R version 4.5.0 RC (2025-04-04 r88118 ucrt) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # 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(serosv)
> 
> test_check("serosv")

SAMPLING FOR MODEL 'fra_2' NOW (CHAIN 1).
Chain 1: 
Chain 1: Gradient evaluation took 5.5e-05 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.55 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1: 
Chain 1: 
Chain 1: Iteration:    1 / 5000 [  0%]  (Warmup)
Chain 1: Iteration:  500 / 5000 [ 10%]  (Warmup)
Chain 1: Iteration: 1000 / 5000 [ 20%]  (Warmup)
Chain 1: Iteration: 1500 / 5000 [ 30%]  (Warmup)
Chain 1: Iteration: 1501 / 5000 [ 30%]  (Sampling)
Chain 1: Iteration: 2000 / 5000 [ 40%]  (Sampling)
Chain 1: Iteration: 2500 / 5000 [ 50%]  (Sampling)
Chain 1: Iteration: 3000 / 5000 [ 60%]  (Sampling)
Chain 1: Iteration: 3500 / 5000 [ 70%]  (Sampling)
Chain 1: Iteration: 4000 / 5000 [ 80%]  (Sampling)
Chain 1: Iteration: 4500 / 5000 [ 90%]  (Sampling)
Chain 1: Iteration: 5000 / 5000 [100%]  (Sampling)
Chain 1: 
Chain 1:  Elapsed Time: 2.129 seconds (Warm-up)
Chain 1:                1.065 seconds (Sampling)
Chain 1:                3.194 seconds (Total)
Chain 1: 

SAMPLING FOR MODEL 'fra_3' NOW (CHAIN 1).
Chain 1: Rejecting initial value:
Chain 1:   Log probability evaluates to log(0), i.e. negative infinity.
Chain 1:   Stan can't start sampling from this initial value.
Chain 1: Rejecting initial value:
Chain 1:   Log probability evaluates to log(0), i.e. negative infinity.
Chain 1:   Stan can't start sampling from this initial value.
Chain 1: Rejecting initial value:
Chain 1:   Log probability evaluates to log(0), i.e. negative infinity.
Chain 1:   Stan can't start sampling from this initial value.
Chain 1: Rejecting initial value:
Chain 1:   Log probability evaluates to log(0), i.e. negative infinity.
Chain 1:   Stan can't start sampling from this initial value.
Chain 1: Rejecting initial value:
Chain 1:   Log probability evaluates to log(0), i.e. negative infinity.
Chain 1:   Stan can't start sampling from this initial value.
Chain 1: Rejecting initial value:
Chain 1:   Log probability evaluates to log(0), i.e. negative infinity.
Chain 1:   Stan can't start sampling from this initial value.
Chain 1: 
Chain 1: Gradient evaluation took 8.8e-05 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.88 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1: 
Chain 1: 
Chain 1: Iteration:    1 / 5000 [  0%]  (Warmup)
Chain 1: Iteration:  500 / 5000 [ 10%]  (Warmup)
Chain 1: Iteration: 1000 / 5000 [ 20%]  (Warmup)
Chain 1: Iteration: 1500 / 5000 [ 30%]  (Warmup)
Chain 1: Iteration: 1501 / 5000 [ 30%]  (Sampling)
Chain 1: Iteration: 2000 / 5000 [ 40%]  (Sampling)
Chain 1: Iteration: 2500 / 5000 [ 50%]  (Sampling)
Chain 1: Iteration: 3000 / 5000 [ 60%]  (Sampling)
Chain 1: Iteration: 3500 / 5000 [ 70%]  (Sampling)
Chain 1: Iteration: 4000 / 5000 [ 80%]  (Sampling)
Chain 1: Iteration: 4500 / 5000 [ 90%]  (Sampling)
Chain 1: Iteration: 5000 / 5000 [100%]  (Sampling)
Chain 1: 
Chain 1:  Elapsed Time: 5.648 seconds (Warm-up)
Chain 1:                3.925 seconds (Sampling)
Chain 1:                9.573 seconds (Total)
Chain 1: 

SAMPLING FOR MODEL 'log_logistic' NOW (CHAIN 1).
Chain 1: 
Chain 1: Gradient evaluation took 2.6e-05 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.26 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1: 
Chain 1: 
Chain 1: Iteration:    1 / 5000 [  0%]  (Warmup)
Chain 1: Iteration:  500 / 5000 [ 10%]  (Warmup)
Chain 1: Iteration: 1000 / 5000 [ 20%]  (Warmup)
Chain 1: Iteration: 1500 / 5000 [ 30%]  (Warmup)
Chain 1: Iteration: 1501 / 5000 [ 30%]  (Sampling)
Chain 1: Iteration: 2000 / 5000 [ 40%]  (Sampling)
Chain 1: Iteration: 2500 / 5000 [ 50%]  (Sampling)
Chain 1: Iteration: 3000 / 5000 [ 60%]  (Sampling)
Chain 1: Iteration: 3500 / 5000 [ 70%]  (Sampling)
Chain 1: Iteration: 4000 / 5000 [ 80%]  (Sampling)
Chain 1: Iteration: 4500 / 5000 [ 90%]  (Sampling)
Chain 1: Iteration: 5000 / 5000 [100%]  (Sampling)
Chain 1: 
Chain 1:  Elapsed Time: 0.985 seconds (Warm-up)
Chain 1:                1.949 seconds (Sampling)
Chain 1:                2.934 seconds (Total)
Chain 1: 
locfit 1.5-9.12 	 2025-03-05

 Maximum number of PQL iterations:  20 
iteration 1
iteration 2
iteration 3
iteration 4

 Maximum number of PQL iterations:  20 
iteration 1
iteration 2
iteration 3
iteration 4
[ FAIL 0 | WARN 2 | SKIP 0 | PASS 58 ]

[ FAIL 0 | WARN 2 | SKIP 0 | PASS 58 ]
> 
> proc.time()
   user  system elapsed 
  49.85    4.67   54.51