R Under development (unstable) (2024-06-29 r86852 ucrt) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files > > library(testthat) > library(jlmerclusterperm) > > test_check("jlmerclusterperm") Julia Version 1.8.5 Commit 17cfb8e65e (2023-01-08 06:45 UTC) Platform Info: OS: Windows (x86_64-w64-mingw32) CPU: 48 × AMD EPYC 7443 24-Core Processor WORD_SIZE: 64 LIBM: libopenlibm LLVM: libLLVM-13.0.1 (ORCJIT, znver3) Threads: 1 on 96 virtual cores nothing ℹ Starting Julia with 2 threads ✔ Starting Julia with 2 threads [5.1s] ℹ Activating package environment Precompiling project... ✓ JlmerClusterPerm 1 dependency successfully precompiled in 62 seconds. 110 already precompiled. ✔ Activating package environment [1m 6.9s] Status `D:\temp\Rtmp8mLMZL\julia\Project.toml` ⌅ [a93c6f00] DataFrames v1.3.6 [31c24e10] Distributions v0.25.109 ⌅ [38e38edf] GLM v1.8.3 [2a59065a] JlmerClusterPerm v0.1.1 `JlmerClusterPerm` [ff71e718] MixedModels v4.24.1 ⌅ [92933f4c] ProgressMeter v1.7.2 ⌅ [74087812] Random123 v1.6.2 ⌃ [2913bbd2] StatsBase v0.33.21 [3eaba693] StatsModels v0.7.3 [fd094767] Suppressor v0.2.7 [9a3f8284] Random Info Packages marked with ⌃ and ⌅ have new versions available, but those with ⌅ are restricted by compatibility constraints from upgrading. 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"8e850ede-7688-5339-a07c-302acd2aaf8d" version = "1.48.0+0" [[deps.p7zip_jll]] deps = ["Artifacts", "Libdl"] uuid = "3f19e933-33d8-53b3-aaab-bd5110c3b7a0" version = "17.4.0+0" i Starting Julia with 2 threads v Starting Julia with 2 threads [5.2s] i Activating package environment v Activating package environment [1m 0.4s] i Running package setup scripts (1/11) i Running package setup scripts (7/11) i Running package setup scripts (9/11) i Running package setup scripts (11/11) v Running package setup scripts (11/11) [1m 42.8s] Julia instance already running - skipping setup. Progress: 2%|█ | ETA: 0:02:17 ( 1.40 s/it) Progress: 100%|████████████████████████████████████| Time: 0:00:03 (35.32 ms/it) Progress: 85%|███████████████████████████████ | ETA: 0:00:00 ( 1.29 ms/it) Progress: 100%|████████████████████████████████████| Time: 0:00:00 ( 1.25 ms/it) Progress: 69%|█████████████████████████ | ETA: 0:00:00 ( 1.58 ms/it) Progress: 100%|████████████████████████████████████| Time: 0:00:00 ( 1.25 ms/it) Progress: 38%|██████████████ | ETA: 0:00:00 ( 2.87 ms/it) Progress: 100%|████████████████████████████████████| Time: 0:00:00 ( 1.72 ms/it) i Detecting empirical clusters and calculating cluster-mass statistics. v Detecting empirical clusters and calculating cluster-mass statistics. [1.5s] i Sampling cluster-mass statistics from a bootstrapped null distribution. x Sampling cluster-mass statistics from a bootstrapped null distribution. [48... ── jlmer specification ───────────────────────────────────────── ── Formula: weight ~ 1 + Diet2 + Diet3 + Diet4 Predictors: Diet: Diet2, Diet3, Diet4 Groupings: Subject: Chick Trial: Time: Time Data: weight Diet2 Diet3 Diet4 Chick Time 1 42 0 0 0 1 0 2 51 0 0 0 1 2 3 59 0 0 0 1 4 [ reached 'max' / getOption("max.print") -- omitted 530 rows ] ──────────────────────────────────────────────────────────────────────────────── Time Predictor 0 2 4 6 8 10 12 Diet2 -1.602704 1.670228 2.600323 3.520818 2.375235 1.909022 1.943661 Diet3 -1.373747 2.447078 4.476505 4.543060 3.699665 2.971831 3.061704 Diet4 -0.915831 3.534669 6.274514 6.996441 5.122934 4.071714 3.659132 Time Predictor 14 16 18 20 Diet2 1.341161 1.157799 1.396368 1.512195 Diet3 2.978569 3.045802 3.600737 3.802734 Diet4 2.782950 2.156651 2.134394 2.637206 ── Empirical clusters (t > 2) ────────────────────────── ── Diet2 [4, 8]: 8.496 Diet3 [2, 20]: 34.628 Diet4 [2, 20]: 39.371 ──────────────────────────────────────────────────────────────────────────────── , , Predictor = Diet2 Time Sim 0 2 4 6 8 001 -8.976037e-01 4.123460e-01 3.905987e-01 1.118511261 1.58164911 002 1.395382e+00 9.029226e-01 9.591265e-01 1.437787960 1.60979028 003 -1.441907e+00 