object is masked from 'package:stats':
simulate
>
> test_check("missCompare")
── 1. Error: (unknown) (@test.get_data.R#14) ──────────────────────────────────
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=2772552 on localhost:11719 at 17:18:20.226
starting worker pid=2772551 on localhost:11719 at 17:18:20.399
[1] "missForest imputation - in progress"
Warning messages:
1: algorithm did not converge
2: algorithm did not converge
3: algorithm did not converge
4: algorithm did not converge
5: algorithm did not converge
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=2774513 on localhost:11719 at 17:18:41.169
starting worker pid=2774511 on localhost:11719 at 17:18:41.226
Warning messages:
1: algorithm did not converge
2: algorithm did not converge
3: algorithm did not converge
4: algorithm did not converge
5: algorithm did not converge
6: algorithm did not converge
7: algorithm did not converge
8: algorithm did not converge
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=2777074 on localhost:11719 at 17:19:13.414
starting worker pid=2777073 on localhost:11719 at 17:19:13.647
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=2780841 on localhost:11719 at 17:19:42.521
starting worker pid=2780842 on localhost:11719 at 17:19:42.612
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
── 2. Error: (unknown) (@test.imp_simulation.R#8) ─────────────────────────────
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 27 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 2 ]
1. Error: (unknown) (@test.get_data.R#14)
2. Error: (unknown) (@test.imp_simulation.R#8)
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 1.0.1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘misscompare.Rmd’ using rmarkdown
Quitting from lines 136-139 (misscompare.Rmd)
Error: processing vignette 'misscompare.Rmd' failed with diagnostics:
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
--- failed re-building ‘misscompare.Rmd’
SUMMARY: processing the following file failed:
‘misscompare.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0.1
Check: tests
Result: ERROR
Running 'testthat.R' [74s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(missCompare)
Attaching package: 'missCompare'
The following object is masked from 'package:stats':
simulate
>
> test_check("missCompare")
-- 1. Error: (unknown) (@test.get_data.R#14) ----------------------------------
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=6112 on localhost:11300 at 15:09:39.585
starting worker pid=81712 on localhost:11300 at 15:09:39.694
Warning messages:
1: algorithm did not converge
2: algorithm did not converge
3: algorithm did not converge
4: algorithm did not converge
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=43348 on localhost:11300 at 15:09:52.642
starting worker pid=64080 on localhost:11300 at 15:09:52.642
There were 26 warnings (use warnings() to see them)
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=109984 on localhost:11300 at 15:10:13.612
starting worker pid=151636 on localhost:11300 at 15:10:13.753
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=69668 on localhost:11300 at 15:10:33.011
starting worker pid=66352 on localhost:11300 at 15:10:33.027
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
-- 2. Error: (unknown) (@test.imp_simulation.R#8) -----------------------------
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
== testthat results ===========================================================
[ OK: 27 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 2 ]
1. Error: (unknown) (@test.get_data.R#14)
2. Error: (unknown) (@test.imp_simulation.R#8)
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-windows-ix86+x86_64
Version: 1.0.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [42s/94s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(missCompare)
Attaching package: 'missCompare'
The following object is masked from 'package:stats':
simulate
>
> test_check("missCompare")
── 1. Error: (unknown) (@test.get_data.R#14) ──────────────────────────────────
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=17858 on localhost:11539 at 17:07:43.191
starting worker pid=17857 on localhost:11539 at 17:07:43.217
[1] "missForest imputation - in progress"
Warning messages:
1: algorithm did not converge
2: algorithm did not converge
3: algorithm did not converge
4: algorithm did not converge
5: algorithm did not converge
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=24881 on localhost:11539 at 17:07:58.587
starting worker pid=24880 on localhost:11539 at 17:07:58.758
Warning messages:
1: algorithm did not converge
