Last updated on 2020-01-27 00:48:09 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0 | 3.51 | 138.89 | 142.40 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0 | 3.11 | 101.94 | 105.05 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0 | 172.98 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0 | 170.75 | OK | |||
| r-devel-windows-ix86+x86_64 | 1.0 | 11.00 | 211.00 | 222.00 | OK | |
| r-devel-windows-ix86+x86_64-gcc8 | 1.0 | 11.00 | 146.00 | 157.00 | OK | |
| r-patched-linux-x86_64 | 1.0 | 2.97 | 123.76 | 126.73 | OK | |
| r-patched-solaris-x86 | 1.0 | 281.20 | OK | |||
| r-release-linux-x86_64 | 1.0 | 3.02 | 123.88 | 126.90 | OK | |
| r-release-windows-ix86+x86_64 | 1.0 | 5.00 | 137.00 | 142.00 | OK | |
| r-release-osx-x86_64 | 1.0 | OK | ||||
| r-oldrel-windows-ix86+x86_64 | 1.0 | 4.00 | 116.00 | 120.00 | ERROR | |
| r-oldrel-osx-x86_64 | 1.0 | ERROR |
Version: 1.0
Check: tests
Result: ERROR
Running 'testthat.R' [121s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(nestfs)
nestfs 1.0: using 10 cores, set 'options(mc.cores)' to change.
> options(mc.cores=2)
>
> test_check("nestfs")
-- 1. Failure: linear regression (@test_forward_selection.R#15) ---------------
`fs.gauss` not equal to `fs.gauss.ok`.
Component "fs": Component "vars": 2 string mismatches
Component "fs": Component "fdr": Mean relative difference: 0.5444583
Component "fs": Component "llks": Mean relative difference: 0.001581259
Component "fs": Component "diffs": Mean relative difference: 0.1322846
Component "panel": 2 string mismatches
Component "final.model": 1 string mismatch
Component "iter1": Component "median.diff.llk": Mean relative difference: 0.1558413
Component "iter1": Component "total.diff.llk": Mean relative difference: 0.01215644
Component "iter1": Component "p.value": Mean relative difference: 0.3316292
...
-- 2. Failure: logistic regression (@test_forward_selection.R#31) -------------
`fs.binom` not equal to `fs.binom.ok`.
Component "fs": Component "fdr": Mean relative difference: 0.7318001
Component "fs": Component "llks": Mean relative difference: 0.001776588
Component "fs": Component "diffs": Mean relative difference: 0.01702872
Component "iter1": Component "median.diff.llk": Mean relative difference: 0.1436064
Component "iter1": Component "total.diff.llk": Mean relative difference: 0.01428037
Component "iter1": Component "p.value": Mean relative difference: 0.1796183
Component "all.iter": Component 1: Mean relative difference: 0.0849286
Component "all.iter": Component 2: Mean relative difference: 0.1306687
Component "all.iter": Component 3: Mean relative difference: 0.1403981
-- 3. Failure: init.model (@test_forward_selection.R#43) ----------------------
fs.1$panel not equal to c("ltg", "bmi", "map").
2/3 mismatches
x[1]: "bmi"
y[1]: "ltg"
x[2]: "ltg"
y[2]: "bmi"
-- 4. Failure: init.model (@test_forward_selection.R#45) ----------------------
fs.1$final.model not equal to "ltg + bmi + map".
1/1 mismatches
x[1]: "bmi + ltg + map"
y[1]: "ltg + bmi + map"
-- 5. Failure: init.model (@test_forward_selection.R#54) ----------------------
fs.1$panel not equal to c("ltg", "bmi", "map").
2/3 mismatches
x[1]: "bmi"
y[1]: "ltg"
x[2]: "ltg"
y[2]: "bmi"
-- 6. Failure: init.model (@test_forward_selection.R#56) ----------------------
fs.1$final.model not equal to "age + sex + ltg + bmi + map + age:sex".
1/1 mismatches
x[1]: "age + sex + bmi + ltg + map + age:sex"
y[1]: "age + sex + ltg + bmi + map + age:sex"
-- 7. Failure: init.model (@test_forward_selection.R#61) ----------------------
summ$llks[1:4] not equal to c(NA, -2137.599696, -2056.442947, -2004.43174).
