CRAN Package Check Results for Package idmTPreg

Last updated on 2019-04-24 13:54:36 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1 6.64 58.07 64.71 OK
r-devel-linux-x86_64-debian-gcc 1.1 5.02 46.03 51.05 OK
r-devel-linux-x86_64-fedora-clang 1.1 75.90 OK
r-devel-linux-x86_64-fedora-gcc 1.1 77.38 OK
r-devel-windows-ix86+x86_64 1.1 19.00 70.00 89.00 ERROR
r-patched-linux-x86_64 1.1 5.34 57.50 62.84 OK
r-patched-solaris-x86 1.1 119.10 OK
r-release-linux-x86_64 1.1 5.48 55.06 60.54 OK
r-release-windows-ix86+x86_64 1.1 6.00 97.00 103.00 OK
r-release-osx-x86_64 1.1 OK
r-oldrel-windows-ix86+x86_64 1.1 13.00 98.00 111.00 OK
r-oldrel-osx-x86_64 1.1 OK

Check Details

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 0.89815652 0.73222264 4.252996197 0.005515919
    Age -0.005980971 0.01345162 -0.03234615 0.020384213 0.656588498
    Nodes -0.074748098 0.03953489 -0.15223647 0.002740277 0.058666124
    treatmentLev 0.039682347 0.20066670 -0.35362438 0.432989079 0.843238691
    treatmentLev.5FU 0.929566117 0.28393934 0.37304500 1.486087231 0.001061044
    
    
    [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 6.333476e+11 2.44493572 17.38809304 6.333476e+11 6.333476e+11
    2 185 9.580255e-01 0.01328203 0.02466884 3.577912e-01 4.186031e-01
    3 200 8.981565e-01 0.01345162 0.03953489 2.006667e-01 2.839393e-01
    
     Lower limit:
     time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
    1 56 -1.241361e+12 -5.19396290 -27.8180171 -1.241361e+12 -1.241361e+12
    2 185 7.583769e-01 -0.03321803 -0.1275936 -5.998348e-01 2.266029e-01
    3 200 7.322226e-01 -0.03234615 -0.1522365 -3.536244e-01 3.730450e-01
    
     Upper limit:
     time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
    1 56 1.241361e+12 4.39018514 40.343307562 1.241361e+12 1.241361e+12
    2 185 4.513837e+00 0.01884753 -0.030891712 8.027069e-01 1.867527e+00
    3 200 4.252996e+00 0.02038421 0.002740277 4.329891e-01 1.486087e+00
    
     p.value:
     time X.Intercept. Age Nodes treatmentLev treatmentLev.5FU
    1 56 0.999999999 0.8694351 0.718721051 1.0000000 0.999999999
    2 185 0.005930417 0.5885245 0.001316968 0.7767888 0.012372743
    3 200 0.005515919 0.6565885 0.058666124 0.8432387 0.001061044
    
    
    [1] "18 observation(s) deleted due to missingness from 'data'"
    >
    >
    >
    > cleanEx()
    Error: connections left open:
     <-CRANwin.fb05.statistik.uni-dortmund.de:11285 (sockconn)
    Execution halted
Flavor: r-devel-windows-ix86+x86_64