Last updated on 2025-01-09 01:49:59 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.4-2 | ERROR | ||||
| r-devel-linux-x86_64-debian-gcc | 0.4-2 | 5.42 | 111.07 | 116.49 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.4-2 | 285.81 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 0.4-2 | 269.62 | OK | |||
| r-devel-windows-x86_64 | 0.4-2 | 10.00 | 179.00 | 189.00 | OK | |
| r-patched-linux-x86_64 | 0.4-2 | 7.93 | 155.17 | 163.10 | OK | |
| r-release-linux-x86_64 | 0.4-2 | 7.40 | 159.24 | 166.64 | OK | |
| r-release-macos-arm64 | 0.4-2 | 74.00 | OK | |||
| r-release-macos-x86_64 | 0.4-2 | 113.00 | OK | |||
| r-release-windows-x86_64 | 0.4-2 | 9.00 | 176.00 | 185.00 | OK | |
| r-oldrel-macos-arm64 | 0.4-2 | 78.00 | OK | |||
| r-oldrel-macos-x86_64 | 0.4-2 | 138.00 | OK | |||
| r-oldrel-windows-x86_64 | 0.4-2 | 12.00 | 223.00 | 235.00 | OK |
Version: 0.4-2
Check: tests
Result: ERROR
Running ‘GBSG2-Ex.R’ [4s/5s]
Running ‘regtest-shift-scale.R’ [2s/3s]
Running ‘regtest-traforest.R’ [32s/38s]
Running ‘regtest-trafotree.R’ [4s/6s]
Running the tests in ‘tests/GBSG2-Ex.R’ failed.
Complete output:
>
> suppressWarnings(RNGversion("3.5.2"))
>
> library("trtf")
Loading required package: mlt
Loading required package: basefun
Loading required package: variables
Loading required package: partykit
Loading required package: grid
Attaching package: 'grid'
The following object is masked from 'package:variables':
unit
Loading required package: libcoin
Loading required package: mvtnorm
Loading required package: tram
> library("partykit")
> library("survival")
> data("GBSG2", package = "TH.data")
> set.seed(290875)
> ### Make UL and Windooze happy
> options(digits = 5)
>
> yvar <- numeric_var("y", support = c(100, 2000), bounds = c(0, Inf))
> By <- Bernstein_basis(yvar, order = 5, ui = "incre")
> m <- ctm(response = By, todistr = "MinExt")
> GBSG2$y <- with(GBSG2, Surv(time, cens))
>
> ctrl <- ctree_control(splitstat = "quad", teststat = "quad", minsplit = 40, minbucket = 20)
> st2 <- trafotree(m, formula = y ~ horTh + age + menostat + tsize + tgrade +
+ pnodes + progrec + estrec, control = ctrl, data = GBSG2)
>
> coef(st2)
Bs1(y) Bs2(y) Bs3(y) Bs4(y) Bs5(y) Bs6(y)
3 -3.7201 -0.60370 -0.60370 -0.36144 -0.13315 -0.13315
4 -6.1479 -1.21945 -1.21945 -1.21945 -0.84907 -0.59174
6 -4.2362 -0.42467 -0.42467 -0.16971 -0.16971 0.15229
7 -2.9301 0.22528 0.22528 0.22528 0.41536 0.62964
> logLik(st2)
'log Lik.' -2571.1 (df=24)
> logLik(st2, newdata = GBSG2)
'log Lik.' -2571.1 (df=24)
>
> predict(st2, newdata = GBSG2[1:3,], type = "node")
1 2 3
4 6 6
> predict(st2, newdata = GBSG2[1:3,], type = "coef")
Bs1(y) Bs2(y) Bs3(y) Bs4(y) Bs5(y) Bs6(y)
4 -6.1479 -1.21945 -1.21945 -1.21945 -0.84907 -0.59174
6 -4.2362 -0.42467 -0.42467 -0.16971 -0.16971 0.15229
6 -4.2362 -0.42467 -0.42467 -0.16971 -0.16971 0.15229
> predict(st2, newdata = GBSG2[1:3,], type = "hazard")
[,1] [,2] [,3]
[1,] 0.0000e+00 0.00000000 0.00000000
[2,] 2.9349e-05 0.00015119 0.00015119
[3,] 7.8176e-05 0.00030685 0.00030685
[4,] 1.5955e-04 0.00050786 0.00050786
[5,] 2.6012e-04 0.00070888 0.00070888
[6,] 3.5168e-04 0.00085936 0.00085936
[7,] 4.0786e-04 0.00092841 0.00092841
[8,] 4.1869e-04 0.00091451 0.00091451
[9,] 3.9225e-04 0.00083867 0.00083867
[10,] 3.4638e-04 0.00073070 0.00073070
[11,] 2.9897e-04 0.00061778 0.00061778
[12,] 2.6246e-04 0.00051912 0.00051912
[13,] 2.4287e-04 0.00044562 0.00044562
[14,] 2.4126e-04 0.00040212 0.00040212
[15,] 2.5551e-04 0.00039045 0.00039045
[16,] 2.8169e-04 0.00041213 0.00041213
[17,] 3.1447e-04 0.00047067 0.00047067
[18,] 3.4703e-04 0.00057394 0.00057394
[19,] 3.7069e-04 0.00073697 0.00073697
[20,] 3.7474e-04 0.00098676 0.00098676
>
> plot(st2, tp_args = list(type = "survivor"))
>
> class(st2) <- class(st2)[-1L]
> plot(st2)
>
> st1 <- ctree(y ~ horTh + age + menostat + tsize + tgrade +
+ pnodes + progrec + estrec, data = GBSG2, control = ctrl)
Error in loadNamespace(x) : there is no package called 'coin'
Calls: ctree ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Running the tests in ‘tests/regtest-shift-scale.R’ failed.
