Running 'testthat.R' [163s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
  > library(testthat);
  > library(ApplyPolygenicScore);
  > 
  > test_check('ApplyPolygenicScore');
  Input data passed validation
  Input data passed validation
  Saving _problems/test-pgs-statistics-371.R
  Skipping test for >12 PGS columns as 'scales' package is available and will be used.
  Saving _problems/test-pgs-statistics-559.R
  Saving _problems/test-plotting-136.R
  Saving _problems/test-plotting-431.R
  Saving _problems/test-plotting-741.R
  [1] "springgreen3"
  [1] "darkturquoise"
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  [1] "springgreen3"
  [1] "darkturquoise"
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  Saving _problems/test-plotting-995.R
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  [ FAIL 6 | WARN 87 | SKIP 0 | PASS 625 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-pgs-statistics.R:363:9'): analyze.pgs.binary.predictiveness validates binary phenotype columns ──
  Error in `basename(x)`: a character vector argument expected
  Backtrace:
       ▆
    1. ├─testthat::expect_warning(...) at test-pgs-statistics.R:363:9
    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. └─ApplyPolygenicScore::analyze.pgs.binary.predictiveness(...)
    8.   └─BoutrosLab.plotting.general::create.multipanelplot(...)
    9.     └─BoutrosLab.plotting.general:::get.legend.height(...)
   10.       └─tools::file_ext(filename)
   11.         ├─base::ifelse(...)
   12.         ├─base::grepl("^(.*[^.]+.*)[.]([[:alnum:]]+)$", basename(x))
   13.         │ └─base::is.factor(x)
   14.         └─base::basename(x)
  ── Error ('test-pgs-statistics.R:552:9'): analyze.pgs.binary.predictiveness correctly formats outputs ──
  Error in `basename(x)`: a character vector argument expected
  Backtrace:
      ▆
   1. └─ApplyPolygenicScore::analyze.pgs.binary.predictiveness(...) at test-pgs-statistics.R:552:9
   2.   └─BoutrosLab.plotting.general::create.multipanelplot(...)
   3.     └─BoutrosLab.plotting.general:::get.legend.height(...)
   4.       └─tools::file_ext(filename)
   5.         ├─base::ifelse(...)
   6.         ├─base::grepl("^(.*[^.]+.*)[.]([[:alnum:]]+)$", basename(x))
   7.         │ └─base::is.factor(x)
   8.         └─base::basename(x)
  ── Error ('test-plotting.R:132:9'): create.pgs.density.plot runs with no error with basic inputs ──
  Error in `basename(x)`: a character vector argument expected
  Backtrace:
      ▆
   1. └─ApplyPolygenicScore::create.pgs.density.plot(...) at test-plotting.R:132:9
   2.   └─BoutrosLab.plotting.general::create.multipanelplot(...)
   3.     └─BoutrosLab.plotting.general:::get.legend.height(...)
   4.       └─tools::file_ext(filename)
   5.         ├─base::ifelse(...)
   6.         ├─base::grepl("^(.*[^.]+.*)[.]([[:alnum:]]+)$", basename(x))
   7.         │ └─base::is.factor(x)
   8.         └─base::basename(x)
  ── Error ('test-plotting.R:426:9'): create.pgs.with.continuous.phenotype.plot runs with no error with basic inputs ──
  Error in `basename(x)`: a character vector argument expected
  Backtrace:
      ▆
   1. └─ApplyPolygenicScore::create.pgs.with.continuous.phenotype.plot(...) at test-plotting.R:426:9
   2.   └─BoutrosLab.plotting.general::create.multipanelplot(...)
   3.     └─BoutrosLab.plotting.general:::get.legend.height(...)
   4.       └─tools::file_ext(filename)
   5.         ├─base::ifelse(...)
   6.         ├─base::grepl("^(.*[^.]+.*)[.]([[:alnum:]]+)$", basename(x))
   7.         │ └─base::is.factor(x)
   8.         └─base::basename(x)
  ── Error ('test-plotting.R:737:9'): create.pgs.rank.plot runs with no error with basic inputs ──
  Error in `basename(x)`: a character vector argument expected
  Backtrace:
      ▆
   1. └─ApplyPolygenicScore::create.pgs.rank.plot(...) at test-plotting.R:737:9
   2.   └─BoutrosLab.plotting.general::create.multipanelplot(...)
   3.     └─BoutrosLab.plotting.general:::get.legend.height(...)
   4.       └─tools::file_ext(filename)
   5.         ├─base::ifelse(...)
   6.         ├─base::grepl("^(.*[^.]+.*)[.]([[:alnum:]]+)$", basename(x))
   7.         │ └─base::is.factor(x)
   8.         └─base::basename(x)
  ── Error ('test-plotting.R:991:9'): create.pgs.boxplot runs with no error with basic inputs ──
  Error in `basename(x)`: a character vector argument expected
  Backtrace:
      ▆
   1. └─ApplyPolygenicScore::create.pgs.boxplot(...) at test-plotting.R:991:9
   2.   └─BoutrosLab.plotting.general::create.multipanelplot(...)
   3.     └─BoutrosLab.plotting.general:::get.legend.height(...)
   4.       └─tools::file_ext(filename)
   5.         ├─base::ifelse(...)
   6.         ├─base::grepl("^(.*[^.]+.*)[.]([[:alnum:]]+)$", basename(x))
   7.         │ └─base::is.factor(x)
   8.         └─base::basename(x)
  
  [ FAIL 6 | WARN 87 | SKIP 0 | PASS 625 ]
  Error:
  ! Test failures.
  Execution halted