* using log directory 'd:/Rcompile/CRANpkg/local/4.5/amregtest.Rcheck'
* using R version 4.5.3 (2026-03-11 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 'amregtest/DESCRIPTION' ... OK
* this is package 'amregtest' version '1.2.0'
* 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 'amregtest' can be installed ... OK
* checking installed package size ... OK
* 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 ... [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 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 ... [3s] OK
* checking Rd files ... [1s] 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 ... [1s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [1s] OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ... [11m] ERROR
  Running 'testthat.R' [11m]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  > library(amregtest)
  Loading required package: allelematch
  Loading required package: dynamicTreeCut
  > 
  > test_check("amregtest")
  Saving _problems/test-allelematch_3-amPairwise_negative-45.R
  Cleaning up 1 leaked TEMP file(s):
    D:\temp\2026_07_27_01_50_00_23081\RtmpgT3NIb/pdf8b106602213e
  Cleaning up 1 leaked TEMP file(s):
    D:\temp\2026_07_27_01_50_00_23081\RtmpgT3NIb/pdf8b106fd475ef
  Cleaning up 1 leaked TEMP file(s):
    D:\temp\2026_07_27_01_50_00_23081\RtmpgT3NIb/pdf8b107a5d3a36
  Cleaning up 1 leaked TEMP file(s):
    D:\temp\2026_07_27_01_50_00_23081\RtmpgT3NIb/pdf8b103b215d82
  Cleaning up 1 leaked TEMP file(s):
    D:\temp\2026_07_27_01_50_00_23081\RtmpgT3NIb/pdf8b1040e21bcf
  [ FAIL 2 | WARN 0 | SKIP 24 | PASS 135 ]
  
  ══ Skipped tests (24) ══════════════════════════════════════════════════════════
  • On CRAN (24): 'test-allelematch_1-amDataset.R:47:1',
    'test-allelematch_1-amDataset.R:147:1', 'test-allelematch_2-amMatrix.R:2:1',
    'test-allelematch_2-amMatrix.R:90:1',
    'test-allelematch_2-amMatrix_negative.R:2:1',
    'test-allelematch_3-amPairwise.R:7:1',
    'test-allelematch_3-amPairwise.R:74:1',
    'test-allelematch_3-amPairwise_print.R:2:1',
    'test-allelematch_4-amCluster-Ex1.R:2:1',
    'test-allelematch_4-amCluster-Ex2.R:2:1',
    'test-allelematch_4-amCluster-Ex3.R:2:1',
    'test-allelematch_4-amCluster-Ex4.R:2:1',
    'test-allelematch_4-amCluster-Ex5.R:2:1',
    'test-allelematch_4-amCluster-amMini.R:2:1',
    'test-allelematch_4-amCluster_print.R:2:1',
    'test-allelematch_5-amAlleleFreq.R:2:1', 'test-allelematch_6-amUnique.R:2:1',
    'test-allelematch_6-amUnique_print.R:2:1',
    'test-allelematch_7-amUniqueProfile.R:2:1', 'test-amExample1.R:10:1',
    'test-amExample2.R:10:1', 'test-amExample3.R:11:1', 'test-amExample4.R:15:1',
    'test-ggData.R:11:1'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-allelematch_3-amPairwise_negative.R:45:5'): Validation of arguments to amPairwise() is working ──
  Error: allelematch: please specify alleleMismatch OR matchThreshold
  Backtrace:
      ▆
   1. ├─testthat::expect_error(amPairwise(amdataOdd2), "allelematch:\\s+please specify alleleMismatch OR matchThreshold.") at test-allelematch_3-amPairwise_negative.R:45:5
   2. │ └─testthat:::expect_condition_matching_(...)
   3. │   └─testthat:::quasi_capture(...)
   4. │     ├─testthat (local) .capture(...)
   5. │     │ └─base::withCallingHandlers(...)
   6. │     └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
   7. └─allelematch::amPairwise(amdataOdd2)
  ── Error ('test-allelematch_6-amUnique_negative.R:40:5'): Validation of arguments to amUnique() is working ──
  Error: allelematch: please specify alleleMismatch OR matchThreshold OR cutHeight
  Backtrace:
      ▆
   1. ├─testthat::expect_error(...) at test-allelematch_6-amUnique_negative.R:40:5
   2. │ └─testthat:::expect_condition_matching_(...)
   3. │   └─testthat:::quasi_capture(...)
   4. │     ├─testthat (local) .capture(...)
   5. │     │ └─base::withCallingHandlers(...)
   6. │     └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
   7. └─allelematch::amUnique(amdata, multilocusMap = c(1, 1, 2, 2))
  
  [ FAIL 2 | WARN 0 | SKIP 24 | PASS 135 ]
  Error:
  ! Test failures.
  Execution halted
* checking PDF version of manual ... [16s] OK
* checking HTML version of manual ... [2s] OK
* DONE
Status: 1 ERROR