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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodb_1.10.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/biodb.Rcheck’
* using R version 4.3.2 Patched (2023-11-01 r85457)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 14.0.3 (clang-1403.0.22.14.1)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodb/DESCRIPTION’ ... OK
* this is package ‘biodb’ version ‘1.10.0’
* 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 ... NOTE
Found the following hidden files and directories:
  .gitlab-ci.yml
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodb’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.sdk’
* checking installed package size ... NOTE
  installed size is  5.0Mb
  sub-directories of 1Mb or more:
    R   3.0Mb
* 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 R 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 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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
  Error in `dyn.load(file, DLLpath = DLLpath, ...)`: unable to load shared object '/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/git2r/libs/git2r.so':
    dlopen(/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/git2r/libs/git2r.so, 0x0006): Library not loaded: '/usr/local/opt/libgit2/lib/libgit2.1.4.dylib'
    Referenced from: '/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library/git2r/libs/git2r.so'
    Reason: tried: '/usr/local/opt/libgit2/lib/libgit2.1.4.dylib' (no such file), '/Library/Frameworks/R.framework/Resources/lib/libgit2.1.4.dylib' (no such file), '/usr/local/jdk-18.jdk/Contents/Home/lib/server/libgit2.1.4.dylib' (no such file), '/usr/local/Cellar/libgit2/1.7.1/lib/libgit2.1.4.dylib' (no such file), '/Library/Frameworks/R.framework/Resources/lib/libgit2.1.4.dylib' (no such file), '/usr/local/jdk-18.jdk/Contents/Home/lib/server/libgit2.1.4.dylib' (no such file)
  Backtrace:
      ▆
   1. ├─base::do.call(fct, params)
   2. ├─biodb (local) `<fn>`()
   3. └─base::loadNamespace(x) at test_099_extension.R:227:5
   4.   └─base::library.dynam(lib, package, package.lib)
   5.     └─base::dyn.load(file, DLLpath = DLLpath, ...)
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 1512 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR, 3 NOTEs
See
  ‘/Users/biocbuild/bbs-3.18-bioc/meat/biodb.Rcheck/00check.log’
for details.