CRAN Package Check Results for Package hmde

Last updated on 2025-09-24 08:51:09 CEST.

Flavor	Version	T_install	T_check	T_total	Status
r-devel-linux-x86_64-debian-clang	1.2.1	670.63	441.31	1111.94	ERROR
r-devel-linux-x86_64-debian-gcc	1.2.1	591.01	471.14	1062.15	ERROR
r-devel-linux-x86_64-fedora-clang	1.2.1			1820.42	ERROR
r-devel-linux-x86_64-fedora-gcc	1.2.1			2385.27	ERROR
r-devel-windows-x86_64	1.2.1	708.00	522.00	1230.00	OK
r-patched-linux-x86_64	1.2.1	863.67	547.48	1411.15	ERROR
r-release-linux-x86_64	1.2.1	821.57	502.37	1323.94	ERROR
r-release-macos-arm64	1.2.1			277.00	OK
r-release-macos-x86_64	1.2.1			385.00	OK
r-release-windows-x86_64	1.2.1	763.00	550.00	1313.00	ERROR
r-oldrel-macos-arm64	1.2.1			299.00	NOTE
r-oldrel-macos-x86_64	1.2.1			383.00	NOTE
r-oldrel-windows-x86_64	1.2.1	881.00	656.00	1537.00	ERROR

Check Details

Version: 1.2.1
Check: tests
Result: ERROR Running ‘testthat.R’ [27s/35s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # 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/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(hmde) > > test_check("hmde") SAMPLING FOR MODEL 'constant_single_ind' 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: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0 seconds (Warm-up) Chain 1: 0 seconds (Sampling) Chain 1: 0 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.001245 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 12.45 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.157 seconds (Warm-up) Chain 1: 0.965 seconds (Sampling) Chain 1: 1.122 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.001306 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 13.06 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 6.332 seconds (Warm-up) Chain 2: 7.555 seconds (Sampling) Chain 2: 13.887 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 1.6e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.16 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.238 seconds (Warm-up) Chain 1: 0.731 seconds (Sampling) Chain 1: 0.969 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 2.2e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.22 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.001 seconds (Warm-up) Chain 1: 0 seconds (Sampling) Chain 1: 0.001 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 1.1e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.11 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.002 seconds (Warm-up) Chain 2: 0.007 seconds (Sampling) Chain 2: 0.009 seconds (Total) Chain 2: SAMPLING FOR MODEL 'vb_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 4.6e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.46 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.684 seconds (Warm-up) Chain 1: 1.15 seconds (Sampling) Chain 1: 1.834 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.00354 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 35.4 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.009 seconds (Warm-up) Chain 1: 0.016 seconds (Sampling) Chain 1: 0.025 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 3e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.3 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.006 seconds (Warm-up) Chain 2: 0.016 seconds (Sampling) Chain 2: 0.022 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 5.2e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.52 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.092 seconds (Warm-up) Chain 1: 0.065 seconds (Sampling) Chain 1: 0.157 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 5.4e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.54 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 = 3 Chain 1: adapt_window = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.077 seconds (Warm-up) Chain 1: 0.057 seconds (Sampling) Chain 1: 0.134 seconds (Total) Chain 1: [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-hmde_plot_de_pieces.R:17:3'): Execution and output: plot_de_pieces function ── `plot` does not have names. ── Failure ('test-hmde_plot_de_pieces.R:21:3'): Execution and output: plot_de_pieces function ── `plot` has type 'object', not 'list'. ── Failure ('test-hmde_plot_obs_est_inds.R:5:3'): Execution and output: plot_obs_est_inds function ── `plot` does not have names. ── Failure ('test-hmde_plot_obs_est_inds.R:9:3'): Execution and output: plot_obs_est_inds function ── `plot` has type 'object', not 'list'. [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-debian-clang

Version: 1.2.1
Check: tests
Result: ERROR Running ‘testthat.R’ [13s/16s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # 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/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(hmde) > > test_check("hmde") SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 1.8e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.18 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0 seconds (Warm-up) Chain 1: 0 seconds (Sampling) Chain 1: 0 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.000935 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 9.35 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.314 seconds (Warm-up) Chain 1: 0.645 seconds (Sampling) Chain 1: 0.959 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.000855 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 8.55 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.045 seconds (Warm-up) Chain 2: 0.714 seconds (Sampling) Chain 2: 0.759 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 1.5e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.15 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.22 seconds (Warm-up) Chain 1: 0.427 seconds (Sampling) Chain 1: 0.647 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 2.5e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.25 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.002 seconds (Warm-up) Chain 1: 0.007 seconds (Sampling) Chain 1: 0.009 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 1.1e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.11 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.001 seconds (Warm-up) Chain 2: 0.009 seconds (Sampling) Chain 2: 0.01 seconds (Total) Chain 2: SAMPLING FOR MODEL 'vb_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 3.1e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.31 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.577 seconds (Warm-up) Chain 1: 0.957 seconds (Sampling) Chain 1: 1.534 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 6.1e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.61 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.024 seconds (Warm-up) Chain 1: 0.161 seconds (Sampling) Chain 1: 0.185 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 2.9e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.29 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.002 seconds (Warm-up) Chain 2: 0.015 seconds (Sampling) Chain 2: 0.017 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 4e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.4 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.058 seconds (Warm-up) Chain 1: 0.055 seconds (Sampling) Chain 1: 0.113 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 3.6e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.36 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.065 seconds (Warm-up) Chain 1: 0.029 seconds (Sampling) Chain 1: 0.094 seconds (Total) Chain 1: [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-hmde_plot_de_pieces.R:17:3'): Execution and output: plot_de_pieces function ── `plot` does not have names. ── Failure ('test-hmde_plot_de_pieces.R:21:3'): Execution and output: plot_de_pieces function ── `plot` has type 'object', not 'list'. ── Failure ('test-hmde_plot_obs_est_inds.R:5:3'): Execution and output: plot_obs_est_inds function ── `plot` does not have names. ── Failure ('test-hmde_plot_obs_est_inds.R:9:3'): Execution and output: plot_obs_est_inds function ── `plot` has type 'object', not 'list'. [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.2.1
Check: tests
Result: ERROR Running ‘testthat.R’ [28s/59s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # 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/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(hmde) > > test_check("hmde") SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 4.5e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.45 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0 seconds (Warm-up) Chain 1: 0 seconds (Sampling) Chain 1: 0 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.002118 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 21.18 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 1.298 seconds (Warm-up) Chain 1: 0.189 seconds (Sampling) Chain 1: 1.487 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.002137 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 21.37 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 2.557 seconds (Warm-up) Chain 2: 0.542 seconds (Sampling) Chain 2: 3.099 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 2.5e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.25 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.468 seconds (Warm-up) Chain 1: 1.765 seconds (Sampling) Chain 1: 2.233 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 6.7e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.67 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.012 seconds (Warm-up) Chain 1: 0.009 seconds (Sampling) Chain 1: 0.021 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 4e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.4 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.008 seconds (Warm-up) Chain 2: 0.015 seconds (Sampling) Chain 2: 0.023 seconds (Total) Chain 2: SAMPLING FOR MODEL 'vb_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 3.8e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.38 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 2.14 seconds (Warm-up) Chain 1: 3.501 seconds (Sampling) Chain 1: 5.641 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 9.9e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.99 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.007 seconds (Warm-up) Chain 1: 0.085 seconds (Sampling) Chain 1: 0.092 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 5.3e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.53 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.023 seconds (Warm-up) Chain 2: 0.025 seconds (Sampling) Chain 2: 0.048 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 8.3e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.83 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.174 seconds (Warm-up) Chain 1: 0.121 seconds (Sampling) Chain 1: 0.295 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 6.8e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.68 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.199 seconds (Warm-up) Chain 1: 0.198 seconds (Sampling) Chain 1: 0.397 seconds (Total) Chain 1: [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-hmde_plot_de_pieces.R:17:3'): Execution and output: plot_de_pieces function ── `plot` does not have names. ── Failure ('test-hmde_plot_de_pieces.R:21:3'): Execution and output: plot_de_pieces function ── `plot` has type 'object', not 'list'. ── Failure ('test-hmde_plot_obs_est_inds.R:5:3'): Execution and output: plot_obs_est_inds function ── `plot` does not have names. ── Failure ('test-hmde_plot_obs_est_inds.R:9:3'): Execution and output: plot_obs_est_inds function ── `plot` has type 'object', not 'list'. [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-fedora-clang

Version: 1.2.1
Check: tests
Result: ERROR Running ‘testthat.R’ [25s/63s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # 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/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(hmde) > > test_check("hmde") SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 2.2e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.22 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.009 seconds (Warm-up) Chain 1: 0 seconds (Sampling) Chain 1: 0.009 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.002464 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 24.64 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.205 seconds (Warm-up) Chain 1: 4.203 seconds (Sampling) Chain 1: 4.408 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.002397 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 23.97 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 1.798 seconds (Warm-up) Chain 2: 1.469 seconds (Sampling) Chain 2: 3.267 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 2e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.2 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 1.244 seconds (Warm-up) Chain 1: 1.584 seconds (Sampling) Chain 1: 2.828 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 3.5e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.35 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.005 seconds (Warm-up) Chain 1: 0.001 seconds (Sampling) Chain 1: 0.006 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 1.9e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.19 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.004 seconds (Warm-up) Chain 2: 0.011 seconds (Sampling) Chain 2: 0.015 seconds (Total) Chain 2: SAMPLING FOR MODEL 'vb_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 3.6e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.36 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 4.457 seconds (Warm-up) Chain 1: 4.108 seconds (Sampling) Chain 1: 8.565 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 8.4e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.84 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.028 seconds (Warm-up) Chain 1: 0.077 seconds (Sampling) Chain 1: 0.105 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 6.6e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.66 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.008 seconds (Warm-up) Chain 2: 0.107 seconds (Sampling) Chain 2: 0.115 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 7.9e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.79 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.377 seconds (Warm-up) Chain 1: 0.227 seconds (Sampling) Chain 1: 0.604 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 6.5e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.65 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.389 seconds (Warm-up) Chain 1: 0.292 seconds (Sampling) Chain 1: 0.681 seconds (Total) Chain 1: [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-hmde_plot_de_pieces.R:17:3'): Execution and output: plot_de_pieces function ── `plot` does not have names. ── Failure ('test-hmde_plot_de_pieces.R:21:3'): Execution and output: plot_de_pieces function ── `plot` has type 'object', not 'list'. ── Failure ('test-hmde_plot_obs_est_inds.R:5:3'): Execution and output: plot_obs_est_inds function ── `plot` does not have names. ── Failure ('test-hmde_plot_obs_est_inds.R:9:3'): Execution and output: plot_obs_est_inds function ── `plot` has type 'object', not 'list'. [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 1.2.1
Check: tests
Result: ERROR Running ‘testthat.R’ [19s/28s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # 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/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(hmde) > > test_check("hmde") SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 9e-06 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.09 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.001 seconds (Warm-up) Chain 1: 0 seconds (Sampling) Chain 1: 0.001 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.001431 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 14.31 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.56 seconds (Warm-up) Chain 1: 0.204 seconds (Sampling) Chain 1: 0.764 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.001247 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 12.47 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 2.051 seconds (Warm-up) Chain 2: 0.359 seconds (Sampling) Chain 2: 2.41 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 1e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.1 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.39 seconds (Warm-up) Chain 1: 0.701 seconds (Sampling) Chain 1: 1.091 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 2e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.2 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.006 seconds (Warm-up) Chain 1: 0.001 seconds (Sampling) Chain 1: 0.007 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 2e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.2 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.002 seconds (Warm-up) Chain 2: 0.009 seconds (Sampling) Chain 2: 0.011 seconds (Total) Chain 2: SAMPLING FOR MODEL 'vb_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 2.4e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.24 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 1.236 seconds (Warm-up) Chain 1: 1.532 seconds (Sampling) Chain 1: 2.768 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 6.7e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.67 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.047 seconds (Warm-up) Chain 1: 0.034 seconds (Sampling) Chain 1: 0.081 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 2.6e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.26 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.003 seconds (Warm-up) Chain 2: 0.021 seconds (Sampling) Chain 2: 0.024 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 5.1e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.51 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.083 seconds (Warm-up) Chain 1: 0.072 seconds (Sampling) Chain 1: 0.155 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 4.5e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.45 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.166 seconds (Warm-up) Chain 1: 0.142 seconds (Sampling) Chain 1: 0.308 seconds (Total) Chain 1: [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-hmde_plot_de_pieces.R:17:3'): Execution and output: plot_de_pieces function ── `plot` does not have names. ── Failure ('test-hmde_plot_de_pieces.R:21:3'): Execution and output: plot_de_pieces function ── `plot` has type 'object', not 'list'. ── Failure ('test-hmde_plot_obs_est_inds.R:5:3'): Execution and output: plot_obs_est_inds function ── `plot` does not have names. ── Failure ('test-hmde_plot_obs_est_inds.R:9:3'): Execution and output: plot_obs_est_inds function ── `plot` has type 'object', not 'list'. [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] Error: Test failures Execution halted Flavor: r-patched-linux-x86_64

Version: 1.2.1
Check: tests
Result: ERROR Running ‘testthat.R’ [18s/22s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # 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/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(hmde) > > test_check("hmde") SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 2.8e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.28 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0 seconds (Warm-up) Chain 1: 0 seconds (Sampling) Chain 1: 0 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.001769 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 17.69 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.158 seconds (Warm-up) Chain 1: 1.68 seconds (Sampling) Chain 1: 1.838 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.0013 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 13 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.353 seconds (Warm-up) Chain 2: 0.143 seconds (Sampling) Chain 2: 0.496 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 1.1e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.11 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.323 seconds (Warm-up) Chain 1: 0.61 seconds (Sampling) Chain 1: 0.933 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 2.1e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.21 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.001 seconds (Warm-up) Chain 1: 0.004 seconds (Sampling) Chain 1: 0.005 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 1e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.1 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.002 seconds (Warm-up) Chain 2: 0.003 seconds (Sampling) Chain 2: 0.005 seconds (Total) Chain 2: SAMPLING FOR MODEL 'vb_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 2.4e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.24 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.543 seconds (Warm-up) Chain 1: 1.103 seconds (Sampling) Chain 1: 1.646 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 6.8e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.68 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.005 seconds (Warm-up) Chain 1: 0.003 seconds (Sampling) Chain 1: 0.008 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 2.7e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.27 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.003 seconds (Warm-up) Chain 2: 0.004 seconds (Sampling) Chain 2: 0.007 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 5.8e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.58 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 = 3 Chain 1: adapt_window = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.031 seconds (Warm-up) Chain 1: 0.237 seconds (Sampling) Chain 1: 0.268 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 5.2e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.52 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.128 seconds (Warm-up) Chain 1: 0.075 seconds (Sampling) Chain 1: 0.203 seconds (Total) Chain 1: [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-hmde_plot_de_pieces.R:17:3'): Execution and output: plot_de_pieces function ── `plot` does not have names. ── Failure ('test-hmde_plot_de_pieces.R:21:3'): Execution and output: plot_de_pieces function ── `plot` has type 'object', not 'list'. ── Failure ('test-hmde_plot_obs_est_inds.R:5:3'): Execution and output: plot_obs_est_inds function ── `plot` does not have names. ── Failure ('test-hmde_plot_obs_est_inds.R:9:3'): Execution and output: plot_obs_est_inds function ── `plot` has type 'object', not 'list'. [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] Error: Test failures Execution halted Flavor: r-release-linux-x86_64

