R Under development (unstable) (2025-07-22 r88445 ucrt) -- "Unsuffered Consequences"
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> library(testthat)
> library(hwep)
> 
> test_check("hwep")
Sampling for random mating model using genotype likelihoods
Iteration: 0 / 11000 (Warmup)
Iteration: 1100 / 11000 (Sampling)
Iteration: 2200 / 11000 (Sampling)
Iteration: 3300 / 11000 (Sampling)
Iteration: 4400 / 11000 (Sampling)
Iteration: 5500 / 11000 (Sampling)
Iteration: 6600 / 11000 (Sampling)
Iteration: 7700 / 11000 (Sampling)
Iteration: 8800 / 11000 (Sampling)
Iteration: 9900 / 11000 (Sampling)

SAMPLING FOR MODEL 'gl_alt' NOW (CHAIN 1).
Chain 1: 
Chain 1: Gradient evaluation took 0.000273 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 2.73 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1: 
Chain 1: 
Chain 1: WARNING: There aren't enough warmup iterations to fit the
Chain 1:          three stages of adaptation as currently configured.
Chain 1:          Reducing each adaptation stage to 15%/75%/10% of
Chain 1:          the given number of warmup iterations:
Chain 1:            init_buffer = 3
Chain 1:            adapt_window = 15
Chain 1:            term_buffer = 2
Chain 1: 
Chain 1: Iteration:  1 / 40 [  2%]  (Warmup)
Chain 1: Iteration:  4 / 40 [ 10%]  (Warmup)
Chain 1: Iteration:  8 / 40 [ 20%]  (Warmup)
Chain 1: Iteration: 12 / 40 [ 30%]  (Warmup)
Chain 1: Iteration: 16 / 40 [ 40%]  (Warmup)
Chain 1: Iteration: 20 / 40 [ 50%]  (Warmup)
Chain 1: Iteration: 21 / 40 [ 52%]  (Sampling)
Chain 1: Iteration: 24 / 40 [ 60%]  (Sampling)
Chain 1: Iteration: 28 / 40 [ 70%]  (Sampling)
Chain 1: Iteration: 32 / 40 [ 80%]  (Sampling)
Chain 1: Iteration: 36 / 40 [ 90%]  (Sampling)
Chain 1: Iteration: 40 / 40 [100%]  (Sampling)
Chain 1: 
Chain 1:  Elapsed Time: 0.101 seconds (Warm-up)
Chain 1:                0.084 seconds (Sampling)
Chain 1:                0.185 seconds (Total)
Chain 1: 

SAMPLING FOR MODEL 'gl_null' NOW (CHAIN 1).
Chain 1: 
Chain 1: Gradient evaluation took 0.000224 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 2.24 seconds.
Chain 1: Adjust your expectations accordingly!
Chain 1: 
Chain 1: 
Chain 1: WARNING: There aren't enough warmup iterations to fit the
Chain 1:          three stages of adaptation as currently configured.
Chain 1:          Reducing each adaptation stage to 15%/75%/10% of
Chain 1:          the given number of warmup iterations:
Chain 1:            init_buffer = 3
Chain 1:            adapt_window = 15
Chain 1:            term_buffer = 2
Chain 1: 
Chain 1: Iteration:  1 / 40 [  2%]  (Warmup)
Chain 1: Iteration:  4 / 40 [ 10%]  (Warmup)
Chain 1: Iteration:  8 / 40 [ 20%]  (Warmup)
Chain 1: Iteration: 12 / 40 [ 30%]  (Warmup)
Chain 1: Iteration: 16 / 40 [ 40%]  (Warmup)
Chain 1: Iteration: 20 / 40 [ 50%]  (Warmup)
Chain 1: Iteration: 21 / 40 [ 52%]  (Sampling)
Chain 1: Iteration: 24 / 40 [ 60%]  (Sampling)
Chain 1: Iteration: 28 / 40 [ 70%]  (Sampling)
Chain 1: Iteration: 32 / 40 [ 80%]  (Sampling)
Chain 1: Iteration: 36 / 40 [ 90%]  (Sampling)
Chain 1: Iteration: 40 / 40 [100%]  (Sampling)
Chain 1: 
Chain 1:  Elapsed Time: 0.091 seconds (Warm-up)
Chain 1:                0.093 seconds (Sampling)
Chain 1:                0.184 seconds (Total)
Chain 1: 
Using 1 worker(s) to run hwefit() on 2 loci...
Loading required package: foreach
Loading required package: rngtools
Done!

[ FAIL 0 | WARN 0 | SKIP 2 | PASS 190 ]

══ Skipped tests (2) ═══════════════════════════════════════════════════════════
• alt not ready for primetime (1): 'test-bayes.R:193:3'
• takes too long (1): 'test-bayes.R:471:3'

[ FAIL 0 | WARN 0 | SKIP 2 | PASS 190 ]
> 
> proc.time()
   user  system elapsed 
  12.07    0.54   12.62