Running ‘spelling.R’ [0s/0s]
  Running ‘testthat.R’ [85s/54s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(MiscMetabar)
  Loading required package: phyloseq
  Loading required package: ggplot2
  Loading required package: dada2
  Loading required package: Rcpp
  Loading required package: dplyr
  
  Attaching package: 'dplyr'
  
  The following object is masked from 'package:testthat':
  
      matches
  
  The following objects are masked from 'package:stats':
  
      filter, lag
  
  The following objects are masked from 'package:base':
  
      intersect, setdiff, setequal, union
  
  Loading required package: purrr
  
  Attaching package: 'purrr'
  
  The following object is masked from 'package:testthat':
  
      is_null
  
  > 
  > test_check("MiscMetabar")
  Starting 2 test processes
  [ FAIL 1 | WARN 2 | SKIP 74 | PASS 82 ]
  
  ══ Skipped tests (74) ══════════════════════════════════════════════════════════
  • On CRAN (74): 'test_adonis.R:1:1', 'test_controls.R:7:3',
    'test_controls.R:14:3', 'test_controls.R:46:3', 'test_deprecated.R:1:1',
    'test_clean_pq.R:8:3', 'test_clean_pq.R:17:3',
    'test_figures_alpha_div.R:17:3', 'test_figures_alpha_div.R:63:3',
    'test_figures_alpha_div.R:73:3', 'test_figures_alpha_div.R:95:3',
    'test_figures_alpha_div.R:122:3', 'test_figures_alpha_div.R:151:3',
    'test_figures_alpha_div.R:157:3', 'test_deseq2_edgeR.R:16:5',
    'test_deseq2_edgeR.R:25:3', 'test_deseq2_edgeR.R:48:5',
    'test_deseq2_edgeR.R:59:3', 'test_figures_biplot.R:14:3',
    'test_figures_biplot.R:52:3', 'test_figures_beta_div.R:22:3',
    'test_figures_beta_div.R:73:5', 'test_figures_beta_div.R:92:3',
    'test_figures_beta_div.R:102:5', 'test_figures_beta_div.R:159:5',
    'test_figures_beta_div.R:209:3', 'test_figures_beta_div.R:241:5',
    'test_figures_beta_div.R:259:5', 'test_figures_beta_div.R:289:5',
    'test_figures_beta_div.R:314:3', 'test_figures_beta_div.R:346:3',
    'test_figures_beta_div.R:355:3', 'test_figures_beta_div.R:387:3',
    'test_figures_beta_div.R:402:3', 'test_figures_beta_div.R:414:3',
    'test_figures_misc.R:11:3', 'test_figures_misc.R:19:3',
    'test_figures_misc.R:26:3', 'test_figures_misc.R:35:3',
    'test_figures_summary_plot.R:9:3', 'test_figures_summary_plot.R:19:3',
    'test_figures_summary_plot.R:28:3', 'test_krona.R:7:3',
    'test_figures_taxo.R:64:3', 'test_figures_taxo.R:165:3',
    'test_figures_taxo.R:209:5', 'test_figures_taxo.R:252:5',
    'test_figures_taxo.R:319:5', 'test_figures_taxo.R:354:3',
    'test_figures_taxo.R:379:3', 'test_figures_taxo.R:414:3',
    'test_phyloseq_class.R:10:3', 'test_phyloseq_class.R:51:3',
    'test_phyloseq_class.R:95:3', 'test_rw.R:8:3', 'test_rw.R:24:3',
    'test_rw.R:39:3', 'test_subset.R:7:3', 'test_subset.R:18:3',
    'test_table_functions.R:6:3', 'test_table_functions.R:19:3',
    'test_table_functions.R:34:5', 'test_table_functions.R:47:5',
    'test_misc.R:11:3', 'test_misc.R:30:3', 'test_misc.R:97:3',
    'test_tuckey.R:5:3', 'test_tuckey.R:17:3', 'test_tuckey.R:26:3',
    'test_targets.R:5:3', 'test_targets.R:56:3', 'test_targets.R:84:3',
    'test_targets.R:101:3', 'test_targets.R:111:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test_figures_beta_div.R:72:5'): graph_test_pq works ───────────────
  `graph_test_pq(data_fungi_mini, fact = "Tree_name")` produced warnings.
  
  [ FAIL 1 | WARN 2 | SKIP 74 | PASS 82 ]
  Error: Test failures
  Execution halted