Running ‘testthat.R’ [90s/288s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(pmartR)
  > 
  > test_check("pmartR")
  [ FAIL 1 | WARN 1 | SKIP 11 | PASS 2371 ]
  
  ══ Skipped tests (11) ══════════════════════════════════════════════════════════
  • On CRAN (11): 'test_as_trelliData.R:4:3', 'test_as_trelliData.R:361:3',
    'test_as_trelliData_edata.R:4:3', 'test_as_trelliData_summary.R:4:3',
    'test_diffexp_seq.R:4:3', 'test_imd_anova.R:5:3',
    'test_imd_anova_paired.R:5:3', 'test_plots.R:14:3', 'test_trelliPlots.R:4:3',
    'test_trelliPlots_seqData.R:4:3', 'test_trelli_pvalue_filter.R:4:3'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_dispersion_est.R:42:3'): dispersion_est returns the correct data frame and attributes ──
  Error in `data.frame(CD = D_edgeR$common.dispersion, TD = D_edgeR$trended.dispersion, 
      TagD = D_edgeR$tagwise.dispersion, fitD1 = fit_edgeR$var.prior, 
      fitD2 = fit_edgeR$var.post, AveLogCPM = fit_edgeR$AveLogCPM)`: arguments imply differing number of rows: 1, 1200, 0
  Backtrace:
      ▆
   1. └─pmartR::dispersion_est(seqdata_grp, method = "edgeR") at test_dispersion_est.R:42:3
   2.   └─base::data.frame(...)
  
  [ FAIL 1 | WARN 1 | SKIP 11 | PASS 2371 ]
  Deleting unused snapshots:
  • plots/plot-corres.svg
  • plots/plot-cvfilt-log-scale.svg
  • plots/plot-cvfilt.svg
  • plots/plot-datares-bw-theme.svg
  • plots/plot-datares-palette.svg
  • plots/plot-datares.svg
  • plots/plot-dimres.svg
  • plots/plot-imdanovafilt.svg
  • plots/plot-isobaricnormres-bw-theme.svg
  • plots/plot-isobaricnormres-global-normalized.svg
  • plots/plot-isobaricnormres-palette.svg
  • plots/plot-isobaricnormres.svg
  • plots/plot-isobaricpepdata.svg
  • plots/plot-lipiddata.svg
  • plots/plot-metabdata.svg
  • plots/plot-moleculefilt-cumulative.svg
  • plots/plot-moleculefilt.svg
  • plots/plot-nares-bar-group-color.svg
  • plots/plot-nares-bar-group-order.svg
  • plots/plot-nares-scatter.svg
  • plots/plot-nmrdata.svg
  • plots/plot-nmrnormres-2.svg
  • plots/plot-nmrnormres-color-by.svg
  • plots/plot-nmrnormres.svg
  • plots/plot-normres.svg
  • plots/plot-pepdata.svg
  • plots/plot-prodata.svg
  • plots/plot-proteomicsfilt-redundancy.svg
  • plots/plot-proteomicsfilt.svg
  • plots/plot-rmdfilt.svg
  • plots/plot-rnafilt.svg
  • plots/plot-seqdata.svg
  • plots/plot-spansres-bw-theme.svg
  • plots/plot-spansres-color-high-color-low.svg
  • plots/plot-spansres.svg
  • plots/plot-statres-anova-volcano.svg
  • plots/plot-statres-anova.svg
  • plots/plot-statres-combined-volcano.svg
  • plots/plot-statres-combined.svg
  • plots/plot-statres-gtest.svg
  • plots/plot-totalcountfilt.svg
  Error: Test failures
  Execution halted