Last updated on 2022-09-11 12:56:48 CEST.
| Package | ERROR | OK |
|---|---|---|
| idmTPreg | 3 | 10 |
Current CRAN status: ERROR: 3, 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 0.381694361 1.74448847 3.240730367 6.560281e-11
Age -0.005980971 0.005385741 -0.01653702 0.004575081 2.667752e-01
Nodes -0.074748098 0.023525655 -0.12085838 -0.028637813 1.486525e-03
treatmentLev 0.039682347 0.342869977 -0.63234281 0.711707502 9.078619e-01
treatmentLev.5FU 0.929566117 0.371092778 0.20222427 1.656907962 1.224713e-02
[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 45.793521 -0.401888881 6.26264521 -18.53823536 3.1044597
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 8.624436e+04 0.223823389 6.98867365 8.624633e+04 8.624899e+04
2 185 5.534205e-01 0.008436063 0.02763900 2.386206e-01 2.396429e-01
3 200 3.816944e-01 0.005385741 0.02352566 3.428700e-01 3.710928e-01
Lower limit:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 -1.689932e+05 -0.84058272 -7.4351552 -1.690613e+05 -1.690449e+05
2 185 1.551403e+00 -0.02371994 -0.1334151 -3.662602e-01 5.773648e-01
3 200 1.744488e+00 -0.01653702 -0.1208584 -6.323428e-01 2.022243e-01
Upper limit:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 1.690847e+05 0.036804961 19.96044557 1.690243e+05 1.690511e+05
2 185 3.720811e+00 0.009349433 -0.02507019 5.691324e-01 1.516765e+00
3 200 3.240730e+00 0.004575081 -0.02863781 7.117075e-01 1.656908e+00
p.value:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 9.995763e-01 0.07256413 0.370192117 0.9998285 9.999713e-01
2 185 1.904546e-06 0.39436378 0.004143065 0.6707684 1.246617e-05
3 200 6.560281e-11 0.26677519 0.001486525 0.9078619 1.224713e-02
[1] "18 observation(s) deleted due to missingness from 'data'"
>
>
>
> cleanEx()
Error: connections left open:
<-CRANWIN2.fb05.statistik.uni-dortmund.de:11800 (sockconn)
Execution halted
Flavor: r-devel-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 0.77855131 0.96664885 4.01856999 0.001366669
Age -0.005980971 0.01082586 -0.02719965 0.01523771 0.580625804
Nodes -0.074748098 0.03008675 -0.13371814 -0.01577806 0.012976312
treatmentLev 0.039682347 0.30849208 -0.56496213 0.64432682 0.897647834
treatmentLev.5FU 0.929566117 0.35904850 0.22583106 1.63330117 0.009626322
[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 1.806624e+11 0.27512446 8.27939884 1.806624e+11 1.806624e+11
2 185 7.777174e-01 0.01129688 0.03384322 2.841943e-01 4.145071e-01
3 200 7.785513e-01 0.01082586 0.03008675 3.084921e-01 3.590485e-01
Lower limit:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 -3.540983e+11 -0.94113282 -9.9649765 -3.540983e+11 -3.540983e+11
2 185 1.111781e+00 -0.02932713 -0.1455754 -4.555847e-01 2.346309e-01
3 200 9.666488e-01 -0.02719965 -0.1337181 -5.649621e-01 2.258311e-01
Upper limit:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 3.540983e+11 0.13735506 22.49026694 3.540983e+11 3.540983e+11
2 185 4.160433e+00 0.01495662 -0.01290992 6.584568e-01 1.859499e+00
3 200 4.018570e+00 0.01523771 -0.01577806 6.443268e-01 1.633301e+00
p.value:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 0.9999999960 0.1440832 0.44940159 1.0000000 0.999999996
2 185 0.0007000918 0.5247511 0.01920835 0.7211479 0.011535370
3 200 0.0013666691 0.5806258 0.01297631 0.8976478 0.009626322
[1] "18 observation(s) deleted due to missingness from 'data'"
>
>
>
> cleanEx()
Error: connections left open:
<-CRANWIN2.fb05.statistik.uni-dortmund.de:11645 (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 0.68343479 1.15307723 3.83214161 0.0002651346
Age -0.005980971 0.01143897 -0.02840136 0.01643942 0.6010723833
Nodes -0.074748098 0.02873385 -0.13106644 -0.01842975 0.0092845409
treatmentLev 0.039682347 0.29599628 -0.54047036 0.61983505 0.8933522287
treatmentLev.5FU 0.929566117 0.34825048 0.24699518 1.61213705 0.0076021800
[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 2.548546e+11 3.52035450 20.40964681 2.548546e+11 2.548546e+11
2 185 9.275369e-01 0.01338023 0.03421789 3.382056e-01 3.946101e-01
3 200 6.834348e-01 0.01143897 0.02873385 2.959963e-01 3.482505e-01
Lower limit:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 -4.995151e+11 -7.30178369 -33.7402625 -4.995151e+11 -4.995151e+11
2 185 8.181345e-01 -0.03341050 -0.1463097 -5.614468e-01 2.736292e-01
3 200 1.153077e+00 -0.02840136 -0.1310664 -5.404704e-01 2.469952e-01
Upper limit:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 4.995151e+11 6.49800593 46.26555296 4.995151e+11 4.995151e+11
2 185 4.454079e+00 0.01904000 -0.01217557 7.643190e-01 1.820501e+00
3 200 3.832142e+00 0.01643942 -0.01842975 6.198351e-01 1.612137e+00
p.value:
time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
1 56 0.9999999972 0.9091098 0.758959596 1.0000000 0.999999997
2 185 0.0044824361 0.5912642 0.020567842 0.7642349 0.007968146
3 200 0.0002651346 0.6010724 0.009284541 0.8933522 0.007602180
[1] "18 observation(s) deleted due to missingness from 'data'"
>
>
>
> cleanEx()
Error: connections left open:
<-CRANwin.fb05.statistik.uni-dortmund.de:11701 (sockconn)
Execution halted
Flavor: r-oldrel-windows-ix86+x86_64