R Under development (unstable) (2026-03-13 r89618 ucrt) -- "Unsuffered Consequences"
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> # 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(RcppML)
Loading required package: Matrix

Attaching package: 'RcppML'

The following object is masked from 'package:base':

    svd

> 
> test_check("RcppML")
Note: loading CSV as dense matrix; consider converting to .spz or .rds for efficiency
Note: loading TSV as dense matrix; consider converting to .spz or .rds for efficiency
[transpose] Reading 100 x 80 matrix (nnz=800)...
[transpose] Recompressing with transpose...
[spz] Compressing v2: 100 × 80, nnz=800 (10.0%), type=float32, chunks=80 cols
[spz] Building transpose for pre-computed CSC(Aᵀ)...
[spz] Transpose: 2 chunks, 6890 bytes
[spz] Compressed: 6736 → 11645 bytes (0.6x), 1 chunks, 0.5 ms
[transpose] Done. Transpose added (1 chunks).
[ FAIL 0 | WARN 0 | SKIP 488 | PASS 1295 ]

══ Skipped tests (488) ═════════════════════════════════════════════════════════
• .st_dispatch not yet re-implemented (11): 'test_file_input.R:42:3',
  'test_p2_hardening.R:299:3', 'test_streaming.R:78:3',
  'test_streaming.R:93:3', 'test_streaming.R:250:3',
  'test_streaming_loss_rejection.R:9:3',
  'test_streaming_loss_rejection.R:33:3',
  'test_streaming_loss_rejection.R:55:3',
  'test_streaming_loss_rejection.R:77:3', 'test_streampress_compat.R:27:3',
  'test_streampress_compat.R:71:3'
• GPU not available (93): 'test_gpu_accuracy.R:24:3',
  'test_gpu_accuracy.R:77:3', 'test_gpu_accuracy.R:116:3',
  'test_gpu_accuracy.R:156:3', 'test_gpu_accuracy.R:180:3',
  'test_gpu_accuracy.R:223:3', 'test_gpu_clustering.R:7:3',
  'test_gpu_clustering.R:31:3', 'test_gpu_clustering.R:47:3',
  'test_gpu_clustering.R:71:3', 'test_gpu_dense.R:176:3',
  'test_gpu_dense.R:193:3', 'test_gpu_dense.R:220:3', 'test_gpu_dense.R:234:3',
  'test_gpu_dense.R:247:3', 'test_gpu_dense.R:258:3', 'test_gpu_dense.R:269:3',
  'test_gpu_dense.R:284:3', 'test_gpu_dense.R:296:3', 'test_gpu_dense.R:312:3',
  'test_gpu_dense.R:325:3', 'test_gpu_dense.R:341:3', 'test_gpu_dense.R:353:3',
  'test_gpu_dense.R:365:3', 'test_gpu_dense.R:377:3', 'test_gpu_dense.R:389:3',
  'test_gpu_dense.R:401:3', 'test_gpu_dense.R:417:3', 'test_gpu_dense.R:437:3',
  'test_gpu_dense.R:454:3', 'test_gpu_dense.R:476:3', 'test_gpu_dense.R:496:3',
  'test_gpu_dense.R:511:3', 'test_gpu_dense.R:526:3', 'test_gpu_dense.R:538:3',
  'test_gpu_dense.R:554:3', 'test_gpu_dense.R:571:3', 'test_gpu_dense.R:588:3',
  'test_gpu_dense.R:600:3', 'test_gpu_dense.R:616:3', 'test_gpu_dense.R:625:3',
  'test_gpu_features.R:18:3', 'test_gpu_features.R:45:3',
  'test_gpu_features.R:79:3', 'test_gpu_features.R:111:3',
  'test_gpu_features.R:135:3', 'test_gpu_features.R:165:3',
  'test_gpu_features.R:193:3', 'test_gpu_features.R:222:3',
  'test_gpu_features.R:264:3', 'test_gpu_features.R:290:3',
  'test_gpu_features.R:320:3', 'test_gpu_features.R:347:3',
  'test_gpu_features.R:394:3', 'test_gpu_features.R:430:3',
  'test_gpu_features.R:465:3', 'test_gpu_features.R:497:3',
  'test_gpu_features.R:532:3', 'test_gpu_features.R:568:3',
  'test_gpu_features.R:589:3', 'test_gpu_features.R:610:3',
  'test_gpu_features.R:627:3', 'test_gpu_features.R:646:3',