Complete output:
>
> library("tram")
Loading required package: mlt
Loading required package: basefun
Loading required package: variables
Loading required package: mvtnorm
> library("trtf")
Loading required package: partykit
Loading required package: grid
Attaching package: 'grid'
The following object is masked from 'package:variables':
unit
Loading required package: libcoin
> library("coin")
Error in library("coin") : there is no package called 'coin'
Execution halted
Running the tests in ‘tests/regtest-trafotree.R’ failed.
Complete output:
>
> suppressWarnings(RNGversion("3.5.2"))
>
> library("trtf")
Loading required package: mlt
Loading required package: basefun
Loading required package: variables
Loading required package: partykit
Loading required package: grid
Attaching package: 'grid'
The following object is masked from 'package:variables':
unit
Loading required package: libcoin
Loading required package: mvtnorm
Loading required package: tram
> library("survival")
> data("GBSG2", package = "TH.data")
> set.seed(290875)
> ### Make UL and Windooze happy
> options(digits = 5)
>
> yvar <- numeric_var("y", support = c(100, 2000), bounds = c(0, Inf))
> By <- Bernstein_basis(yvar, order = 5, ui = "incre")
> m <- ctm(response = By, todistr = "MinExt")
> GBSG2$y <- with(GBSG2, Surv(time, cens))
>
> ctrl <- ctree_control(splitstat = "quad", teststat = "quad", minsplit = 40, minbucket = 20)
> st2 <- trafotree(m, formula = y ~ horTh + age + menostat + tsize + tgrade +
+ pnodes + progrec + estrec, control = ctrl, data = GBSG2)
>
> coef(st2)
Bs1(y) Bs2(y) Bs3(y) Bs4(y) Bs5(y) Bs6(y)
3 -3.7201 -0.60370 -0.60370 -0.36144 -0.13315 -0.13315
4 -6.1479 -1.21945 -1.21945 -1.21945 -0.84907 -0.59174
6 -4.2362 -0.42467 -0.42467 -0.16971 -0.16971 0.15229
7 -2.9301 0.22528 0.22528 0.22528 0.41536 0.62964
> logLik(st2)
'log Lik.' -2571.1 (df=24)
> logLik(st2, newdata = GBSG2)
'log Lik.' -2571.1 (df=24)
> logLik(st2, newdata = GBSG2[1:10,])
'log Lik.' -56.966 (df=24)
> sum(sapply(1:10, function(i) logLik(st2, newdata = GBSG2[i,, drop = FALSE])))
[1] -56.966
>
> predict(st2, newdata = GBSG2[1:3,], type = "node")
1 2 3
4 6 6
> predict(st2, newdata = GBSG2[1:3,], type = "coef")
Bs1(y) Bs2(y) Bs3(y) Bs4(y) Bs5(y) Bs6(y)
4 -6.1479 -1.21945 -1.21945 -1.21945 -0.84907 -0.59174
6 -4.2362 -0.42467 -0.42467 -0.16971 -0.16971 0.15229
6 -4.2362 -0.42467 -0.42467 -0.16971 -0.16971 0.15229
> predict(st2, newdata = GBSG2[1:3,], type = "hazard")
[,1] [,2] [,3]
[1,] 0.0000e+00 0.00000000 0.00000000
[2,] 2.9349e-05 0.00015119 0.00015119
[3,] 7.8176e-05 0.00030685 0.00030685
[4,] 1.5955e-04 0.00050786 0.00050786
[5,] 2.6012e-04 0.00070888 0.00070888
[6,] 3.5168e-04 0.00085936 0.00085936
[7,] 4.0786e-04 0.00092841 0.00092841
[8,] 4.1869e-04 0.00091451 0.00091451
[9,] 3.9225e-04 0.00083867 0.00083867
[10,] 3.4638e-04 0.00073070 0.00073070
[11,] 2.9897e-04 0.00061778 0.00061778
[12,] 2.6246e-04 0.00051912 0.00051912
[13,] 2.4287e-04 0.00044562 0.00044562
[14,] 2.4126e-04 0.00040212 0.00040212
[15,] 2.5551e-04 0.00039045 0.00039045
[16,] 2.8169e-04 0.00041213 0.00041213
[17,] 3.1447e-04 0.00047067 0.00047067
[18,] 3.4703e-04 0.00057394 0.00057394
[19,] 3.7069e-04 0.00073697 0.00073697
[20,] 3.7474e-04 0.00098676 0.00098676
>
> plot(st2, tp_args = list(type = "survivor"))
>
> st21 <- st2
> class(st21) <- class(st21)[-1L]
> plot(st21)
>
> simulate(st2, newdata = GBSG2[1:3,], nsim = 3)
[[1]]
[1] (2000, Inf] 1715.3 1942.4
[[2]]
[1] 1765.5 (2000, Inf] (2000, Inf]
[[3]]
[1] 968.81 (2000, Inf] 640.67
>
> st1 <- ctree(y ~ horTh + age + menostat + tsize + tgrade +
+ pnodes + progrec + estrec, data = GBSG2, control = ctrl)
Error in loadNamespace(x) : there is no package called 'coin'
Calls: ctree ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang