* using log directory ‘/data/localhost/ripley/R/packages/tests-MKL/subselect.Rcheck’
* using R Under development (unstable) (2026-07-18 r90269)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)
    GNU Fortran (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)
* running under: Fedora Linux 44 (Server Edition)
* using session charset: UTF-8
* current time: 2026-07-19 05:30:59 UTC
* using option ‘--no-stop-on-test-error’
* checking for file ‘subselect/DESCRIPTION’ ... OK
* this is package ‘subselect’ version ‘0.16.1’
* 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 ‘subselect’ can be installed ... [25s/25s] OK
* used C compiler: ‘gcc (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)’
* used Fortran compiler: ‘GNU Fortran (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)’
* used C++ compiler: ‘g++ (GCC) 16.1.1 20260515 (Red Hat 16.1.1-2)’
* 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 ... 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 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 usage of KIND in Fortran files ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... ERROR
Error(s) in re-building vignettes:
--- re-building ‘subselect.Rnw’ using Sweave
Warning: glm.fit: fitted probabilities numerically 0 or 1 occurred
Warning in validmat(mat, p, tolval, tolsym) : 
 The covariance/total matrix supplied was slightly asymmetric: 
 symmetric entries differed by up to 1.61648472385423e-12.
 (less than the 'tolsym' parameter).
 It has been replaced by its symmetric part.

Warning in validnovcrit(mat, criterion, H, r, p, tolval, tolsym) : 
 The effect description matrix (H) supplied was slightly asymmetric: 
 symmetric entries differed by up to 1.81898940354586e-12.
 (less than the 'tolsym' parameter).
 The H matrix has been replaced by its symmetric part.


Error: processing vignette 'subselect.Rnw' failed with diagnostics:
 chunk 35 
Error in validnovcrit(mat, criterion, H, r, p, tolval, tolsym) : 
 The effect description matrix (H) supplied is not symmetric.
 Symmetric entries differ by up to 4.65661287307739e-10.

--- failed re-building ‘subselect.Rnw’

SUMMARY: processing the following file failed:
  ‘subselect.Rnw’

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... OK
* checking HTML version of manual ... 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/subselect.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 1:11.00, 53.89 + 6.90