  'test_gpu_features.R:666:3', 'test_gpu_features.R:688:3',
  'test_gpu_features.R:705:3', 'test_gpu_features.R:724:3',
  'test_gpu_features.R:745:3', 'test_gpu_features.R:764:3',
  'test_gpu_graph.R:7:3', 'test_gpu_graph.R:37:3', 'test_gpu_graph.R:66:3',
  'test_gpu_init.R:7:3', 'test_gpu_init.R:26:3', 'test_gpu_init.R:46:3',
  'test_gpu_init.R:65:3', 'test_gpu_init.R:85:3', 'test_gpu_init.R:106:3',
  'test_gpu_init.R:122:3', 'test_gpu_init.R:140:3', 'test_gpu_oom.R:10:3',
  'test_gpu_oom.R:75:3', 'test_gpu_oom.R:103:3', 'test_gpu_oom.R:141:3',
  'test_gpu_oom.R:159:3', 'test_gpu_sparsepress.R:8:3',
  'test_gpu_sparsepress.R:40:3', 'test_gpu_sparsepress.R:65:3',
  'test_gpu_sparsepress.R:73:3', 'test_gpu_sparsepress.R:80:3',
  'test_gpu_sparsepress.R:104:3', 'test_gpu_sparsepress.R:147:3',
  'test_gpu_svd.R:7:1'
• Need multiple threads for parallel test (1): 'test_reproducibility.R:46:3'
• No GPU available (40): 'test_chunked_gpu.R:20:3', 'test_chunked_gpu.R:45:3',
  'test_chunked_gpu.R:67:3', 'test_chunked_gpu.R:89:3',
  'test_chunked_gpu.R:121:3', 'test_gpu_cv.R:18:3', 'test_gpu_cv.R:44:3',
  'test_gpu_cv.R:70:3', 'test_gpu_cv.R:93:3', 'test_gpu_cv.R:120:3',
  'test_gpu_cv.R:146:3', 'test_gpu_dense.R:16:3', 'test_gpu_dense.R:39:3',
  'test_gpu_dense.R:62:3', 'test_gpu_dense.R:84:3', 'test_gpu_dense.R:101:3',
  'test_gpu_dense.R:117:3', 'test_gpu_dense.R:133:3',
  'test_gpu_distributions.R:38:3', 'test_gpu_distributions.R:65:3',
  'test_gpu_distributions.R:84:3', 'test_gpu_distributions.R:108:3',
  'test_gpu_distributions.R:131:3', 'test_gpu_distributions.R:150:3',
  'test_gpu_streaming.R:18:3', 'test_gpu_streaming.R:44:3',
  'test_gpu_streaming.R:73:3', 'test_gpu_streaming.R:111:3',
  'test_gpu_streaming.R:130:3', 'test_gpu_streaming.R:167:3',
  'test_gpu_streaming.R:180:3', 'test_gpu_streaming.R:190:3',
  'test_gpu_streaming.R:200:3', 'test_gpu_streaming.R:212:3',
  'test_gpu_streaming.R:233:3', 'test_gpu_streaming.R:242:3',
  'test_gpu_streaming.R:257:3', 'test_gpu_utils.R:21:3',
  'test_gpu_variants.R:15:3', 'test_gpu_variants.R:43:3'
• On CRAN (339): 'test_build_dense_paths.R:11:3',
  'test_build_dense_paths.R:29:3', 'test_build_dense_paths.R:49:3',
  'test_build_dense_paths.R:66:3', 'test_build_dense_paths.R:86:3',
  'test_build_dense_paths.R:108:3', 'test_build_dense_paths.R:126:3',
  'test_build_dense_paths.R:151:3', 'test_build_ls_semi_nmf.R:11:3',
  'test_build_ls_semi_nmf.R:26:3', 'test_build_ls_semi_nmf.R:46:3',
  'test_build_ls_semi_nmf.R:60:3', 'test_build_ls_semi_nmf.R:76:3',
  'test_build_ls_semi_nmf.R:94:3', 'test_build_ls_semi_nmf.R:110:3',
  'test_build_ls_semi_nmf.R:127:3', 'test_build_ls_semi_nmf.R:143:3',
  'test_build_ls_semi_nmf.R:156:3', 'test_consensus.R:6:3',
  'test_consensus.R:27:3', 'test_consensus.R:43:3', 'test_consensus.R:58:3',
  'test_consensus.R:71:3', 'test_consensus.R:82:3', 'test_convergence.R:23:3',
  'test_convergence.R:49:3', 'test_convergence.R:70:3',
  'test_convergence.R:87:3', 'test_convergence.R:107:3',
  'test_convergence.R:137:3', 'test_convergence.R:159:3',
  'test_convergence.R:176:3', 'test_convergence.R:208:3',
  'test_convergence.R:220:3', 'test_convergence.R:232:3',
  'test_convergence.R:248:3', 'test_convergence.R:261:3',
