* using log directory 'd:/RCompile/CRANincoming/R-devel/poLCAParallel.Rcheck'
* using R Under development (unstable) (2026-01-13 r89301 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.3.0
    GNU Fortran (GCC) 14.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* checking for file 'poLCAParallel/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'poLCAParallel' version '1.2.6'
* package encoding: UTF-8
* checking CRAN incoming feasibility ... NOTE
Maintainer: 'Sherman Lo <s.lo@qmul.ac.uk>'

New submission

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Sherman",
                      family = "Lo",
                      role = c("aut", "cre"),
                      email = "s.lo@qmul.ac.uk"),
               person(given = "Drew",
                      family = "Linzer",
                      role = "aut",
                      email = "drew@votamatic.org"),
               person(given = "Jeffrey",
                      family = "Lewis.",
                      role = "aut",
                      email = "jblewis@ucla.edu"))
as necessary.

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Found the following (possibly) invalid URLs:
  URL: http://arma.sourceforge.net/ (moved to https://arma.sourceforge.net/)
    From: man/poLCA.Rd
          README.md
    Status: 301
    Message: Moved Permanently
  URL: http://www.jstatsoft.org/v42/i10 (moved to https://www.jstatsoft.org/v42/i10)
    From: README.md
    Status: 301
    Message: Moved Permanently
  URL: http://www.jstatsoft.org/v42/i10/ (moved to https://www.jstatsoft.org/v42/i10/)
    From: inst/CITATION
    Status: 301
    Message: Moved Permanently
  URL: https://blog.hpc.qmul.ac.uk/speeding_up_r_packages.html
    From: man/poLCA.Rd
          inst/CITATION
          README.md
    Status: 404
    Message: Not Found
  URL: https://cloud.r-project.org/web/packages/usethis/index.html
    From: README.md
    Status: 200
    Message: OK
    CRAN URL not in canonical form
  URL: https://cran.r-project.org/web/packages/MASS/index.html
    From: README.md
    Status: 200
    Message: OK
    CRAN URL not in canonical form
  URL: https://cran.r-project.org/web/packages/Rcpp (moved to https://cran.r-project.org/web/packages/Rcpp/)
    From: man/poLCA.Rd
          README.md
    Status: 301
    Message: Moved Permanently
    CRAN URL not in canonical form
  URL: https://cran.r-project.org/web/packages/RcppArmadillo (moved to https://cran.r-project.org/web/packages/RcppArmadillo/)
    From: man/poLCA.Rd
          README.md
    Status: 301
    Message: Moved Permanently
    CRAN URL not in canonical form
  URL: https://cran.r-project.org/web/packages/poLCA/index.html
    From: README.md
    Status: 200
    Message: OK
    CRAN URL not in canonical form
  URL: https://cran.r-project.org/web/packages/remotes/index.html
    From: README.md
    Status: 200
    Message: OK
    CRAN URL not in canonical form
  URL: https://cran.r-project.org/web/packages/roxygen2/index.html
    From: README.md
    Status: 200
    Message: OK
    CRAN URL not in canonical form
  URL: https://cran.r-project.org/web/packages/scatterplot3d/
    From: README.md
    Status: 200
    Message: OK
    CRAN URL not in canonical form
  URL: https://cran.r-project.org/web/packages/testthat/index.html
    From: README.md
    Status: 200
    Message: OK
    CRAN URL not in canonical form
  URL: https://en.cppreference.com/w/cpp/container/map (moved to https://en.cppreference.com/w/cpp/container/map.html)
    From: man/poLCA.Rd
    Status: 301
    Message: Moved Permanently
  URL: https://github.com/shermanlo77/poLCAParallel (moved to https://github.com/QMUL/poLCAParallel)
    From: DESCRIPTION
    Status: 301
    Message: Moved Permanently
  URL: https://www.cplusplus.com/reference/mutex/ (moved to https://cplusplus.com/reference/mutex/)
    From: man/poLCA.Rd
    Status: 301
    Message: Moved Permanently
  URL: https://www.cplusplus.com/reference/thread/ (moved to https://cplusplus.com/reference/thread/)
    From: man/poLCA.Rd
    Status: 301
    Message: Moved Permanently
The canonical URL of the CRAN page for a package is 
  https://CRAN.R-project.org/package=pkgname
Canonical CRAN.R-project.org URLs use https.
For content that is 'Moved Permanently', please change http to https,
add trailing slashes, or replace the old by the new URL.

The Title field should be in title case. Current version is:
  'Polytomous variable Latent Class Analysis Parallel'
In title case that is:
  'Polytomous Variable Latent Class Analysis Parallel'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking serialization versions ... OK
* checking whether package 'poLCAParallel' can be installed ... OK
* used C compiler: 'gcc.exe (GCC) 14.3.0'
* used C++ compiler: 'g++.exe (GCC) 14.3.0'
* checking C++ specification ... INFO
  specified C++20
* checking installed package size ... OK
* checking package directory ... OK
* checking for future file timestamps ... OK
* checking DESCRIPTION meta-information ... NOTE
Versioned 'LinkingTo' value for 'RcppArmadillo' is only usable in R >= 3.0.2
* checking top-level files ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
Non-standard files/directories found at top level:
  'CMakeLists.txt' 'Doxyfile' 'include' 'poLCAParallel-dev.def'
  'poLCAParallel.def'
* 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 ... OK
* checking Rd files ... NOTE
checkRd: (-1) carcinoma.Rd:8: Escaped LaTeX specials: \&
checkRd: (-1) poLCA.Rd:223: Escaped LaTeX specials: \&
checkRd: (-1) poLCA.Rd:232: Escaped LaTeX specials: \&
* 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 data for ASCII and uncompressed saves ... 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 ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [18s] ERROR
  Running 'testthat.R' [18s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat)
  > 
  > test_check("poLCAParallel")
  Loading required package: poLCAParallel
  Saving _problems/test-predcell-199.R
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 3280 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-predcell.R:186:3'): regression-missing-data ──────────────────
  Expected `test_regress_predcell(...)` not to throw any errors.
  Actually got a <expectation_failure> with message:
    Expected `predcell_polcaparallel` to equal `predcell_polca`.
    Differences:
    actual vs expected
                            [,1]
      actual[2, ]    0.020945349
      actual[3, ]    0.016575043
      actual[4, ]    0.004272637
    - actual[5, ]    0.008564563
    + expected[5, ]          Inf
    - actual[6, ]    0.028096189
    + expected[6, ]          Inf
      actual[7, ]    0.005596553
      actual[8, ]    0.020945349
    - actual[9, ]    0.028096189
    + expected[9, ]          Inf
    - actual[10, ]   0.022356240
    + expected[10, ]         Inf
    - actual[11, ]   0.028096189
    + expected[11, ]         Inf
    and 43 more ...
    
  
  [ FAIL 1 | WARN 0 | SKIP 0 | PASS 3280 ]
  Error:
  ! Test failures.
  Execution halted
* checking PDF version of manual ... [12s] OK
* checking HTML version of manual ... OK
* DONE
Status: 1 ERROR, 4 NOTEs