R Under development (unstable) (2023-12-18 r85702 ucrt) -- "Unsuffered Consequences"
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> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
> 
> library(testthat)
> library(riskRegression)
riskRegression version 2023.12.20
> 
> test_check("riskRegression")
[iidCox] internal consistency 
[iidCox] compare to timereg - no strata, no interaction, continuous 
[iidCox] compare to timereg - no strata, interaction, continuous 
[iidCox] compare to timereg - no covariate 
[iidCox] compare to timereg - no strata, no interaction, categorical 
[iidCox] compare to timereg - ties 
[iidCox] compare to timereg - strata 
[iidCox] compare to timereg - Melanoma 
[1] "X21" "X7"  "X9" 
[1] "X21" "X7"  "X9" 
[1] "X21" "X7"  "X9" 
[1] "X21" "X7"  "X9" 
[predictCox] Estimation of the baseline hazard (no strata) 
[predictCox] Estimation of the baseline hazard (strata) 
[predictCox] Estimation of the baseline hazard (time varying cov, no strata) 
[predictCox] Estimation of the baseline hazard (time varying cov, strata) 
[predictCox] Predictions (no strata, continuous) 
[predictCox] Predictions (no strata, categorical) 
[predictCox] Predictions (strata) 
[predictCox] SE/CI check against manual computation 
[predictCox] Argument 'diag' 
[predictCox] Confidence band vs timereg 
[predictCox] Check same result store.iid=minimal vs. full 
[predictCox] Does not handle weights 
[predictCox] dealing with negative timepoints or NA 
[predictCox] Previous bug 
[predictCoxPL] Check baseline hazard estimation vs survfit 
[predictCoxPL] Check argument 'diag' + iid vs predictCox 
[predictRisk.rfsrc]  
[predictRisk.CauseSpecificCox] 
[predictRisk.glm] vs. lava 
Testing binary data with 
Testing survival data with 
with formula=Hist(time,event) ~ 1 and conservative = FALSE 
with formula=Hist(time,event) ~ 1 and conservative = TRUE 
with formula=Hist(time,event) ~ X1+X2 and conservative = FALSE 
with formula=Hist(time,event) ~ X1+X2 and conservative = TRUE 
Testing competing.risks data with 
with formula=Hist(time,event) ~ 1 and conservative = FALSE 
with formula=Hist(time,event) ~ 1 and conservative = TRUE 
with formula=Hist(time,event) ~ X1+X2 and conservative = FALSE 
with formula=Hist(time,event) ~ X1+X2 and conservative = TRUE 
[1] "binary"
[1] "survival"
[1] "competing.risks"
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 468 ]
> 
> proc.time()
   user  system elapsed 
  25.70    1.07   26.78