* using log directory ‘/data/localhost/ripley/R/packages/tests-MKL/mfrmr.Rcheck’
* using R Under development (unstable) (2026-10-30 r90804)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)
    GNU Fortran (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)
* running under: Fedora Linux 44 (Server Edition)
* using session charset: UTF-8
* current time: 2026-10-30 16:52:08 UTC
* using option ‘--no-stop-on-test-error’
* checking for file ‘mfrmr/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘mfrmr’ version ‘0.2.4’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘mfrmr’ can be installed ... [115s/118s] OK
* used C++ compiler: ‘g++ (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)’
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... [275s/280s] OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [26s/27s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’ [148s/149s]
 [148s/149s] ERROR
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(mfrmr)
  > 
  > is_cran_check <- local({
  +   env <- Sys.getenv("NOT_CRAN")
  +   if (identical(env, "")) {
  +     !interactive()
  +   } else {
  +     !isTRUE(as.logical(env))
  +   }
  + })
  > 
  > # Keep live estimation, independent numerical checks and representative public paths.
  > # Broader report/plot/portable-scoring combinations run in the complete suite.
  > # See CONTRIBUTING.md for representative cases and full-suite commands.
  > # Always retain posterior-summary: archive encoding can break its public reader
  > # even when loaded values are identical.
  > cran_light_tests <- c(
  +   "cran-smoke",
  +   "static-table-isolation",
  +   "model-export",
  +   "posterior-summary",
  +   "adaptive-quadrature-review",
  +   "calibration-public-api",
  +   "classification",
  +   "bias-numerics",
  +   "marginal-fit-availability",
  +   "interaction-em",
  +   "likelihood-numerics",
  +   "source-posterior-numerics",
  +   "preparation-invariants",
  +   "anchor-migration",
  +   "cml",
  +   "compiled-header-contract",
  +   "data-and-citation",
  +   "results-csv-encoding",
  +   "feature-clustering",
  +   "linking-numerics",
  +   "random-rater",
  +   "random-rater-profile",
  +   "testlet",
  +   "gauss-hermite-weights",
  +   "generalizability-missing",
  +   "multivariate-gtheory",
  +   "gstudy-sampling-vcov",
  +   "gstudy-example-replay",
  +   "dstudy-delta",
  +   "multivariate-nested-gtheory",
  +   "icc-input",
  +   "mantel-haenszel",
  +   "ordinal-logistic",
  +   "mml-cpp11-backend",
  +   "bundle-summary-privacy",
  +   "gpcm-ic-eligibility",
  +   "gpcm-lrt",
  +   "gpcm-uncertainty-readiness",
  +   "gpcm-inference-extensions",
  +   "gpcm-pattern-cache",
  +   "gmfrm-public-workflow",
  +   "gmfrm-em",
  +   "jml-public-workflow",
  +   "residual-network",
  +   "prefit-network",
  +   "krippendorff-alpha",
  +   "namespace-contract",
  +   "optimizer-curvature",
  +   "vignette-artifacts",
  +   "facets-results"
  + )
  > 
  > # These detailed files remain in the unfiltered NOT_CRAN=true suite.
  > extended_regression_tests <- c(
  +   "api-migration",
  +   "conditional-scoring",
  +   "mml-starts",
  +   "parameter-map-invariants",
  +   "anchor-centering",
  +   "anchored-calibration",
  +   "anchored-gpcm",
  +   "cml-comparisons",
  +   "comparison-review",
  +   "design-evaluation-denominators",
  +   "response-imputation",
  +   "missing-codes-integration",
  +   "study-report",
  +   "network-inference",
  +   "model-export-affine",
  +   "model-export-summary",
  +   "decision-probabilities",
  +   "facets-manual-consistency",
  +   "extended-example-replay",
  +   "simulation-example-replay",
  +   "dstudy-summary",
  +   "gmfrm-portable",
  +   "planning-report-connections",
  +   "report-modules"
  + )
  > 
  > # Research reference code stays in the repository and runs separately after
  > # full package checks, using the same installed package.
  > reference_tests <- c(
  +   "gmfrm-bounded-search",
  +   "gmfrm-candidate",
  +   "gmfrm-coordinates",
  +   "gmfrm-interior-finish",
  +   "gmfrm-natural-search",
  +   "gmfrm-natural",
  +   "gmfrm-procedure",
  +   "gmfrm-reference-patterns",
  +   "gmfrm-result",
  +   "gmfrm-run",
  +   "gmfrm-segmented-optimizer",
  +   "gmfrm-segmented",
  +   "gmfrm-selection",
  +   "gmfrm-wald",
  +   "gmfrm-zero-location",
  +   "gmfrm-zero-profile-search",
  +   "gmfrm-zero-profile",
  +   "jml-gpcm-binary-closure-envelope",
  +   "jml-gpcm-higher-order-face-lifts",
  +   "jml-gpcm-response-image-face-chart",
  +   "jml-gpcm-response-quotient-closure",
  +   "jml-gpcm-saturated-response-envelope",
  +   "jml-gpcm-boundary-compactification-reference",
  +   "jml-gpcm-exponential-balance-reference",
  +   "jml-gpcm-global-existence-reference",
  +   "jml-gpcm-lexicographic-limit-reference",
  +   "jml-gpcm-parameter-path-reachability-reference",
  +   "jml-gpcm-parameter-sequence-flag-reference",
  +   "jml-gpcm-rate-hierarchy-reference",
  +   "jml-gpcm-sequence-remainder-diagnostic-reference",
  +   "fixed-calibration-anchors-reference"
  + )
  > 
  > cran_light_filter <- paste0(
  +   "(^|/)(test-)?(",
  +   paste(cran_light_tests, collapse = "|"),
  +   ")$"
  + )
  > 
  > if (is_cran_check) {
  +   # Exercise the public data -> declared-design review -> fit -> summary ->
  +   # Wright/pathway plot -> export route once, plus lightweight compatibility,
  +   # backend, privacy, and installed-artifact contracts. Portable scoring,
  +   # dashboard restrictions, consolidated plot dispatch on saved results, and
  +   # guarded optimizer restarts are included.
  +   # Detailed plotting, repeated estimation/diagnostics, simulation/recovery,
  +   # documentation scans and broad regression tests remain in the complete
  +   # local/CI suite, which must be run with NOT_CRAN=true.
  +   local({
  +     # Short files share one session; do not start parallel worker libraries.
  +     withr::local_options(Ncpus = 1L)
  +     withr::local_envvar(c(
  +       TESTTHAT_PARALLEL = "false", TESTTHAT_CPUS = "1",
  +       OMP_NUM_THREADS = "1", OPENBLAS_NUM_THREADS = "1",
  +       MKL_NUM_THREADS = "1", VECLIB_MAXIMUM_THREADS = "1",
  +       BLIS_NUM_THREADS = "1"
  +     ))
  +     test_check("mfrmr", filter = cran_light_filter)
  +   })
  + } else {
  +   test_check("mfrmr")
  + }
  Saving _problems/test-gstudy-sampling-vcov-63.R
  compute_facet_icc(): lme4 reported 2 fit warning(s); the ICC table is returned but results may be unreliable. First message: Model failed to converge with max|grad| = 47.1657 (tol = 0.002, component 1)
    See ?lme4::convergence and ?lme4::troubleshooting.
  boundary (singular) fit: see help('isSingular')
  [ FAIL 1 | WARN 0 | SKIP 14 | PASS 5254 ]
  