2: algorithm did not converge
3: algorithm did not converge
4: algorithm did not converge
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=1878 on localhost:11539 at 17:08:24.181
starting worker pid=1877 on localhost:11539 at 17:08:24.338
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=9792 on localhost:11539 at 17:08:48.233
starting worker pid=9791 on localhost:11539 at 17:08:48.257
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
── 2. Error: (unknown) (@test.imp_simulation.R#8) ─────────────────────────────
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 27 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 2 ]
1. Error: (unknown) (@test.get_data.R#14)
2. Error: (unknown) (@test.imp_simulation.R#8)
Error: testthat unit tests failed
Execution halted
Flavor: r-patched-linux-x86_64
Version: 1.0.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [133s/164s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(missCompare)
Attaching package: 'missCompare'
The following object is masked from 'package:stats':
simulate
>
> test_check("missCompare")
── 1. Error: (unknown) (@test.get_data.R#14) ──────────────────────────────────
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=29279 on localhost:11123 at 17:47:03.271
starting worker pid=29280 on localhost:11123 at 17:47:03.679
[1] "missForest imputation - in progress"
There were 13 warnings (use warnings() to see them)
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=430 on localhost:11123 at 17:47:27.981
starting worker pid=429 on localhost:11123 at 17:47:28.644
There were 16 warnings (use warnings() to see them)
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=3004 on localhost:11123 at 17:48:06.198
starting worker pid=3005 on localhost:11123 at 17:48:06.735
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=5510 on localhost:11123 at 17:48:49.569
starting worker pid=5513 on localhost:11123 at 17:48:49.703
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
── 2. Error: (unknown) (@test.imp_simulation.R#8) ─────────────────────────────
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 27 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 2 ]
1. Error: (unknown) (@test.get_data.R#14)
2. Error: (unknown) (@test.imp_simulation.R#8)
Error: testthat unit tests failed
Execution halted
Flavor: r-patched-solaris-x86
Version: 1.0.1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building ‘misscompare.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Quitting from lines 136-139 (misscompare.Rmd)
Error: processing vignette 'misscompare.Rmd' failed with diagnostics:
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
--- failed re-building ‘misscompare.Rmd’
SUMMARY: processing the following file failed:
‘misscompare.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-solaris-x86
Version: 1.0.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [41s/95s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(missCompare)
Attaching package: 'missCompare'
The following object is masked from 'package:stats':
simulate
>
> test_check("missCompare")
── 1. Error: (unknown) (@test.get_data.R#14) ──────────────────────────────────
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=7742 on localhost:11602 at 09:09:31.412
starting worker pid=7741 on localhost:11602 at 09:09:31.442
[1] "missForest imputation - in progress"
Warning messages:
1: algorithm did not converge
2: algorithm did not converge
3: algorithm did not converge
4: algorithm did not converge
5: algorithm did not converge
6: algorithm did not converge
7: algorithm did not converge
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=14578 on localhost:11602 at 09:09:48.031
starting worker pid=14579 on localhost:11602 at 09:09:48.026
There were 20 warnings (use warnings() to see them)
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=24137 on localhost:11602 at 09:10:13.403
starting worker pid=24138 on localhost:11602 at 09:10:13.536
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=32552 on localhost:11602 at 09:10:38.911
starting worker pid=32551 on localhost:11602 at 09:10:38.983
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
── 2. Error: (unknown) (@test.imp_simulation.R#8) ─────────────────────────────
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 27 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 2 ]
1. Error: (unknown) (@test.get_data.R#14)
2. Error: (unknown) (@test.imp_simulation.R#8)
Error: testthat unit tests failed
Execution halted
Flavor: r-release-linux-x86_64
Version: 1.0.1
Check: tests
Result: ERROR
Running 'testthat.R' [76s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(missCompare)
