• using R Under development (unstable) (2026-05-09 r90031 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 * current time: 2026-05-10 15:59:03 UTC
• checking for file 'nexus/DESCRIPTION' ... OK
• this is package 'nexus' version '0.6.0'
• 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 hidden files and directories ... OK
• checking for portable file names ... OK
• checking whether package 'nexus' can be installed ... OK See the install log for details.
• checking installed package size ... OK
• 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 ... [1s] OK
• checking whether the package can be loaded with stated dependencies ... [1s] OK
• checking whether the package can be unloaded cleanly ... [1s] OK
• checking whether the namespace can be loaded with stated dependencies ... [1s] OK
• checking whether the namespace can be unloaded cleanly ... [1s] OK
• checking loading without being on the library search path ... [1s] OK
• checking whether startup messages can be suppressed ... [1s] 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 ... [8s] OK
• checking Rd files ... [2s] OK
• checking Rd metadata ... 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 ... [0s] OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking installed files from 'inst/doc' ... OK
• checking files in 'vignettes' ... OK
• checking examples ... [7s] ERROR Running examples in 'nexus-Ex.R' failed The error most likely occurred in: > ### Name: hist > ### Title: Histogram of Compositional Data > ### Aliases: hist hist,CompositionMatrix-method > > ### ** Examples > > ## Data from Aitchison 1986 > data("hongite") > > ## Coerce to compositional data > coda <- as_composition(hongite) > > ## Boxplot plot > hist(coda, select = "A") Warning in sprintf(tr_("<%s> instance initialization:\n%s"), class(object), :   restarting interrupted promise evaluation Error: <NumericMatrix> instance initialization: * evaluation nested too deeply: infinite recursion / options(expressions=)? Execution halted
• checking for unstated dependencies in 'tests' ... OK
• checking tests ... [5s] ERROR   Running 'tinytest.R' [5s] Running the tests in 'tests/tinytest.R' failed. Complete output:   > if (requireNamespace("tinytest", quietly = TRUE)) {   + ## Force tests to be executed if in dev release   + ## (which we define as having a sub-release)   + NOT_CRAN <- length(unclass(packageVersion("nexus"))[[1]]) == 4   +   + tinytest::test_package("nexus", at_home = NOT_CRAN)   + }   Loading required package: dimensio      test_chemistry.R.............. 0 tests   test_chemistry.R.............. 0 tests   test_chemistry.R.............. 0 tests   test_chemistry.R.............. 1 tests OK   test_chemistry.R.............. 2 tests OK   test_chemistry.R.............. 3 tests OK   test_chemistry.R.............. 4 tests OK   test_chemistry.R.............. 5 tests OK   test_chemistry.R.............. 5 tests OK   test_chemistry.R.............. 6 tests OK   test_chemistry.R.............. 7 tests OK 0.1s      test_coerce.R................. 0 tests   test_coerce.R................. 0 tests   test_coerce.R................. 0 tests   test_coerce.R................. 0 tests   test_coerce.R................. 1 tests OK 55ms      test_condense.R............... 0 tests   test_condense.R............... 0 tests   test_condense.R............... 0 tests   test_condense.R............... 0 tests   test_condense.R............... 1 tests OK   test_condense.R............... 2 tests OK   test_condense.R............... 2 tests OK   test_condense.R............... 2 tests OK   test_condense.R............... 3 tests OK   test_condense.R............... 3 tests OK   test_condense.R............... 4 tests OK   test_condense.R............... 5 tests OK   test_condense.R............... 6 tests OK   test_condense.R............... 6 tests OK   test_condense.R............... 6 tests OK   test_condense.R............... 6 tests OK   test_condense.R............... 6 tests OK   test_condense.R............... 6 tests OK   test_condense.R............... 7 tests OK 0.8s      test_describe.R............... 0 tests   test_describe.R............... 0 tests   test_describe.R............... 0 tests   test_describe.R............... 0 tests   test_describe.R............... 1 tests OK   test_describe.R............... 2 tests OK   test_describe.R............... 2 tests OK   test_describe.R............... 3 tests OK   test_describe.R............... 4 tests OK 0.5s      test_dist.R................... 0 tests   test_dist.R................... 0 tests   test_dist.R................... 0 tests   test_dist.R................... 1 tests OK      test_dist.R................... 2 tests OK 28ms      test_group.R.................. 0 tests   test_group.R.................. 0 tests   test_group.R.................. 0 tests   test_group.R.................. 1 tests OK   test_group.R.................. 1 tests OK   test_group.R.................. 2 tests OK   test_group.R.................. 3 tests OK   test_group.R.................. 4 tests