Version: 1.2.1
Check: tests
Result: ERROR Running 'testthat.R' [27s] Running the tests in 'tests/testthat.R' failed. Complete output: > # 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/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(hmde) > > test_check("hmde") SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 2.4e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.24 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0 seconds (Warm-up) Chain 1: 0 seconds (Sampling) Chain 1: 0 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.001687 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 16.87 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.091 seconds (Warm-up) Chain 1: 11.094 seconds (Sampling) Chain 1: 11.185 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.002906 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 29.06 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.211 seconds (Warm-up) Chain 2: 0.284 seconds (Sampling) Chain 2: 0.495 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 1e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.1 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.283 seconds (Warm-up) Chain 1: 0.635 seconds (Sampling) Chain 1: 0.918 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 3.4e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.34 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.003 seconds (Warm-up) Chain 1: 0 seconds (Sampling) Chain 1: 0.003 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 8e-06 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.08 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.005 seconds (Warm-up) Chain 2: 0.001 seconds (Sampling) Chain 2: 0.006 seconds (Total) Chain 2: SAMPLING FOR MODEL 'vb_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 3.4e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.34 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 1.052 seconds (Warm-up) Chain 1: 1.583 seconds (Sampling) Chain 1: 2.635 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 9.2e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.92 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.018 seconds (Warm-up) Chain 1: 0.006 seconds (Sampling) Chain 1: 0.024 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 3.2e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.32 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.007 seconds (Warm-up) Chain 2: 0.011 seconds (Sampling) Chain 2: 0.018 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 4.5e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.45 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.144 seconds (Warm-up) Chain 1: 0.148 seconds (Sampling) Chain 1: 0.292 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 4.3e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.43 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.155 seconds (Warm-up) Chain 1: 0.121 seconds (Sampling) Chain 1: 0.276 seconds (Total) Chain 1: [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-hmde_plot_de_pieces.R:17:3'): Execution and output: plot_de_pieces function ── `plot` does not have names. ── Failure ('test-hmde_plot_de_pieces.R:21:3'): Execution and output: plot_de_pieces function ── `plot` has type 'object', not 'list'. ── Failure ('test-hmde_plot_obs_est_inds.R:5:3'): Execution and output: plot_obs_est_inds function ── `plot` does not have names. ── Failure ('test-hmde_plot_obs_est_inds.R:9:3'): Execution and output: plot_obs_est_inds function ── `plot` has type 'object', not 'list'. [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] Error: Test failures Execution halted Flavor: r-release-windows-x86_64

Version: 1.2.1
Check: installed package size
Result: NOTE installed size is 113.0Mb sub-directories of 1Mb or more: article 3.0Mb doc 1.1Mb libs 108.3Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Version: 1.2.1
Check: for GNU extensions in Makefiles
Result: NOTE GNU make is a SystemRequirements. Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Version: 1.2.1
Check: tests
Result: ERROR Running 'testthat.R' [27s] Running the tests in 'tests/testthat.R' failed. Complete output: > # 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/testing-design.html#sec-tests-files-overview > # * https://testthat.r-lib.org/articles/special-files.html > > library(testthat) > library(hmde) > > test_check("hmde") SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 5.4e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.54 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.001 seconds (Warm-up) Chain 1: 0 seconds (Sampling) Chain 1: 0.001 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.004185 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 41.85 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.127 seconds (Warm-up) Chain 1: 0.251 seconds (Sampling) Chain 1: 0.378 seconds (Total) Chain 1: SAMPLING FOR MODEL 'canham_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 0.00388 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 38.8 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 1.677 seconds (Warm-up) Chain 2: 2.535 seconds (Sampling) Chain 2: 4.212 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_single_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 1.8e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.18 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: Iteration: 1 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.643 seconds (Warm-up) Chain 1: 1.533 seconds (Sampling) Chain 1: 2.176 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' 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: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.009 seconds (Warm-up) Chain 1: 0.013 seconds (Sampling) Chain 1: 0.022 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 2.5e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.25 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.01 seconds (Warm-up) Chain 2: 0.003 seconds (Sampling) Chain 2: 0.013 seconds (Total) Chain 2: SAMPLING FOR MODEL 'vb_single_ind' 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 / 1000 [ 0%] (Warmup) Chain 1: Iteration: 100 / 1000 [ 10%] (Warmup) Chain 1: Iteration: 200 / 1000 [ 20%] (Warmup) Chain 1: Iteration: 300 / 1000 [ 30%] (Warmup) Chain 1: Iteration: 400 / 1000 [ 40%] (Warmup) Chain 1: Iteration: 500 / 1000 [ 50%] (Warmup) Chain 1: Iteration: 501 / 1000 [ 50%] (Sampling) Chain 1: Iteration: 600 / 1000 [ 60%] (Sampling) Chain 1: Iteration: 700 / 1000 [ 70%] (Sampling) Chain 1: Iteration: 800 / 1000 [ 80%] (Sampling) Chain 1: Iteration: 900 / 1000 [ 90%] (Sampling) Chain 1: Iteration: 1000 / 1000 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 1.428 seconds (Warm-up) Chain 1: 2.075 seconds (Sampling) Chain 1: 3.503 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 0.000119 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 1.19 seconds. Chain 1: Adjust your expectations accordingly! Chain 1: Chain 1: Chain 1: WARNING: No variance estimation is Chain 1: performed for num_warmup < 20 Chain 1: Chain 1: Iteration: 1 / 20 [ 5%] (Warmup) Chain 1: Iteration: 2 / 20 [ 10%] (Warmup) Chain 1: Iteration: 4 / 20 [ 20%] (Warmup) Chain 1: Iteration: 6 / 20 [ 30%] (Warmup) Chain 1: Iteration: 8 / 20 [ 40%] (Warmup) Chain 1: Iteration: 10 / 20 [ 50%] (Warmup) Chain 1: Iteration: 11 / 20 [ 55%] (Sampling) Chain 1: Iteration: 12 / 20 [ 60%] (Sampling) Chain 1: Iteration: 14 / 20 [ 70%] (Sampling) Chain 1: Iteration: 16 / 20 [ 80%] (Sampling) Chain 1: Iteration: 18 / 20 [ 90%] (Sampling) Chain 1: Iteration: 20 / 20 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.019 seconds (Warm-up) Chain 1: 0.027 seconds (Sampling) Chain 1: 0.046 seconds (Total) Chain 1: SAMPLING FOR MODEL 'vb_multi_ind' NOW (CHAIN 2). Chain 2: Chain 2: Gradient evaluation took 6e-05 seconds Chain 2: 1000 transitions using 10 leapfrog steps per transition would take 0.6 seconds. Chain 2: Adjust your expectations accordingly! Chain 2: Chain 2: Chain 2: WARNING: No variance estimation is Chain 2: performed for num_warmup < 20 Chain 2: Chain 2: Iteration: 1 / 20 [ 5%] (Warmup) Chain 2: Iteration: 2 / 20 [ 10%] (Warmup) Chain 2: Iteration: 4 / 20 [ 20%] (Warmup) Chain 2: Iteration: 6 / 20 [ 30%] (Warmup) Chain 2: Iteration: 8 / 20 [ 40%] (Warmup) Chain 2: Iteration: 10 / 20 [ 50%] (Warmup) Chain 2: Iteration: 11 / 20 [ 55%] (Sampling) Chain 2: Iteration: 12 / 20 [ 60%] (Sampling) Chain 2: Iteration: 14 / 20 [ 70%] (Sampling) Chain 2: Iteration: 16 / 20 [ 80%] (Sampling) Chain 2: Iteration: 18 / 20 [ 90%] (Sampling) Chain 2: Iteration: 20 / 20 [100%] (Sampling) Chain 2: Chain 2: Elapsed Time: 0.011 seconds (Warm-up) Chain 2: 0.018 seconds (Sampling) Chain 2: 0.029 seconds (Total) Chain 2: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 9.6e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.96 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 = 3 Chain 1: adapt_window = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.076 seconds (Warm-up) Chain 1: 0.063 seconds (Sampling) Chain 1: 0.139 seconds (Total) Chain 1: SAMPLING FOR MODEL 'constant_multi_ind' NOW (CHAIN 1). Chain 1: Chain 1: Gradient evaluation took 9.1e-05 seconds Chain 1: 1000 transitions using 10 leapfrog steps per transition would take 0.91 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 = 20 Chain 1: term_buffer = 2 Chain 1: Chain 1: Iteration: 1 / 50 [ 2%] (Warmup) Chain 1: Iteration: 5 / 50 [ 10%] (Warmup) Chain 1: Iteration: 10 / 50 [ 20%] (Warmup) Chain 1: Iteration: 15 / 50 [ 30%] (Warmup) Chain 1: Iteration: 20 / 50 [ 40%] (Warmup) Chain 1: Iteration: 25 / 50 [ 50%] (Warmup) Chain 1: Iteration: 26 / 50 [ 52%] (Sampling) Chain 1: Iteration: 30 / 50 [ 60%] (Sampling) Chain 1: Iteration: 35 / 50 [ 70%] (Sampling) Chain 1: Iteration: 40 / 50 [ 80%] (Sampling) Chain 1: Iteration: 45 / 50 [ 90%] (Sampling) Chain 1: Iteration: 50 / 50 [100%] (Sampling) Chain 1: Chain 1: Elapsed Time: 0.157 seconds (Warm-up) Chain 1: 0.073 seconds (Sampling) Chain 1: 0.23 seconds (Total) Chain 1: [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-hmde_plot_de_pieces.R:17:3'): Execution and output: plot_de_pieces function ── `plot` does not have names. ── Failure ('test-hmde_plot_de_pieces.R:21:3'): Execution and output: plot_de_pieces function ── `plot` has type 'object', not 'list'. ── Failure ('test-hmde_plot_obs_est_inds.R:5:3'): Execution and output: plot_obs_est_inds function ── `plot` does not have names. ── Failure ('test-hmde_plot_obs_est_inds.R:9:3'): Execution and output: plot_obs_est_inds function ── `plot` has type 'object', not 'list'. [ FAIL 4 | WARN 0 | SKIP 0 | PASS 85 ] Error: Test failures Execution halted Flavor: r-oldrel-windows-x86_64