Last updated on 2021-01-10 14:48:33 CET.
Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
---|---|---|---|---|---|---|
r-devel-linux-x86_64-debian-clang | 1.0.0 | 471.68 | 138.32 | 610.00 | ERROR | |
r-devel-linux-x86_64-debian-gcc | 1.0.0 | 394.76 | 120.60 | 515.36 | ERROR | |
r-devel-linux-x86_64-fedora-clang | 1.0.0 | 840.91 | ERROR | |||
r-devel-linux-x86_64-fedora-gcc | 1.0.0 | 894.74 | ERROR | |||
r-devel-windows-ix86+x86_64 | 1.0.0 | 1011.00 | 305.00 | 1316.00 | ERROR | |
r-patched-linux-x86_64 | 1.0.0 | 315.66 | 151.66 | 467.32 | NOTE | |
r-patched-solaris-x86 | 1.0.0 | 828.60 | NOTE | |||
r-release-linux-x86_64 | 1.0.0 | 327.61 | 150.28 | 477.89 | NOTE | |
r-release-macos-x86_64 | 1.0.0 | NOTE | ||||
r-release-windows-ix86+x86_64 | 1.0.0 | 792.00 | 236.00 | 1028.00 | NOTE | |
r-oldrel-macos-x86_64 | 1.0.0 | NOTE | ||||
r-oldrel-windows-ix86+x86_64 | 1.0.0 | 731.00 | 210.00 | 941.00 | NOTE |
Version: 1.0.0
Check: for GNU extensions in Makefiles
Result: NOTE
GNU make is a SystemRequirements.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0.0
Check: tests
Result: ERROR
Running 'testthat.R' [19s/20s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(rater)
* The rater package uses `Stan` to fit bayesian models.
* If you are working on a local, multicore CPU with excess RAM please call:
* options(mc.cores = parallel::detectCores())
* This will allow Stan to run inference on multiple cores in parallel.
>
> test_check("rater")
SAMPLING FOR MODEL 'dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0.000496 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 4.96 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.757891 seconds (Warm-up)
Chain 1: 0.744691 seconds (Sampling)
Chain 1: 1.50258 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'hierarchical_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0.000358 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 3.58 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.738446 seconds (Warm-up)
Chain 1: 0.61113 seconds (Sampling)
Chain 1: 1.34958 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'class_conditional_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0.000423 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 4.23 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.424312 seconds (Warm-up)
Chain 1: 0.359856 seconds (Sampling)
Chain 1: 0.784168 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'grouped_data' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0.000134 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 1.34 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.151072 seconds (Warm-up)
Chain 1: 0.132232 seconds (Sampling)
Chain 1: 0.283304 seconds (Total)
Chain 1:
== Skipped tests ===============================================================
* TODO: Decide on plain language interface (1)
== Failed tests ================================================================
-- Failure (test_fit_class.R:28:3): plot.fit dispatches correctly --------------
plot(ds_fit, pars = "theta") not equal to `raters_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
-- Failure (test_fit_class.R:31:3): plot.fit dispatches correctly --------------
plot(ds_fit, pars = "latent_class") not equal to `latent_class_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
-- Failure (test_fit_class.R:34:3): plot.fit dispatches correctly --------------
plot(ds_fit, pars = "pi") not equal to `prevalence_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "coordinates": Component "super": Component "...": target is not list-like
...
-- Failure (test_fit_class.R:42:3): can plot multiple parameters ---------------
plot(ds_fit, pars = c("theta", "pi")) not equal to list(raters_plot, prevalence_plot).
Component 1: Component 2: Component 1: Component 11: Component 1: target is not list-like
Component 1: Component 2: Component 2: Component 11: Component 1: target is not list-like
Component 1: Component 3: Component 1: Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
...
[ FAIL 4 | WARN 0 | SKIP 1 | PASS 142 ]
Error: Test failures
In addition: There were 15 warnings (use warnings() to see them)
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 1.0.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [14s/19s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(rater)
* The rater package uses `Stan` to fit bayesian models.
* If you are working on a local, multicore CPU with excess RAM please call:
* options(mc.cores = parallel::detectCores())
* This will allow Stan to run inference on multiple cores in parallel.