  'test_convergence.R:272:3', 'test_convergence.R:285:3',
  'test_convergence.R:300:3', 'test_coverage_gaps.R:12:3',
  'test_coverage_gaps.R:35:3', 'test_coverage_gaps.R:55:3',
  'test_coverage_gaps.R:75:3', 'test_coverage_gaps.R:92:3',
  'test_coverage_gaps.R:109:3', 'test_coverage_gaps.R:127:3',
  'test_coverage_gaps.R:151:3', 'test_cv_distributions.R:19:3',
  'test_cv_distributions.R:28:3', 'test_cv_distributions.R:41:3',
  'test_cv_distributions.R:61:3', 'test_cv_distributions.R:77:3',
  'test_cv_distributions.R:97:3', 'test_cv_distributions.R:113:3',
  'test_cv_distributions.R:129:3', 'test_cv_distributions.R:145:3',
  'test_cv_distributions.R:159:3', 'test_cv_distributions.R:172:3',
  'test_cv_distributions.R:183:3', 'test_cv_distributions.R:194:3',
  'test_cv_distributions.R:209:3', 'test_cv_distributions.R:220:3',
  'test_cv_distributions.R:231:3', 'test_cv_distributions.R:246:3',
  'test_cv_irls.R:125:3', 'test_cv_irls.R:140:3', 'test_dense_irls.R:8:3',
  'test_dense_irls.R:22:3', 'test_dense_irls.R:34:3', 'test_dense_irls.R:46:3',
  'test_dense_irls.R:62:3', 'test_dense_irls.R:81:3', 'test_dense_irls.R:94:3',
  'test_dense_irls.R:110:3', 'test_dense_irls.R:125:3',
  'test_dense_irls.R:140:3', 'test_dense_irls.R:155:3',
  'test_distribution_api.R:40:3', 'test_distribution_api.R:48:3',
  'test_distribution_api.R:56:3', 'test_distribution_api.R:65:3',
  'test_distribution_api.R:75:3', 'test_distribution_api.R:83:3',
  'test_distribution_api.R:95:3', 'test_distribution_api.R:106:3',
  'test_distribution_api.R:114:3', 'test_distribution_api.R:123:3',
  'test_distribution_api.R:135:3', 'test_distribution_api.R:149:3',
  'test_distribution_api.R:160:3', 'test_distribution_api.R:171:3',
  'test_distribution_api.R:182:3', 'test_distribution_api.R:198:3',
  'test_distribution_api.R:208:3', 'test_distribution_api.R:222:3',
  'test_distribution_api.R:230:3', 'test_distribution_api.R:239:3',
  'test_distribution_api.R:248:3', 'test_distribution_api.R:256:3',
  'test_distribution_api.R:268:3', 'test_distribution_api.R:279:3',
  'test_distribution_api.R:294:3', 'test_distribution_api.R:309:3',
  'test_distribution_api.R:320:3', 'test_distribution_api.R:333:3',
  'test_distribution_api.R:344:3', 'test_distribution_api.R:353:3',
  'test_distribution_api.R:366:3', 'test_distribution_api.R:380:3',
  'test_distribution_api.R:393:3', 'test_distribution_api.R:416:3',
  'test_distribution_api.R:442:3', 'test_distribution_api.R:450:3',
  'test_distribution_api.R:463:3', 'test_distribution_api.R:476:3',
  'test_distribution_api.R:485:3', 'test_distribution_api.R:497:3',
  'test_distribution_api.R:507:3', 'test_distribution_api.R:530:3',
  'test_distribution_api.R:546:3', 'test_distribution_api.R:565:3',
  'test_distribution_api.R:583:3', 'test_distribution_api.R:617:3',
  'test_distribution_losses.R:24:3', 'test_distribution_losses.R:37:3',
  'test_distribution_losses.R:51:3', 'test_distribution_losses.R:66:3',
  'test_distribution_losses.R:79:3', 'test_distribution_losses.R:93:3',
  'test_distribution_losses.R:106:3', 'test_distribution_losses.R:122:3',
  'test_distribution_losses.R:134:3', 'test_distribution_losses.R:146:3',
  'test_distribution_losses.R:160:3', 'test_distribution_losses.R:172:3',