OK   test_group.R.................. 5 tests OK   test_group.R.................. 6 tests OK   test_group.R.................. 7 tests OK   test_group.R.................. 8 tests OK   test_group.R.................. 9 tests OK   test_group.R.................. 10 tests OK   test_group.R.................. 11 tests OK   test_group.R.................. 12 tests OK   test_group.R.................. 13 tests OK   test_group.R.................. 14 tests OK   test_group.R.................. 15 tests OK   test_group.R.................. 16 tests OK   test_group.R.................. 17 tests OK 0.1s      test_mutators.R............... 0 tests   test_mutators.R............... 0 tests   test_mutators.R............... 0 tests   test_mutators.R............... 1 tests OK   test_mutators.R............... 1 tests OK   test_mutators.R............... 2 tests OK   test_mutators.R............... 3 tests OK   test_mutators.R............... 4 tests OK 9ms      test_outliers.R............... 0 tests   test_outliers.R............... 0 tests   test_outliers.R............... 0 tests   test_outliers.R............... 0 tests   test_outliers.R............... 1 tests OK   test_outliers.R............... 2 tests OK   test_outliers.R............... 2 tests OK 18ms      test_packages.R............... 0 tests 4ms      test_pca.R.................... 0 tests   test_pca.R.................... 0 tests   test_pca.R.................... 0 tests   test_pca.R.................... 1 tests OK 24ms      test_plot.R................... 0 tests   test_plot.R................... 0 tests 3ms      test_replace.R................ 0 tests   test_replace.R................ 0 tests   test_replace.R................ 0 tests   test_replace.R................ 1 tests OK   test_replace.R................ 2 tests OK   test_replace.R................ 3 tests OK   test_replace.R................ 4 tests OK   test_replace.R................ 5 tests OK   test_replace.R................ 6 tests OK   test_replace.R................ 7 tests OK   test_replace.R................ 7 tests OK   test_replace.R................ 8 tests OK   test_replace.R................ 8 tests OK   test_replace.R................ 8 tests OK   test_replace.R................ 9 tests OK   test_replace.R................ 10 tests OK   test_replace.R................ 11 tests OK   test_replace.R................ 12 tests OK   test_replace.R................ 13 tests OK   test_replace.R................ 14 tests OK   test_replace.R................ 15 tests OK   test_replace.R................ 15 tests OK   test_replace.R................ 16 tests OK   test_replace.R................ 16 tests OK   test_replace.R................ 17 tests OK 0.2s      test_simplex.R................ 0 tests   test_simplex.R................ 0 tests   test_simplex.R................ 0 tests   test_simplex.R................ 1 tests OK   test_simplex.R................ 2 tests OK   test_simplex.R................ 3 tests OK   test_simplex.R................ 4 tests OK   test_simplex.R................ 5 tests OK   test_simplex.R................ 6 tests OK   test_simplex.R................ 7 tests OK   test_simplex.R................ 7 tests OK   test_simplex.R................ 7 tests OK   test_simplex.R................ 7 tests OK   test_simplex.R................ 8 tests OK   test_simplex.R................ 9 tests OK   test_simplex.R................ 10 tests OK   test_simplex.R................ 11 tests OK   test_simplex.R................ 12 tests OK   test_simplex.R................ 13 tests OK   test_simplex.R................ 13 tests OK   test_simplex.R................ 13 tests OK   test_simplex.R................ 14 tests OK 0.1s      test_statistics.R............. 0 tests   test_statistics.R............. 0 tests   test_statistics.R............. 0 tests   test_statistics.R............. 1 tests OK   test_statistics.R............. 2 tests OK   test_statistics.R............. 3 tests OK   test_statistics.R............. 4 tests OK   test_statistics.R............. 5 tests OK   test_statistics.R............. 5 tests OK   test_statistics.R............. 5 tests OK   test_statistics.R............. 6 tests OK Error: <NumericMatrix> instance initialization:   * node stack overflow   In addition: Warning message:   In sprintf(tr_("<%s> instance initialization:\n%s"), class(object), :     restarting interrupted promise evaluation   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [52s] ERROR Error(s) in re-building vignettes: --- re-building 'groups.Rmd' using knitr --- finished re-building 'groups.Rmd' --- re-building 'nexus.Rmd' using knitr Quitting from nexus.Rmd:142-146 [histogram] Error: processing vignette 'nexus.Rmd' failed with diagnostics: evaluation nested too deeply: infinite recursion / options(expressions=)? --- failed re-building 'nexus.Rmd' SUMMARY: processing the following file failed:   'nexus.Rmd' Error: Vignette re-building failed. Execution halted
• checking PDF version of manual ... [32s] OK
• checking HTML version of manual ... [21s] OK
• DONE

Status: 3 ERRORs