>
> test_check("rater")
SAMPLING FOR MODEL 'dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0.000311 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 3.11 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.535269 seconds (Warm-up)
Chain 1: 0.457143 seconds (Sampling)
Chain 1: 0.992412 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'hierarchical_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0.000167 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 1.67 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.445465 seconds (Warm-up)
Chain 1: 0.33416 seconds (Sampling)
Chain 1: 0.779625 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'class_conditional_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0.000354 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 3.54 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.325267 seconds (Warm-up)
Chain 1: 0.289619 seconds (Sampling)
Chain 1: 0.614886 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'grouped_data' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 9.7e-05 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.97 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.094915 seconds (Warm-up)
Chain 1: 0.089825 seconds (Sampling)
Chain 1: 0.18474 seconds (Total)
Chain 1:
══ Skipped tests ═══════════════════════════════════════════════════════════════
● TODO: Decide on plain language interface (1)
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure (test_fit_class.R:28:3): plot.fit dispatches correctly ──────────────
plot(ds_fit, pars = "theta") not equal to `raters_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
── Failure (test_fit_class.R:31:3): plot.fit dispatches correctly ──────────────
plot(ds_fit, pars = "latent_class") not equal to `latent_class_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
── Failure (test_fit_class.R:34:3): plot.fit dispatches correctly ──────────────
plot(ds_fit, pars = "pi") not equal to `prevalence_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "coordinates": Component "super": Component "...": target is not list-like
...
── Failure (test_fit_class.R:42:3): can plot multiple parameters ───────────────
plot(ds_fit, pars = c("theta", "pi")) not equal to list(raters_plot, prevalence_plot).
Component 1: Component 2: Component 1: Component 11: Component 1: target is not list-like
Component 1: Component 2: Component 2: Component 11: Component 1: target is not list-like
Component 1: Component 3: Component 1: Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
...
[ FAIL 4 | WARN 0 | SKIP 1 | PASS 142 ]
Error: Test failures
In addition: There were 13 warnings (use warnings() to see them)
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 1.0.0
Check: installed package size
Result: NOTE
installed size is 78.9Mb
sub-directories of 1Mb or more:
libs 78.2Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-ix86+x86_64, r-patched-solaris-x86, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.0.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [22s/27s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(rater)
* The rater package uses `Stan` to fit bayesian models.
* If you are working on a local, multicore CPU with excess RAM please call:
* options(mc.cores = parallel::detectCores())
* This will allow Stan to run inference on multiple cores in parallel.
>
> test_check("rater")
SAMPLING FOR MODEL 'dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0.000995 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 9.95 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.977104 seconds (Warm-up)
Chain 1: 0.924338 seconds (Sampling)
Chain 1: 1.90144 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'hierarchical_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.762833 seconds (Warm-up)
Chain 1: 0.720158 seconds (Sampling)
Chain 1: 1.48299 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'class_conditional_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0.000995 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 9.95 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.51836 seconds (Warm-up)
Chain 1: 0.467431 seconds (Sampling)
Chain 1: 0.985791 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'grouped_data' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.157493 seconds (Warm-up)
Chain 1: 0.153206 seconds (Sampling)
Chain 1: 0.310699 seconds (Total)
Chain 1:
══ Skipped tests ═══════════════════════════════════════════════════════════════
● TODO: Decide on plain language interface (1)
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure (test_fit_class.R:28:3): plot.fit dispatches correctly ──────────────
plot(ds_fit, pars = "theta") not equal to `raters_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
── Failure (test_fit_class.R:31:3): plot.fit dispatches correctly ──────────────
plot(ds_fit, pars = "latent_class") not equal to `latent_class_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
── Failure (test_fit_class.R:34:3): plot.fit dispatches correctly ──────────────
plot(ds_fit, pars = "pi") not equal to `prevalence_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "coordinates": Component "super": Component "...": target is not list-like
...
── Failure (test_fit_class.R:42:3): can plot multiple parameters ───────────────
plot(ds_fit, pars = c("theta", "pi")) not equal to list(raters_plot, prevalence_plot).
Component 1: Component 2: Component 1: Component 11: Component 1: target is not list-like
Component 1: Component 2: Component 2: Component 11: Component 1: target is not list-like
Component 1: Component 3: Component 1: Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
...
