Running ‘testthat.R’ [4s/9s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(taxonbridge)
  > 
  > test_check("taxonbridge")
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  Term conversion carried out on kingdom taxonomic rank
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  Candidate match(es) made on: Degeeria decora
  Candidate match(es) made on: Degeeria decora (Smith, 2022)
  Candidate match(es) made by term removal on: Degeeria indet.
  Candidate match(es) made by term removal on: Degeeris indet.
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  1 duplicates removed
  0 duplicates removed
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  Joining with `by = join_by(canonicalName)`
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  No filtering argument was passed to get_status()
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  
  #####  ##   #    #   ###   #    #  ####   ####   #####  ####    #####  #####
    #   #  #   #  #   #   #  ##   #  #   #  #   #    #    #   #   #      #    
    #   ####    #     #   #  # #  #  #####  #####    #    #    #  #  ##  #####
    #   #  #   #  #   #   #  #  # #  #   #  #  #     #    #   #   #   #  #    
    #   #  #  #    #   ###   #    #  ####   #   #  #####  ####    #####  #####
  
  A sample containing 2000 rows by 29 columns has been loaded.
  Visit the following links to learn more about Taxonbridge:
  https://github.com/MoultDB/taxonbridge#available-methods-and-how-to-use-them
  https://github.com/MoultDB/taxonbridge/blob/master/taxonbridge_workflow.pdf
  https://rdocumentation.org/packages/taxonbridge/
  https://CRAN.R-project.org/package=taxonbridge
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 37 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-helper_methods.R:19:3'): annotation() is functional ────────────
  Error in `vectbl_assign(x[[j]], i, recycled_value[[j]])`: DLL requires the use of native symbols
  Backtrace:
      ▆
   1. └─taxonbridge::annotate(x, "Degeeria decora", "test") at test-helper_methods.R:19:2
   2.   ├─base::`[<-`(`*tmp*`, match_index, ncol(x), value = `<chr>`)
   3.   └─tibble:::`[<-.tbl_df`(`*tmp*`, match_index, ncol(x), value = `<chr>`)
   4.     └─tibble:::tbl_subassign(x, i, j, value, i_arg, j_arg, substitute(value))
   5.       └─tibble:::tbl_subassign_row(xj, i, value, i_arg, value_arg, call)
   6.         ├─base::withCallingHandlers(...)
   7.         └─tibble:::vectbl_assign(x[[j]], i, recycled_value[[j]])
  ── Error ('test-load_methods.R:16:13'): load_taxonomies() is functional ────────
  Error in `vectbl_assign(x[[j]], i, recycled_value[[j]])`: DLL requires the use of native symbols
  Backtrace:
       ▆
    1. ├─testthat::expect_equal(...) at test-load_methods.R:16:12
    2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
    3. │   └─rlang::eval_bare(expr, quo_get_env(quo))
    4. └─taxonbridge::load_taxonomies(GBIF_stub, NCBI_stub)
    5.   ├─dplyr::full_join(GBIF_data, NCBI_data)
    6.   └─dplyr:::full_join.data.frame(GBIF_data, NCBI_data)
    7.     └─dplyr:::join_mutate(...)
    8.       ├─base::`[<-`(`*tmp*`, new_rows, merge, value = `<tibble[,1]>`)
    9.       └─tibble:::`[<-.tbl_df`(`*tmp*`, new_rows, merge, value = `<tibble[,1]>`)
   10.         └─tibble:::tbl_subassign(x, i, j, value, i_arg, j_arg, substitute(value))
   11.           └─tibble:::tbl_subassign_row(xj, i, value, i_arg, value_arg, call)
   12.             ├─base::withCallingHandlers(...)
   13.             └─tibble:::vectbl_assign(x[[j]], i, recycled_value[[j]])
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 37 ]
  Error: Test failures
  Execution halted