  'test_factor_net.R:426:3', 'test_factor_net.R:634:3',
  'test_factor_net.R:656:3', 'test_file_input.R:2:3',
  'test_g1_g6_fixes.R:16:3', 'test_g1_g6_fixes.R:30:3',
  'test_g1_g6_fixes.R:44:3', 'test_g1_g6_fixes.R:59:3',
  'test_g1_g6_fixes.R:72:3', 'test_g1_g6_fixes.R:90:3',
  'test_g1_g6_fixes.R:104:3', 'test_g1_g6_fixes.R:121:3',
  'test_g1_g6_fixes.R:138:3', 'test_g1_g6_fixes.R:154:3',
  'test_g1_g6_fixes.R:170:3', 'test_g1_g6_fixes.R:188:3',
  'test_g1_g6_fixes.R:198:3', 'test_gp_nmf.R:37:3', 'test_gp_nmf.R:58:3',
  'test_gp_nmf.R:81:3', 'test_gp_nmf.R:91:3', 'test_gp_nmf.R:104:3',
  'test_gp_nmf.R:114:3', 'test_gp_nmf.R:125:3', 'test_gp_nmf.R:136:3',
  'test_gp_nmf.R:150:3', 'test_gp_nmf.R:162:3', 'test_gp_nmf.R:173:3',
  'test_gp_nmf.R:192:3', 'test_gp_nmf.R:205:3', 'test_gp_nmf.R:216:3',
  'test_gp_nmf.R:235:3', 'test_gp_nmf.R:244:3', 'test_gp_nmf.R:260:3',
  'test_gp_nmf.R:274:3', 'test_gp_nmf.R:296:3', 'test_gp_nmf.R:317:3',
  'test_gp_nmf.R:339:3', 'test_gpu_zi.R:45:3', 'test_gpu_zi.R:62:3',
  'test_gpu_zi.R:81:3', 'test_gpu_zi.R:106:3', 'test_gpu_zi.R:122:3',
  'test_gpu_zi.R:141:3', 'test_ground_truth_recovery.R:49:3',
  'test_ground_truth_recovery.R:83:3', 'test_ground_truth_recovery.R:112:3',
  'test_ground_truth_recovery.R:138:3', 'test_ground_truth_recovery.R:163:3',
  'test_ground_truth_recovery.R:186:3', 'test_ground_truth_recovery.R:209:3',
  'test_ground_truth_recovery.R:241:3', 'test_ground_truth_recovery.R:279:3',
  'test_ground_truth_recovery.R:309:3', 'test_ground_truth_recovery.R:329:3',
  'test_loss_functions.R:7:3', 'test_loss_functions.R:25:3',
  'test_loss_functions.R:40:3', 'test_loss_functions.R:53:3',
  'test_loss_functions.R:65:3', 'test_loss_functions.R:85:3',
  'test_loss_functions.R:105:3', 'test_loss_functions.R:126:3',
  'test_loss_functions.R:153:3', 'test_loss_functions.R:180:3',
  'test_loss_functions.R:207:3', 'test_loss_monotonicity.R:7:3',
  'test_loss_monotonicity.R:28:3', 'test_loss_monotonicity.R:49:3',
  'test_loss_monotonicity.R:69:3', 'test_loss_monotonicity.R:90:3',
  'test_loss_monotonicity.R:107:3', 'test_loss_monotonicity.R:125:3',
  'test_loss_monotonicity.R:143:3', 'test_loss_monotonicity.R:160:3',
  'test_loss_monotonicity.R:179:3', 'test_masking.R:7:3',
  'test_masking.R:36:3', 'test_masking.R:57:3', 'test_masking.R:77:3',
  'test_masking.R:94:3', 'test_masking.R:116:3', 'test_masking.R:142:3',
  'test_masking.R:173:3', 'test_masking.R:201:3', 'test_masking.R:217:3',
  'test_masking.R:241:3', 'test_masking.R:265:3', 'test_masking.R:280:3',
  'test_multi_rank_cv.R:6:3', 'test_multi_rank_cv.R:26:3',
  'test_multi_rank_cv.R:39:3', 'test_multi_rank_cv.R:51:3',
  'test_multi_rank_cv.R:66:3', 'test_multi_rank_cv.R:79:3',
  'test_multi_rank_cv.R:91:3', 'test_nb_nmf.R:34:3', 'test_nb_nmf.R:59:3',
  'test_nb_nmf.R:86:3', 'test_nb_nmf.R:96:3', 'test_nb_nmf.R:109:3',
  'test_nb_nmf.R:129:3', 'test_nb_nmf.R:142:3', 'test_nb_nmf.R:150:3',
  'test_nb_nmf.R:158:3', 'test_nb_nmf.R:172:3', 'test_nb_nmf.R:181:3',
  'test_nb_nmf.R:190:3', 'test_nb_nmf.R:207:3', 'test_orthogonality.R:4:3',
  'test_orthogonality.R:17:3', 'test_orthogonality.R:27:3',
  'test_orthogonality.R:59:3', 'test_orthogonality.R:74:3',