[ FAIL 4 | WARN 0 | SKIP 1 | PASS 142 ]
Error: Test failures
In addition: There were 13 warnings (use warnings() to see them)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 1.0.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [21s/26s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(rater)
* The rater package uses `Stan` to fit bayesian models.
* If you are working on a local, multicore CPU with excess RAM please call:
* options(mc.cores = parallel::detectCores())
* This will allow Stan to run inference on multiple cores in parallel.
>
> test_check("rater")
SAMPLING FOR MODEL 'dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.865029 seconds (Warm-up)
Chain 1: 0.667481 seconds (Sampling)
Chain 1: 1.53251 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'hierarchical_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.596274 seconds (Warm-up)
Chain 1: 0.514661 seconds (Sampling)
Chain 1: 1.11094 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'class_conditional_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.573472 seconds (Warm-up)
Chain 1: 0.515519 seconds (Sampling)
Chain 1: 1.08899 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'grouped_data' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0.000994 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 9.94 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.175633 seconds (Warm-up)
Chain 1: 0.145513 seconds (Sampling)
Chain 1: 0.321146 seconds (Total)
Chain 1:
══ Skipped tests ═══════════════════════════════════════════════════════════════
● TODO: Decide on plain language interface (1)
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure (test_fit_class.R:28:3): plot.fit dispatches correctly ──────────────
plot(ds_fit, pars = "theta") not equal to `raters_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
── Failure (test_fit_class.R:31:3): plot.fit dispatches correctly ──────────────
plot(ds_fit, pars = "latent_class") not equal to `latent_class_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
── Failure (test_fit_class.R:34:3): plot.fit dispatches correctly ──────────────
plot(ds_fit, pars = "pi") not equal to `prevalence_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "coordinates": Component "super": Component "...": target is not list-like
...
── Failure (test_fit_class.R:42:3): can plot multiple parameters ───────────────
plot(ds_fit, pars = c("theta", "pi")) not equal to list(raters_plot, prevalence_plot).
Component 1: Component 2: Component 1: Component 11: Component 1: target is not list-like
Component 1: Component 2: Component 2: Component 11: Component 1: target is not list-like
Component 1: Component 3: Component 1: Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
...
[ FAIL 4 | WARN 0 | SKIP 1 | PASS 142 ]
Error: Test failures
In addition: There were 12 warnings (use warnings() to see them)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.0.0
Check: running tests for arch ‘i386’
Result: ERROR
Running 'testthat.R' [24s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(rater)
* The rater package uses `Stan` to fit bayesian models.
* If you are working on a local, multicore CPU with excess RAM please call:
* options(mc.cores = parallel::detectCores())
* This will allow Stan to run inference on multiple cores in parallel.
>
> test_check("rater")
SAMPLING FOR MODEL 'dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 1.248 seconds (Warm-up)
Chain 1: 1.279 seconds (Sampling)
Chain 1: 2.527 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'hierarchical_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 1.373 seconds (Warm-up)
Chain 1: 1.139 seconds (Sampling)
Chain 1: 2.512 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'class_conditional_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.733 seconds (Warm-up)
Chain 1: 0.718 seconds (Sampling)
Chain 1: 1.451 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'grouped_data' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.265 seconds (Warm-up)
Chain 1: 0.218 seconds (Sampling)
Chain 1: 0.483 seconds (Total)
Chain 1:
== Skipped tests ===============================================================
* TODO: Decide on plain language interface (1)
== Failed tests ================================================================
-- Failure (test_fit_class.R:28:3): plot.fit dispatches correctly --------------
plot(ds_fit, pars = "theta") not equal to `raters_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
-- Failure (test_fit_class.R:31:3): plot.fit dispatches correctly --------------
plot(ds_fit, pars = "latent_class") not equal to `latent_class_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
-- Failure (test_fit_class.R:34:3): plot.fit dispatches correctly --------------
plot(ds_fit, pars = "pi") not equal to `prevalence_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "coordinates": Component "super": Component "...": target is not list-like
...
-- Failure (test_fit_class.R:42:3): can plot multiple parameters ---------------
plot(ds_fit, pars = c("theta", "pi")) not equal to list(raters_plot, prevalence_plot).
Component 1: Component 2: Component 1: Component 11: Component 1: target is not list-like
Component 1: Component 2: Component 2: Component 11: Component 1: target is not list-like
Component 1: Component 3: Component 1: Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
...