1.230785e+00 7.291090e-01 0.881170292 0.93375366 004 -4.488018e-01 1.107810e+00 3.456212e-01 -0.271478188 -0.10333453 005 1.383237e+00 1.027822e-01 6.161440e-01 -0.061358351 -0.30192831 006 -6.916186e-01 6.841944e-02 -3.063436e-01 -0.518037799 -0.20166941 007 1.128978e-01 -7.634112e-01 -5.636450e-01 -0.099694602 -0.02389785 008 3.337366e-01 2.086295e-01 3.313377e-01 -0.016467001 0.42453227 009 5.580322e-01 -1.035661e+00 -3.725952e-01 -0.156318773 0.36055944 010 -4.488018e-01 -2.809331e-01 2.011297e-01 0.485581918 0.42049224 011 1.359870e+00 3.444050e-02 3.189146e-01 0.562537475 0.20063217 012 4.532900e-01 -3.509829e-02 1.969140e-01 -0.436417760 0.34368723 013 -5.607722e-01 1.655750e+00 2.087875e+00 2.160581790 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-0.16397086 002 -0.42658337 003 0.52549566 004 0.16755230 005 1.18256511 006 0.57134286 007 1.66799478 008 0.75761986 009 1.58337474 010 -0.90411743 011 0.20315759 012 0.33112609 013 0.34189982 014 -0.28788783 015 -1.21863492 016 0.70462938 017 0.02019475 018 0.02973891 019 -0.21367098 020 1.04171654 021 0.09134416 022 -1.50000156 023 -0.15619143 024 -0.38922404 025 -0.72160652 026 1.44414530 027 1.00446581 028 -1.17275445 029 0.62144387 030 -0.31788501 031 -0.89210653 032 0.66733630 033 -0.42132791 034 -0.13109234 035 -0.05894552 036 -0.12586873 037 -0.26440591 038 0.41941538 039 -0.89546565 040 0.11223066 041 0.44644623 042 0.54513317 043 -0.62044054 044 -0.39687870 045 -1.43455324 046 -0.66178331 047 -0.24057519 048 1.00402315 049 0.23397764 050 0.86486364 051 0.12674842 052 -0.80786680 053 -2.74996702 054 -0.52554355 055 0.28782076 056 -0.99348207 057 0.57497163 058 -0.19327720 059 0.30789402 060 -0.10245198 061 -0.39249894 062 -0.53678202 063 -1.52074721 064 1.98159848 065 0.52564390 066 -0.20293235 067 0.33381717 068 0.77403228 069 -1.02377225 070 -0.01580273 071 1.93618723 072 -1.15763253 073 0.20798909 074 0.96682699 075 1.27654491 076 0.19620103 077 -1.82116475 078 1.25026390 079 0.21731885 080 -0.86089346 081 -0.16280049 082 1.70525214 083 -0.71715135 084 -0.72588414 085 0.82283265 086 1.60202029 087 -0.63153212 088 0.89872398 089 -0.22407346 090 0.19860300 091 -0.78538453 092 -0.75734545 093 -0.22627456 094 0.42197005 095 0.34639192 096 1.45693550 097 -0.09435302 098 1.65463396 099 0.57357761 100 0.24706215 ── Null cluster-mass distribution (t > 2) ────────────── ── Diet2 (n = 100) Mean (SD): 0.266 (2.13) Coverage intervals: 95% [0.000, 6.579] Diet3 (n = 100) Mean (SD): -0.124 (2.75) Coverage intervals: 95% [-4.777, 5.707] Diet4 (n = 100) Mean (SD): 0.007 (2.50) Coverage intervals: 95% [0.000, 0.000] ──────────────────────────────────────────────────────────────────────────────── ── Empirical clusters (t > 2) ────────────────────────── ── Diet2 [4, 8]: 8.496 (p=0.0297) Diet3 [2, 20]: 34.628 (p=0.0099) Diet4 [2, 20]: 39.371 (p=0.0099) ──────────────────────────────────────────────────────────────────────────────── $null_cluster_dists ── Null cluster-mass distribution (t > 2) ────────────── ── Diet2 (n = 100) Mean (SD): 0.266 (2.13) Coverage intervals: 95% [0.000, 6.579] Diet3 (n = 100) Mean (SD): -0.124 (2.75) Coverage intervals: 95% [-4.777, 5.707] Diet4 (n = 100) Mean (SD): 0.007 (2.50) Coverage intervals: 95% [0.000, 0.000] ──────────────────────────────────────────────────────────────────────────────── $empirical_clusters ── Empirical clusters (t > 2) ────────────────────────── ── Diet2 [4, 8]: 8.496 (p=0.0297) Diet3 [2, 20]: 34.628 (p=0.0099) Diet4 [2, 20]: 39.371 (p=0.0099) ──────────────────────────────────────────────────────────────────────────────── [ FAIL 0 | WARN 0 | SKIP 7 | PASS 20 ] ══ Skipped tests (7) ═══════════════════════════════════════════════════════════ • On CRAN (7): 'test-jlmer.R:1:1', 'test-julia_rng.R:1:1', 'test-permute.R:1:1', 'test-progress.R:1:1', 'test-singularity.R:1:1', 'test-threshold_search.R:1:1', 'test-timewise_statistics.R:1:1' [ FAIL 0 | WARN 0 | SKIP 7 | PASS 20 ] > > proc.time() user system elapsed 4.82 0.84 300.85