  ══ Skipped tests (14) ══════════════════════════════════════════════════════════
  • On CRAN (13): 'test-adaptive-quadrature-review.R:65:3',
    'test-anchor-migration.R:61:3', 'test-gmfrm-em.R:629:3',
    'test-gmfrm-public-workflow.R:76:3', 'test-gpcm-inference-extensions.R:22:3',
    'test-interaction-em.R:149:3', 'test-jml-public-workflow.R:123:3',
    'test-jml-public-workflow.R:139:3', 'test-marginal-fit-availability.R:179:3',
    'test-random-rater.R:202:3', 'test-random-rater.R:216:3',
    'test-random-rater.R:250:3', 'test-testlet.R:123:3'
  • compiled sources are not available (1):
    'test-compiled-header-contract.R:43:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-gstudy-sampling-vcov.R:63:5'): balanced MINQUE and ANOVA sampling SEs match existing independent-MS formulas ──
  Expected `vcov(a, score = s, assumption = "normal")` to be identical to `y`.
  Differences:
  attr(actual, 'diagnostics')$singular_values vs attr(expected, 'diagnostics')$singular_values
    1.82443498542525129
  - 1.32418326299604416
  + 1.32418326299604461
  - 1.27489561864198486
  + 1.27489561864198619
  - 1.11359045725684935
  + 1.11359045725684958
  - 1.04967303011744195
  + 1.04967303011744351
  - 1.03841224639570351
  + 1.03841224639570329
  - 1.01159827651070855
  + 1.01159827651070922
  - 1.00463206683612927
  + 1.00463206683612949
  - 1.00228644951882484
  + 1.00228644951882551
  - 1.00001218342933273
  + 1.00001218342933518
  and 20 more ...
  