Attaching package: 'missCompare'
The following object is masked from 'package:stats':
simulate
>
> test_check("missCompare")
-- 1. Error: (unknown) (@test.get_data.R#14) ----------------------------------
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=207416 on localhost:11065 at 16:09:00.652
starting worker pid=199736 on localhost:11065 at 16:09:00.745
There were 11 warnings (use warnings() to see them)
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=178948 on localhost:11065 at 16:09:14.199
starting worker pid=202288 on localhost:11065 at 16:09:14.277
There were 15 warnings (use warnings() to see them)
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=137376 on localhost:11065 at 16:09:37.218
starting worker pid=191232 on localhost:11065 at 16:09:37.265
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=118920 on localhost:11065 at 16:09:54.935
starting worker pid=74148 on localhost:11065 at 16:09:54.951
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
-- 2. Error: (unknown) (@test.imp_simulation.R#8) -----------------------------
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
== testthat results ===========================================================
[ OK: 27 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 2 ]
1. Error: (unknown) (@test.get_data.R#14)
2. Error: (unknown) (@test.imp_simulation.R#8)
Error: testthat unit tests failed
Execution halted
Flavor: r-release-windows-ix86+x86_64
Version: 1.0.1
Check: tests
Result: ERROR
Running 'testthat.R' [72s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(missCompare)
Attaching package: 'missCompare'
The following object is masked from 'package:stats':
simulate
>
> test_check("missCompare")
-- 1. Error: (unknown) (@test.get_data.R#14) ----------------------------------
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=173448 on localhost:11937 at 23:59:59.369
starting worker pid=137756 on localhost:11937 at 23:59:59.774
Warning messages:
1: algorithm did not converge
2: algorithm did not converge
3: algorithm did not converge
4: algorithm did not converge
5: algorithm did not converge
6: algorithm did not converge
7: algorithm did not converge
8: algorithm did not converge
9: algorithm did not converge
10: algorithm did not converge
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=133808 on localhost:11937 at 00:00:11.396
starting worker pid=30256 on localhost:11937 at 00:00:11.646
There were 12 warnings (use warnings() to see them)
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=66064 on localhost:11937 at 00:00:28.369
starting worker pid=51096 on localhost:11937 at 00:00:28.634
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods PPCA imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "pcaMethods NLPCA imputation - in progress"
[1] "mice mixed imputation - in progress"
[1] "mi imputation - in progress"
starting worker pid=46496 on localhost:11937 at 00:00:46.352
starting worker pid=27984 on localhost:11937 at 00:00:46.711
[1] "Amelia II imputation - in progress"
[1] "missForest imputation - in progress"
[1] "Hmisc aregImpute imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "Median imputation - in progress"
[1] "Mean imputation - in progress"
[1] "missMDA regularized imputation - in progress"
[1] "missMDA EM imputation - in progress"
[1] "pcaMethods svdImpute imputation - in progress"
[1] "pcaMethods BPCA imputation - in progress"
[1] "pcaMethods NIPALS imputation - in progress"
[1] "VIM kNN imputation - in progress"
[1] "random replacement imputation - in progress"
-- 2. Error: (unknown) (@test.imp_simulation.R#8) -----------------------------
The melt generic in data.table has been passed a matrix, but data.table::melt currently only has a method for data.tables. Please confirm your input is a data.table, with setDT(na_cor) or as.data.table(na_cor). If you intend to use a method from reshape2, try installing that package first, but do note that reshape2 is deprecated and you should be migrating your code away from using it.
Backtrace:
1. missCompare::get_data(cleaned, matrixplot_sort = T)
2. data.table::melt(na_cor)
3. base::tryCatch(...)
4. base:::tryCatchList(expr, classes, parentenv, handlers)
5. base:::tryCatchOne(expr, names, parentenv, handlers[[1L]])
6. value[[3L]](cond)
== testthat results ===========================================================
[ OK: 27 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 2 ]
1. Error: (unknown) (@test.get_data.R#14)
2. Error: (unknown) (@test.imp_simulation.R#8)
Error: testthat unit tests failed
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64