CRAN Package Check Results for Package nestfs

Last updated on 2019-11-14 09:49:35 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0 2.83 135.42 138.25 OK
r-devel-linux-x86_64-debian-gcc 1.0 2.79 99.73 102.52 OK
r-devel-linux-x86_64-fedora-clang 1.0 164.53 OK
r-devel-linux-x86_64-fedora-gcc 1.0 165.99 OK
r-devel-windows-ix86+x86_64 1.0 12.00 124.00 136.00 OK
r-patched-linux-x86_64 1.0 2.57 127.95 130.52 OK
r-patched-solaris-x86 1.0 286.00 OK
r-release-linux-x86_64 1.0 2.89 128.15 131.04 OK
r-release-windows-ix86+x86_64 1.0 6.00 183.00 189.00 OK
r-release-osx-x86_64 1.0 OK
r-oldrel-windows-ix86+x86_64 1.0 4.00 194.00 198.00 ERROR
r-oldrel-osx-x86_64 1.0 ERROR

Check Details

Version: 1.0
Check: tests
Result: ERROR
     Running 'testthat.R' [119s]
    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#111) --------------
     fs.1$panel has length 0, not length 3.
    
     -- 10. 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
    
     -- 11. 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
     ...
    
     -- 12. 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
    
     -- 13. 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)"
    
     -- 14. 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)"
    
     -- 15. 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"
    
     -- 16. 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
    
     -- 17. 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
     ...
    
     -- 18. Failure: nested forward selection (@test_nested.R#48) ------------------
     nest.cat[[1]]$panel not equal to c("bmi.cat").
     Lengths differ: 2 is not 1
    
     -- 19. 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)
    
     -- 20. 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
    
     -- 21. 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
    
     -- 22. 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
     ...
    
     -- 23. 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
    
     -- 24. 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)"
    
     -- 25. 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)"
    
     -- 26. 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"
    
     -- 27. 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
    
     -- 28. 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
     ...
    
     -- 29. 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
    
     -- 30. 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)
    
     -- 31. 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
    
     -- 32. 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
    
     -- 33. 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
     ...
    
     -- 34. 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
     ...
    
     -- 35. 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
    
     -- 36. 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: 131 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 36 ]
     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#111)
     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’ [111s/57s]
    Running the tests in ‘tests/testthat.R’ failed.
    Last 13 lines of output:
     ══ testthat results ═══════════════════════════════════════════════════════════
     [ OK: 131 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 36 ]
     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#111)
     1. ...
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-oldrel-osx-x86_64