[ FAIL 4 | WARN 0 | SKIP 1 | PASS 142 ]
Error: Test failures
In addition: There were 12 warnings (use warnings() to see them)
Execution halted
Flavor: r-devel-windows-ix86+x86_64
Version: 1.0.0
Check: running tests for arch ‘x64’
Result: ERROR
Running 'testthat.R' [24s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(rater)
* The rater package uses `Stan` to fit bayesian models.
* If you are working on a local, multicore CPU with excess RAM please call:
* options(mc.cores = parallel::detectCores())
* This will allow Stan to run inference on multiple cores in parallel.
>
> test_check("rater")
SAMPLING FOR MODEL 'dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 1.108 seconds (Warm-up)
Chain 1: 1.029 seconds (Sampling)
Chain 1: 2.137 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'hierarchical_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 1.17 seconds (Warm-up)
Chain 1: 0.951 seconds (Sampling)
Chain 1: 2.121 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'class_conditional_dawid_skene' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.718 seconds (Warm-up)
Chain 1: 0.561 seconds (Sampling)
Chain 1: 1.279 seconds (Total)
Chain 1:
SAMPLING FOR MODEL 'grouped_data' NOW (CHAIN 1).
Chain 1:
Chain 1: Gradient evaluation took 0 seconds
Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0 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 = 15
Chain 1: adapt_window = 75
Chain 1: term_buffer = 10
Chain 1:
Chain 1: Iteration: 1 / 200 [ 0%] (Warmup)
Chain 1: Iteration: 20 / 200 [ 10%] (Warmup)
Chain 1: Iteration: 40 / 200 [ 20%] (Warmup)
Chain 1: Iteration: 60 / 200 [ 30%] (Warmup)
Chain 1: Iteration: 80 / 200 [ 40%] (Warmup)
Chain 1: Iteration: 100 / 200 [ 50%] (Warmup)
Chain 1: Iteration: 101 / 200 [ 50%] (Sampling)
Chain 1: Iteration: 120 / 200 [ 60%] (Sampling)
Chain 1: Iteration: 140 / 200 [ 70%] (Sampling)
Chain 1: Iteration: 160 / 200 [ 80%] (Sampling)
Chain 1: Iteration: 180 / 200 [ 90%] (Sampling)
Chain 1: Iteration: 200 / 200 [100%] (Sampling)
Chain 1:
Chain 1: Elapsed Time: 0.234 seconds (Warm-up)
Chain 1: 0.219 seconds (Sampling)
Chain 1: 0.453 seconds (Total)
Chain 1:
== Skipped tests ===============================================================
* TODO: Decide on plain language interface (1)
== Failed tests ================================================================
-- Failure (test_fit_class.R:28:3): plot.fit dispatches correctly --------------
plot(ds_fit, pars = "theta") not equal to `raters_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
-- Failure (test_fit_class.R:31:3): plot.fit dispatches correctly --------------
plot(ds_fit, pars = "latent_class") not equal to `latent_class_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "scales": Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
...
-- Failure (test_fit_class.R:34:3): plot.fit dispatches correctly --------------
plot(ds_fit, pars = "pi") not equal to `prevalence_plot`.
Component "layers": Component 1: Component 11: Component 1: target is not list-like
Component "layers": Component 2: Component 11: Component 1: target is not list-like
Component "scales": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "scales": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "env": Component "self": Component "super": Component "...": target is not list-like
Component "coordinates": Component "super": Component "...": target is not list-like
...
-- Failure (test_fit_class.R:42:3): can plot multiple parameters ---------------
plot(ds_fit, pars = c("theta", "pi")) not equal to list(raters_plot, prevalence_plot).
Component 1: Component 2: Component 1: Component 11: Component 1: target is not list-like
Component 1: Component 2: Component 2: Component 11: Component 1: target is not list-like
Component 1: Component 3: Component 1: Component 1: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 2: Component 5: Component 2: Component 18: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
Component 1: Component 3: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 5: Component 1: Component 2: Component 1: target is not list-like
...
[ FAIL 4 | WARN 0 | SKIP 1 | PASS 142 ]
Error: Test failures
In addition: There were 13 warnings (use warnings() to see them)
Execution halted
Flavor: r-devel-windows-ix86+x86_64