* using log directory ‘/Users/ripley/R/packages/tests-devel/biocohort.Rcheck’
* using R Under development (unstable) (2026-11-03 r90835)
* using platform: aarch64-apple-darwin27.2.0
* R was compiled by
    Apple clang version 21.0.0 (clang-2100.4.1.1)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Golden Gate 27.2
* using session charset: UTF-8
* current time: 2026-11-09 08:21:04 UTC
* using option ‘--no-stop-on-test-error’
* checking for file ‘biocohort/DESCRIPTION’ ... OK
* this is package ‘biocohort’ version ‘0.1.1’
* 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 ‘biocohort’ can be installed ... OK
* 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 ... 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 whether startup messages can be suppressed ... 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 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’ [15s/15s]
 [15s/15s] ERROR
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(biocohort)
  biocohort version 0.1.1
  Cohort Objects for Subjects and Samples in Omics Studies
  Documentation: https://www.samuelbharti.com/biocohort/
  > 
  > test_check("biocohort")
  1 path not found. See the exists column.
  1 path not found. See the exists column.
  1 path not found. See the exists column.
  1 path not found. See the exists column.
  1 path not found. See the exists column.
  Cleared cache; re-run load_analyses() or translate() as needed.
  
  -- TranslationResult (rat -> human, backend: custom) 
  * input: 4
  v mapped: 2 (50%)
  x unmapped: 2
  ! multi: 1
  
  -- TranslationResult (rat -> human, backend: custom) 
  * input: 4
  v mapped: 2 (50%)
  x unmapped: 2
  ! multi: 1
  Saving _problems/test-load-324.R
  v Translated 1 analysis: "expr".
  v Translated 2 analyses: "somatic" and "expr".
  v Translated 2 analyses: "somatic" and "expr".
  v Translated 2 analyses: "somatic" and "expr".
  v Translated 1 analysis: "expr".
  v Translated 1 analysis: "expr".
  v Translated 1 analysis: "expr".
  v Translated 1 analysis: "expr".
  v Translated 1 analysis: "somatic".
  v Translated 2 analyses: "somatic" and "expr".
  v Translated 2 analyses: "somatic" and "expr".
  v Translated 2 analyses: "somatic" and "expr".
  
  -- Cohort 
  * 2 subjects (2 rat)
  * 4 samples (4 wes)
  
  -- Cohort 
  * 2 subjects (2 rat)
  * 4 samples (4 wes)
  Cleared cache; re-run load_analyses() or translate() as needed.
  [ FAIL 1 | WARN 1 | SKIP 1 | PASS 784 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • not a source tree (1): 'test-package.R:29:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-load.R:321:3'): load_analysis uses the default parquet reader from the format ──
  Error in `parquet___WriterProperties___Builder__create()`: Cannot call parquet___WriterProperties___Builder__create(). See https://arrow.apache.org/docs/r/articles/install.html for help installing Arrow C++ libraries. 
  Backtrace:
      ▆
   1. └─arrow::write_parquet(...) at test-load.R:321:3
   2.   ├─ParquetFileWriter$create(...)
   3.   │ └─arrow:::parquet___arrow___ParquetFileWriter__Open(...)
   4.   └─ParquetWriterProperties$create(...)
   5.     └─arrow:::parquet___WriterProperties___Builder__create()
  
  [ FAIL 1 | WARN 1 | SKIP 1 | PASS 784 ]
  Error:
  ! Test failures.
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* checking HTML version of manual ... OK
* checking for detritus in the temp directory ... OK
* DONE

Status: 1 ERROR
See
  ‘/Users/ripley/R/packages/tests-devel/biocohort.Rcheck/00check.log’
for details.

       59.00 real        46.11 user        10.01 sys