  'test_orthogonality.R:89:3', 'test_orthogonality.R:120:3',
  'test_p2_hardening.R:11:3', 'test_p2_hardening.R:24:3',
  'test_p2_hardening.R:43:3', 'test_p2_hardening.R:58:3',
  'test_p2_hardening.R:73:3', 'test_p2_hardening.R:94:3',
  'test_p2_hardening.R:109:3', 'test_p2_hardening.R:126:3',
  'test_p2_hardening.R:148:3', 'test_p2_hardening.R:169:3',
  'test_p2_hardening.R:195:3', 'test_p2_hardening.R:207:3',
  'test_p2_hardening.R:221:3', 'test_p2_hardening.R:231:3',
  'test_p2_hardening.R:242:3', 'test_p2_hardening.R:254:3',
  'test_p2_hardening.R:273:3', 'test_p2_hardening.R:284:3',
  'test_p2_hardening.R:326:3', 'test_p2_hardening.R:349:3',
  'test_plot_consensus.R:5:3', 'test_plot_consensus.R:19:3',
  'test_plot_consensus.R:33:3', 'test_refine.R:78:3', 'test_refine.R:95:3',
  'test_refine.R:127:3', 'test_regularization.R:7:3',
  'test_regularization.R:33:3', 'test_regularization.R:69:3',
  'test_regularization.R:94:3', 'test_regularization.R:127:3',
  'test_regularization.R:155:3', 'test_regularization.R:170:3',
  'test_regularization.R:190:3', 'test_regularization.R:217:3',
  'test_regularization.R:235:3', 'test_regularization.R:264:3',
  'test_regularization_effects.R:12:3', 'test_regularization_effects.R:41:3',
  'test_regularization_effects.R:67:3', 'test_regularization_effects.R:83:3',
  'test_regularization_effects.R:108:3', 'test_regularization_effects.R:129:3',
  'test_regularization_effects.R:145:3', 'test_reproducibility.R:16:3',
  'test_streaming.R:2:3', 'test_streaming.R:15:3', 'test_streaming.R:32:3',
  'test_streaming.R:42:3', 'test_streaming.R:54:3', 'test_streaming.R:64:3',
  'test_streaming.R:120:3', 'test_streaming.R:139:3', 'test_streaming.R:158:3',
  'test_streaming.R:179:3', 'test_streaming.R:199:3', 'test_streaming.R:214:3',
  'test_streaming.R:231:3', 'test_streaming_svd_cv.R:26:3',
  'test_streaming_svd_cv.R:36:3', 'test_streaming_svd_cv.R:49:3',
  'test_streaming_svd_cv.R:64:3', 'test_streaming_svd_cv.R:77:3',
  'test_streaming_svd_cv.R:91:3', 'test_streaming_svd_cv.R:118:3',
  'test_streaming_svd_cv.R:134:3', 'test_streaming_svd_cv.R:163:3',
  'test_target_regularization.R:4:3', 'test_target_regularization.R:32:3',
  'test_target_regularization.R:47:3', 'test_target_regularization.R:77:3',
  'test_target_regularization.R:92:3', 'test_target_regularization.R:108:3',
  'test_target_regularization.R:121:3', 'test_target_regularization.R:136:3',
  'test_target_regularization.R:149:3', 'test_upper_bound.R:10:3',
  'test_upper_bound.R:32:3', 'test_upper_bound.R:46:3',
  'test_upper_bound.R:61:3', 'test_upper_bound.R:74:3', 'test_zi_modes.R:11:3',
  'test_zi_modes.R:36:3', 'test_zi_modes.R:60:3', 'test_zi_modes.R:82:3',
  'test_zi_modes.R:104:3', 'test_zi_modes.R:126:3'
• RAM detection not available on this platform (1):
  'test_streampress_compat.R:85:3'
• SPZ streaming IRLS tested in test_streaming_loss_rejection.R (1):
  'test_gpu_streaming.R:104:3'
• pbmc3k.spz not found in extdata (1): 'test_streampress_cpp.R:131:3'
• st_read cols= subsetting is not yet functional (known limitation) (1):
  'test_spz_roundtrip_comprehensive.R:98:3'

[ FAIL 0 | WARN 0 | SKIP 488 | PASS 1295 ]
> 
> proc.time()
   user  system elapsed 
  22.67    2.96   25.21