3/4 mismatches (average diff: 3.4)
[2] -2136 - -2138 == 1.317
[3] -2048 - -2056 == 8.569
[4] -2004 - -2004 == 0.327
-- 8. Failure: univariate filter (@test_forward_selection.R#101) --------------
fs.1$fs not equal to fs.binom.ok$fs.
Component "fdr": Mean relative difference: 0.7318001
Component "llks": Mean relative difference: 0.001776588
Component "diffs": Mean relative difference: 0.01702872
-- 9. Failure: univariate filter (@test_forward_selection.R#110) --------------
`fs.1` not equal to `fs.2`.
Component "iter1": Attributes: < Component "row.names": 5 string mismatches >
Component "iter1": Component "median.diff.llk": Mean relative difference: 1.134273
Component "iter1": Component "total.diff.llk": Mean relative difference: 1.357721
Component "iter1": Component "p.value": Mean relative difference: 0.2476838
Component "all.iter": Component 1: Attributes: < Component 2: Component 1: 5 string mismatches >
Component "all.iter": Component 1: Mean relative difference: 0.01743853
-- 10. Failure: univariate filter (@test_forward_selection.R#111) -------------
fs.1$panel has length 0, not length 3.
-- 11. Failure: univariate filter (@test_forward_selection.R#122) -------------
fs.1$fs not equal to fs.binom.ok$fs.
Component "fdr": Mean relative difference: 0.7318001
Component "llks": Mean relative difference: 0.001776588
Component "diffs": Mean relative difference: 0.01702872
-- 12. Failure: nested forward selection (@test_nested.R#16) ------------------
`nest.gauss` not equal to `nest.gauss.ok`.
Component 1: Component 1: Component 1: 2 string mismatches
Component 1: Component 1: Component 2: Mean relative difference: 0.4098394
Component 1: Component 1: Component 3: Mean relative difference: 0.007496924
Component 1: Component 1: Component 4: Mean relative difference: 0.5630382
Component 1: Component 1: Component 6: Mean relative difference: 0.2587268
Component 1: Component 3: 2 string mismatches
Component 1: Component 5: 1 string mismatch
Component 1: Component 8: Component 1: Mean relative difference: 0.5232936
Component 1: Component 8: Component 2: Mean relative difference: 0.3151259
...
-- 13. Failure: nested forward selection (@test_nested.R#21) ------------------
summ.gauss$rank not equivalent to c(2, 1, 2, 3, 3).
Lengths differ: 4 is not 5
-- 14. Failure: nested forward selection (@test_nested.R#22) ------------------
summ.gauss$coefIQR[1] not equivalent to "(28.74, 30.17)".
1/1 mismatches
x[1]: "(25.50, 33.48)"
y[1]: "(28.74, 30.17)"
-- 15. Failure: nested forward selection (@test_nested.R#23) ------------------
summ.gauss$diffLogLikIQR[1] not equivalent to "(24.38, 40.36)".
1/1 mismatches
x[1]: "(30.75, 37.11)"
y[1]: "(24.38, 40.36)"
-- 16. Failure: nested forward selection (@test_nested.R#28) ------------------
rownames(summ.gauss.iter1) not equal to c("bmi", "ltg", "tch", "map", "hdl", "tc", "ldl").
2/7 mismatches
x[4]: "hdl"
y[4]: "map"
x[5]: "map"
y[5]: "hdl"
-- 17. Failure: nested forward selection (@test_nested.R#30) ------------------
summ.gauss.iter1$med.pvalue not equivalent to c(0.001, 0.001, 0.004, 0.003, 0.013, 0.213, 0.199).
6/7 mismatches (average diff: 0.032)
[1] 0.000 - 0.001 == -0.001
[2] 0.002 - 0.001 == 0.001
[3] 0.007 - 0.004 == 0.003
[5] 0.004 - 0.013 == -0.009
[6] 0.253 - 0.213 == 0.040
[7] 0.337 - 0.199 == 0.138
-- 18. Failure: nested forward selection (@test_nested.R#35) ------------------
`nest.binom` not equal to `nest.binom.ok`.
Component 1: Component 1: Component 1: 3 string mismatches
Component 1: Component 1: Component 2: Mean relative difference: 0.4198674
Component 1: Component 1: Component 3: Mean relative difference: 0.04518075
Component 1: Component 1: Component 4: Mean relative difference: 0.3275306
Component 1: Component 1: Component 6: Mean relative difference: 1.756273
Component 1: Component 3: 3 string mismatches
Component 1: Component 5: 1 string mismatch
Component 1: Component 8: Component 1: Mean relative difference: 0.4825096
Component 1: Component 8: Component 2: Mean relative difference: 0.4014058
...