  attr(actual, 'diagnostics')$reconstruction_error vs attr(expected, 'diagnostics')$reconstruction_error
  - 0.000000000000001958
  + 0.000000000000000919
  - 0.000000000000001048
  + 0.000000000000001229
  - 0.000000000000000992
  + 0.000000000000001098
    0.000000000000000000
  - 0.000000000000000480
  + 0.000000000000000380
  - 0.000000000000000459
  + 0.000000000000000358
  - 0.000000000000001048
  + 0.000000000000001229
  - 0.000000000000001046
  + 0.000000000000001219
  - 0.000000000000001946
  + 0.000000000000001867
  - 0.000000000000001046
  + 0.000000000000001219
  and 5 more ...
  
  attr(actual, 'diagnostics')$normalized_covariance vs attr(expected, 'diagnostics')$normalized_covariance
  - 0.01034560443707439881
  + 0.01034560443707440922
  - 0.00029703913500279852
  + 0.00029703913500279830
    0.00000000000000000000
  - -0.00237631308002238814
  + -0.00237631308002238641
    0.00000000000000000000
  - 0.00029703913500279852
  + 0.00029703913500279830
    0.00839415886353266777
  - -0.00701611855173830436
  + -0.00701611855173830522
  - -0.00143525951090854131
  + -0.00143525951090854001
  - 0.00074130891269204139
  + 0.00074130891269204096
  and 15 more ...
  
  attr(actual, 'summary')$SamplingVariance vs attr(expected, 'summary')$SamplingVariance
  - 0.058397462180497267
  + 0.058397462180497330
    0.047382207366596006
  - 0.118810897982163946
  + 0.118810897982163974
  - 0.064812462929373302
  + 0.064812462929373246
  - 0.100426555736919831
  + 0.100426555736919776
  
      attr(actual, 'summary')$SE | attr(expected, 'summary')$SE    
  [1] 0.241655668628934256       - 0.241655668628934367         [1]
  [2] 0.217674544599491482       | 0.217674544599491482         [2]
  [3] 0.344689567556321519       - 0.344689567556321574         [3]
  [4] 0.254582919555443266       - 0.254582919555443155         [4]
  [5] 0.316901492165814536       - 0.316901492165814480         [5]
  
       actual                 | expected                              
   [1] 0.0583974621804972671  - 0.0583974621804973296  [1]            
   [2] 0.0016766861480119440  - 0.0016766861480119427  [2]            
   [3] 0.0000000000000000000  | 0.0000000000000000000  [3]            
   [4] -0.0134134891840955520 - -0.0134134891840955416 [4]            
   [5] 0.0000000000000000000  | 0.0000000000000000000  [5]            
   [6] 0.0016766861480119440  - 0.0016766861480119427  [6]            
   [7] 0.0473822073665960061  | 0.0473822073665960061  [7]            
   [8] -0.0396036326607213107 | -0.0396036326607213107 [8]            
   [9] -0.0081015578661716627 - -0.0081015578661716558 [9]            
  [10] 0.0041844398223716585  - 0.0041844398223716559  [10]           
   ... ...                      ...                    and 15 more ...
  
  
  [ FAIL 1 | WARN 0 | SKIP 14 | PASS 5254 ]
  Error:
  ! Test failures.
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [42s/43s] OK
* checking PDF version of manual ... [37s/37s] OK
* checking HTML version of manual ... [28s/27s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE

Status: 1 ERROR
See
  ‘/data/localhost/ripley/R/packages/tests-MKL/mfrmr.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 13:01.94, 743.67 + 23.64