* using log directory ‘/data/gannet/ripley/R/packages/tests-MKL/matrixCorr.Rcheck’
* using R Under development (unstable) (2025-10-01 r88895)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
    GNU Fortran (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
* running under: Fedora Linux 42 (Workstation Edition)
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘matrixCorr/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘matrixCorr’ version ‘0.5.1’
* 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 ‘matrixCorr’ can be installed ... [330s/576s] OK
* used C++ compiler: ‘g++ (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’
* checking package 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 ... [5s/13s] OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... [5s/12s] OK
* checking whether the namespace can be loaded with stated dependencies ... [5s/11s] OK
* checking whether the namespace can be unloaded cleanly ... [5s/12s] OK
* checking loading without being on the library search path ... [5s/10s] 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 ... [40s/83s] 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 line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking examples ... [15s/40s] ERROR
Running examples in ‘matrixCorr-Ex.R’ failed
The error most likely occurred in:

> ### Name: ccc_lmm_reml
> ### Title: Concordance Correlation via REML (Linear Mixed-Effects Model)
> ### Aliases: ccc_lmm_reml
> 
> ### ** Examples
> 
> # ====================================================================
> # 1) Two methods (no time): baseline CCC
> # ====================================================================
> set.seed(1)
> n_subj <- 30
> meth   <- factor(rep(c("A","B"), each = n_subj))
> id     <- factor(rep(seq_len(n_subj), times = 2))
> sigA <- 1.0; sigE <- 0.5
> u  <- rnorm(n_subj, 0, sqrt(sigA))
> y  <- c(u + rnorm(n_subj, 0, sqrt(sigE)),
+          u + 0.2 + rnorm(n_subj, 0, sqrt(sigE)))
> dat <- data.frame(y, id, method = meth)
> 
> ccc_rm1 <- ccc_lmm_reml(dat, response = "y", rind = "id", method = "method")

 *** caught segfault ***
address 0x1, cause 'memory not mapped'

Traceback:
 1: ccc_vc_cpp(Xr = unname(Xr), yr = yr, subject = subject, method = method_int,     time = time_int, nm = Laux$nm, nt = Laux$nt, max_iter = max_iter,     tol = tol, conf_level = conf_level, ci_mode = ci_mode_int,     Lr = if (is.null(Laux$L)) NULL else unname(Laux$L), auxDr = if (is.null(Laux$Dm)) NULL else unname(Laux$Dm),     Zr = if (is.null(Z)) NULL else unname(Z), use_ar1 = use_ar1,     ar1_rho = as.numeric(ar1_rho), include_subj_method = include_subj_method,     include_subj_time = include_subj_time, sb_zero_tol = as.numeric(sb_zero_tol),     eval_single_visit = eval_single_visit, time_weights = if (is.null(time_weights)) NULL else as.numeric(time_weights))
 2: run_cpp(Xr, yr, subject, method_int, time_int, Laux, Z, use_ar1 = identical(ar,     "ar1"), ar1_rho = if (identical(ar, "ar1")) rho_full else 0,     max_iter = max_iter, tol = tol, conf_level = conf_level,     ci_mode_int = ci_mode_int, include_subj_method = inc_subj_method,     include_subj_time = inc_subj_time, sb_zero_tol = sb_zero_tol,     eval_single_visit = eval_single_visit, time_weights = time_weights)
 3: reml_lrt_select(Xp, y_sub, subj_int, method_int, time_int, Laux,     Zp, ar = ar, ar_rho = ar_rho, max_iter = max_iter, tol = tol,     conf_level = conf_level, ci_mode_int = ci_mode_int, alpha = vc_alpha,     test_order = vc_test_order, sb_zero_tol = sb_zero_tol, eval_single_visit = eval_single_visit,     time_weights = time_weights_kappa)
 4: ccc_lmm_reml_pairwise(df = df, fml = fml, response = response,     rind = rind, method = method, time = time, slope = slope,     slope_var = slope_var, slope_Z = slope_Z, drop_zero_cols = drop_zero_cols,     Dmat = Dmat, ar = ar, ar_rho = ar_rho, max_iter = max_iter,     tol = tol, conf_level = conf_level, verbose = verbose, digits = digits,     use_message = use_message, extra_label = extra_label, ci = ci,     ci_mode_int = ci_mode_int, all_time_lvls = all_time_lvls,     Dmat_type = Dmat_type, Dmat_weights = Dmat_weights, Dmat_rescale = Dmat_rescale,     vc_select = vc_select, vc_alpha = vc_alpha, vc_test_order = vc_test_order,     include_subj_method = include_subj_method, include_subj_time = include_subj_time,     sb_zero_tol = sb_zero_tol)
 5: ccc_lmm_reml(dat, response = "y", rind = "id", method = "method")
An irrecoverable exception occurred. R is aborting now ...
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’ [5s/12s]
 [6s/13s] OK
* checking PDF version of manual ... [11s/24s] OK
* checking HTML version of manual ... [7s/16s] 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/gannet/ripley/R/packages/tests-MKL/matrixCorr.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 16:09.09, 470.91 + 35.34