-- 19. Failure: nested forward selection (@test_nested.R#48) ------------------
nest.cat[[1]]$panel not equal to c("bmi.cat").
Lengths differ: 2 is not 1
-- 20. Failure: nested forward selection (@test_nested.R#49) ------------------
is.na(nest.cat[[1]]$fs$coef) not equal to c(TRUE, TRUE).
Lengths (3, 2) differ (comparison on first 2 components)
-- 21. Failure: nested forward selection (@test_nested.R#52) ------------------
summ.cat$coef not equivalent to c(NA, -15.711).
1/2 mismatches
[2] -13.5 - -15.7 == 2.24
-- 22. Failure: nested forward selection (@test_nested.R#53) ------------------
summ.cat$diffLogLik not equivalent to c(25.599, 0.009).
2/2 mismatches (average diff: 0.943)
[1] 27.366 - 25.599 == 1.767
[2] 0.128 - 0.009 == 0.119
-- 23. Failure: nested forward selection old interface (@test_nested.R#61) ----
`nest.gauss` not equal to `nest.gauss.ok`.
Component 1: Component 1: Component 1: 2 string mismatches
Component 1: Component 1: Component 2: Mean relative difference: 0.4098394
Component 1: Component 1: Component 3: Mean relative difference: 0.007496924
Component 1: Component 1: Component 4: Mean relative difference: 0.5630382
Component 1: Component 1: Component 6: Mean relative difference: 0.2587268
Component 1: Component 3: 2 string mismatches
Component 1: Component 5: 1 string mismatch
Component 1: Component 8: Component 1: Mean relative difference: 0.5232936
Component 1: Component 8: Component 2: Mean relative difference: 0.3151259
...
-- 24. Failure: nested forward selection old interface (@test_nested.R#66) ----
summ.gauss$rank not equivalent to c(2, 1, 2, 3, 3).
Lengths differ: 4 is not 5
-- 25. Failure: nested forward selection old interface (@test_nested.R#67) ----
summ.gauss$coefIQR[1] not equivalent to "(28.74, 30.17)".
1/1 mismatches
x[1]: "(25.50, 33.48)"
y[1]: "(28.74, 30.17)"
-- 26. Failure: nested forward selection old interface (@test_nested.R#68) ----
summ.gauss$diffLogLikIQR[1] not equivalent to "(24.38, 40.36)".
1/1 mismatches
x[1]: "(30.75, 37.11)"
y[1]: "(24.38, 40.36)"
-- 27. Failure: nested forward selection old interface (@test_nested.R#73) ----
rownames(summ.gauss.iter1) not equal to c("bmi", "ltg", "tch", "map", "hdl", "tc", "ldl").
2/7 mismatches
x[4]: "hdl"
y[4]: "map"
x[5]: "map"
y[5]: "hdl"
-- 28. Failure: nested forward selection old interface (@test_nested.R#75) ----
summ.gauss.iter1$med.pvalue not equivalent to c(0.001, 0.001, 0.004, 0.003, 0.013, 0.213, 0.199).
6/7 mismatches (average diff: 0.032)
[1] 0.000 - 0.001 == -0.001
[2] 0.002 - 0.001 == 0.001
[3] 0.007 - 0.004 == 0.003
[5] 0.004 - 0.013 == -0.009
[6] 0.253 - 0.213 == 0.040
[7] 0.337 - 0.199 == 0.138
-- 29. Failure: nested forward selection old interface (@test_nested.R#81) ----
`nest.binom` not equal to `nest.binom.ok`.
Component 1: Component 1: Component 1: 3 string mismatches
Component 1: Component 1: Component 2: Mean relative difference: 0.4198674
Component 1: Component 1: Component 3: Mean relative difference: 0.04518075
Component 1: Component 1: Component 4: Mean relative difference: 0.3275306
Component 1: Component 1: Component 6: Mean relative difference: 1.756273
Component 1: Component 3: 3 string mismatches
Component 1: Component 5: 1 string mismatch
Component 1: Component 8: Component 1: Mean relative difference: 0.4825096
Component 1: Component 8: Component 2: Mean relative difference: 0.4014058
...
-- 30. Failure: nested forward selection old interface (@test_nested.R#96) ----
nest.cat[[1]]$panel not equal to c("bmi.cat").
Lengths differ: 2 is not 1
-- 31. Failure: nested forward selection old interface (@test_nested.R#97) ----
is.na(nest.cat[[1]]$fs$coef) not equal to c(TRUE, TRUE).
Lengths (3, 2) differ (comparison on first 2 components)
-- 32. Failure: nested forward selection old interface (@test_nested.R#100) ---
summ.cat$coef not equivalent to c(NA, -15.711).
1/2 mismatches
[2] -13.5 - -15.7 == 2.24
-- 33. Failure: nested forward selection old interface (@test_nested.R#101) ---
summ.cat$diffLogLik not equivalent to c(25.599, 0.009).
2/2 mismatches (average diff: 0.943)
[1] 27.366 - 25.599 == 1.767
[2] 0.128 - 0.009 == 0.119
-- 34. Failure: nested.glm (@test_nested.R#110) -------------------------------
`glm.gauss` not equal to `glm.gauss.ok`.
Component 1: Component 1: Mean relative difference: 0.1129298
Component 1: Component 3: Names: 207 string mismatches
Component 1: Component 3: Mean relative difference: 0.3408638
Component 1: Component 4: Mean relative difference: 0.5631371
Component 1: Component 5: Mean relative difference: 0.01137558
Component 1: Component 6: Mean relative difference: 0.0232809
Component 2: Component 1: Mean relative difference: 0.109113
Component 2: Component 3: Names: 206 string mismatches
Component 2: Component 3: Mean relative difference: 0.3468208
...
-- 35. Failure: nested.glm (@test_nested.R#114) -------------------------------
`glm.binom` not equal to `glm.binom.ok`.
Component 1: Component 1: Mean relative difference: 0.3823878
Component 1: Component 3: Names: 207 string mismatches
Component 1: Component 3: Mean relative difference: 0.5236705
Component 1: Component 4: Mean relative difference: 1.927273
Component 1: Component 5: Mean relative difference: 0.120696
Component 1: Component 6: Mean relative difference: 0.0232809
Component 2: Component 1: Mean relative difference: 0.3970286
Component 2: Component 3: Names: 206 string mismatches
Component 2: Component 3: Mean relative difference: 0.6415311
...
-- 36. Failure: nested.glm (@test_nested.R#121) -------------------------------
perf.gauss$performance not equal to 0.62174173.
1/1 mismatches
[1] 0.605 - 0.622 == -0.017
-- 37. Failure: nested.glm (@test_nested.R#126) -------------------------------
perf.binom$performance not equal to 0.78288733.
1/1 mismatches
[1] 0.776 - 0.783 == -0.00659
== testthat results ===========================================================
[ OK: 130 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 37 ]
1. Failure: linear regression (@test_forward_selection.R#15)
2. Failure: logistic regression (@test_forward_selection.R#31)
3. Failure: init.model (@test_forward_selection.R#43)
4. Failure: init.model (@test_forward_selection.R#45)
5. Failure: init.model (@test_forward_selection.R#54)
6. Failure: init.model (@test_forward_selection.R#56)
7. Failure: init.model (@test_forward_selection.R#61)
8. Failure: univariate filter (@test_forward_selection.R#101)
9. Failure: univariate filter (@test_forward_selection.R#110)
1. ...
Error: testthat unit tests failed
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64
Version: 1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [101s/52s]
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
══ testthat results ═══════════════════════════════════════════════════════════
[ OK: 130 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 37 ]
1. Failure: linear regression (@test_forward_selection.R#15)
2. Failure: logistic regression (@test_forward_selection.R#31)
3. Failure: init.model (@test_forward_selection.R#43)
4. Failure: init.model (@test_forward_selection.R#45)
5. Failure: init.model (@test_forward_selection.R#54)
6. Failure: init.model (@test_forward_selection.R#56)
7. Failure: init.model (@test_forward_selection.R#61)
8. Failure: univariate filter (@test_forward_selection.R#101)
9. Failure: univariate filter (@test_forward_selection.R#110)
1. ...
Error: testthat unit tests failed
Execution halted
Flavor: r-oldrel-osx-x86_64