Last updated on 2022-04-24 03:52:58 CEST.
| Package | ERROR | OK |
|---|---|---|
| idmTPreg | 2 | 10 |
Current CRAN status: ERROR: 2, OK: 10
Version: 1.1
Check: examples
Result: ERROR
Running examples in 'idmTPreg-Ex.R' failed
The error most likely occurred in:
> ### Name: TPreg
> ### Title: Regression Modeling of Transition Probabilities in a Progressive
> ### Illness-Death Model
> ### Aliases: TPreg
>
> ### ** Examples
>
> data(colonTPreg)
>
> co11 <- TPreg( ~ Age + Nodes + treatment, colonTPreg, link = "logit", s = 50, R = 19, t = 200,
+ trans = "11", ncores = 1)
Warning in TPreg(~Age + Nodes + treatment, colonTPreg, link = "logit", s = 50, :
Nodes variable in 'data' has missing value(s),
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
> co11
Call:
TPreg(formula = ~Age + Nodes + treatment, data = colonTPreg,
link = "logit", s = 50, t = 200, R = 19, trans = "11", ncores = 1)
Transition:
[1] "11"
(s,t):
[1] 50 200
Coefficients:
Estimate St.Err LW.L UP.L P.value
X.Intercept. 2.492609419 0.81138404 0.90229670 4.08292214 0.0021259668
Age -0.005980971 0.01164200 -0.02879929 0.01683735 0.6074331481
Nodes -0.074748098 0.03262192 -0.13868707 -0.01080913 0.0219434427
treatmentLev 0.039682347 0.31311865 -0.57403021 0.65339490 0.8991520271
treatmentLev.5FU 0.929566117 0.25633681 0.42714597 1.43198626 0.0002874594
[1] "18 observations deleted due to missingness from 'data'"
> summary(co11)
Call:
TPreg(formula = ~Age + Nodes + treatment, data = colonTPreg,
link = "logit", s = 50, t = 200, R = 19, trans = "11", ncores = 1)
(s,t):
[1] 50 200
Transition 11 :
Coefficients:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 -895.023387 -0.401888881 6.26264521 922.27867219 943.9213673
2 185 2.636107 -0.007185251 -0.07924264 0.10143607 1.0470649
3 200 2.492609 -0.005980971 -0.07474810 0.03968235 0.9295661
Standard Errors:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 4.723448e+10 3.00485238 10.26156977 4.723448e+10 4.723448e+10
2 185 8.176989e-01 0.01249678 0.03285293 3.318467e-01 2.582302e-01
3 200 8.113840e-01 0.01164200 0.03262192 3.131186e-01 2.563368e-01
Lower limit:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 -9.257959e+10 -6.29139954 -13.8500315 -9.257958e+10 -9.257957e+10
2 185 1.033417e+00 -0.03167894 -0.1436344 -5.489834e-01 5.409337e-01
3 200 9.022967e-01 -0.02879929 -0.1386871 -5.740302e-01 4.271460e-01
Upper limit:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 9.257958e+10 5.48762178 26.37532197 9.257959e+10 9.257957e+10
2 185 4.238797e+00 0.01730844 -0.01485090 7.518556e-01 1.553196e+00
3 200 4.082922e+00 0.01683735 -0.01080913 6.533949e-01 1.431986e+00
p.value:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 0.999999985 0.8936029 0.54166250 1.0000000 1.000000e+00
2 185 0.001264969 0.5653128 0.01586345 0.7598548 5.018298e-05
3 200 0.002125967 0.6074331 0.02194344 0.8991520 2.874594e-04
[1] "18 observation(s) deleted due to missingness from 'data'"
>
>
>
> cleanEx()
Error: connections left open:
<-CRANWIN2.fb05.statistik.uni-dortmund.de:11409 (sockconn)
Execution halted
Flavor: r-release-windows-x86_64
Version: 1.1
Check: examples
Result: ERROR
Running examples in 'idmTPreg-Ex.R' failed
The error most likely occurred in:
> ### Name: TPreg
> ### Title: Regression Modeling of Transition Probabilities in a Progressive
> ### Illness-Death Model
> ### Aliases: TPreg
>
> ### ** Examples
>
> data(colonTPreg)
>
> co11 <- TPreg( ~ Age + Nodes + treatment, colonTPreg, link = "logit", s = 50, R = 19, t = 200,
+ trans = "11", ncores = 1)
Warning in TPreg(~Age + Nodes + treatment, colonTPreg, link = "logit", s = 50, :
Nodes variable in 'data' has missing value(s),
Warning in model.matrix.default(mt, mf, contrasts) :
non-list contrasts argument ignored
> co11
Call:
TPreg(formula = ~Age + Nodes + treatment, data = colonTPreg,
link = "logit", s = 50, t = 200, R = 19, trans = "11", ncores = 1)
Transition:
[1] "11"
(s,t):
[1] 50 200
Coefficients:
Estimate St.Err LW.L UP.L P.value
X.Intercept. 2.492609419 0.83116567 0.86352470 4.12169414 0.0027092768
Age -0.005980971 0.01365524 -0.03274524 0.02078330 0.6613875872
Nodes -0.074748098 0.02198211 -0.11783303 -0.03166317 0.0006728576
treatmentLev 0.039682347 0.29715464 -0.54274074 0.62210543 0.8937654892
treatmentLev.5FU 0.929566117 0.44234463 0.06257065 1.79656159 0.0356012843
[1] "18 observations deleted due to missingness from 'data'"
> summary(co11)
Call:
TPreg(formula = ~Age + Nodes + treatment, data = colonTPreg,
link = "logit", s = 50, t = 200, R = 19, trans = "11", ncores = 1)
(s,t):
[1] 50 200
Transition 11 :
Coefficients:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 -895.023387 -0.401888881 6.26264521 922.27867219 943.9213673
2 185 2.636107 -0.007185251 -0.07924264 0.10143607 1.0470649
3 200 2.492609 -0.005980971 -0.07474810 0.03968235 0.9295661
Standard Errors:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 1.034573e+15 4.99544494 28.09476267 1.034573e+15 1.034573e+15
2 185 6.835312e-01 0.01081033 0.03797883 2.717561e-01 5.546291e-01
3 200 8.311657e-01 0.01365524 0.02198211 2.971546e-01 4.423446e-01
Lower limit:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 -2.027763e+15 -10.19296096 -48.8030896 -2.027763e+15 -2.027763e+15
2 185 1.296386e+00 -0.02837349 -0.1536811 -4.312058e-01 -4.000817e-02
3 200 8.635247e-01 -0.03274524 -0.1178330 -5.427407e-01 6.257065e-02
Upper limit:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 2.027763e+15 9.38918320 61.328380051 2.027763e+15 2.027763e+15
2 185 3.975828e+00 0.01400299 -0.004804139 6.340780e-01 2.134138e+00
3 200 4.121694e+00 0.02078330 -0.031663168 6.221054e-01 1.796562e+00
p.value:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 1.0000000000 0.9358785 0.8236043992 1.0000000 1.00000000
2 185 0.0001149747 0.5062644 0.0369337919 0.7089539 0.05904408
3 200 0.0027092768 0.6613876 0.0006728576 0.8937655 0.03560128
[1] "18 observation(s) deleted due to missingness from 'data'"
>
>
>
> cleanEx()
Error: connections left open:
<-CRANwin.fb05.statistik.uni-dortmund.de:11189 (sockconn)
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64