Last updated on 2025-03-01 06:51:03 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2.5.0 | 75.24 | 562.79 | 638.03 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 2.5.0 | 50.16 | 388.13 | 438.29 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 2.5.0 | 999.48 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 2.5.0 | 1036.41 | ERROR | |||
| r-devel-macos-arm64 | 2.5.0 | 181.00 | OK | |||
| r-devel-macos-x86_64 | 2.5.0 | 335.00 | OK | |||
| r-devel-windows-x86_64 | 2.5.0 | 81.00 | 480.00 | 561.00 | ERROR | |
| r-patched-linux-x86_64 | 2.5.0 | 86.60 | 553.12 | 639.72 | OK | |
| r-release-linux-x86_64 | 2.5.0 | 66.81 | 550.56 | 617.37 | OK | |
| r-release-macos-arm64 | 2.5.0 | 239.00 | OK | |||
| r-release-macos-x86_64 | 2.5.0 | 480.00 | OK | |||
| r-release-windows-x86_64 | 2.5.0 | 74.00 | 487.00 | 561.00 | OK | |
| r-oldrel-macos-arm64 | 2.5.0 | 241.00 | OK | |||
| r-oldrel-macos-x86_64 | 2.5.0 | 513.00 | OK | |||
| r-oldrel-windows-x86_64 | 2.5.0 | 102.00 | 628.00 | 730.00 | OK |
Version: 2.5.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [66s/39s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # options("testthat.default_reporter" = testthat::RStudioReporter)
> library(dataquieR)
> testthat::test_check("dataquieR")
Starting 2 test processes
[ FAIL 2 | WARN 0 | SKIP 231 | PASS 20 ]
══ Skipped tests (231) ═════════════════════════════════════════════════════════
• On CRAN (231): 'test-dq_report_by_sm.R:7:3', 'test-dq_report2.R:2:3',
'test-dq_report_by_s.R:3:3', 'test-dq_report_by_arguments.R:7:3',
'test-dq_report_by_pipesymbol_list.R:3:3', 'test-int_encoding_errors.R:2:3',
'test-int_encoding_errors.R:80:3', 'test-dq_report_by_m.R:3:3',
'test-plots.R:2:3', 'test-plots.R:33:3', 'test-plots.R:102:3',
'test-plots.R:144:3', 'test-plots.R:167:3', 'test-plots.R:185:3',
'test-plots.R:210:3', 'test-plots.R:271:3', 'test-plots.R:301:3',
'test-plots.R:400:3', 'test-plots.R:453:3', 'test-plots.R:483:3',
'test-com_item_missingness.R:2:3', 'test-dq_report_by_na.R:3:3',
'test-dq_report_by_directories.R:3:3', 'test-acc_loess.R:2:3',
'test-acc_loess.R:273:3', 'test-acc_loess.R:438:3', 'test-acc_loess.R:521:3',
'test-acc_loess.R:565:3', 'test-acc_loess.R:681:3', 'test-acc_loess.R:886:3',
'test-acc_loess.R:949:3', 'test-acc_loess.R:993:3',
'test-acc_loess.R:1037:3', 'test-acc_loess.R:1083:3',
'test-acc_loess.R:1116:3', 'test-acc_loess.R:1149:3',
'test-acc_loess.R:1207:3', 'test-con_contradictions_redcap.R:2:3',
'test-con_contradictions_redcap.R:59:3',
'test-con_contradictions_redcap.R:108:3',
'test-con_contradictions_redcap.R:182:3',
'test-com_segment_missingness.R:2:3', 'test-com_segment_missingness.R:221:3',
'test-util_correct_variable_use.R:2:3', 'test-con_limit_deviations.R:2:3',
'test-con_limit_deviations.R:47:3', 'test-con_limit_deviations.R:101:3',
'test-con_limit_deviations.R:160:3', 'test-con_limit_deviations.R:240:3',
'test-con_limit_deviations.R:288:3', 'test-con_limit_deviations.R:336:3',
'test-con_limit_deviations.R:384:3', 'test-con_limit_deviations.R:440:3',
'test-con_limit_deviations.R:531:3', 'test-con_limit_deviations.R:567:3',
'test-con_limit_deviations.R:602:3', 'test-con_limit_deviations.R:642:3',
'test-000_globs.R:3:3', 'test-acc_cat_distributions.R:2:3',
'test-acc_distributions_ecdf.R:2:3', 'test-acc_distributions.R:2:3',
'test-acc_distributions.R:93:3', 'test-acc_distributions.R:114:3',
'test-acc_distributions.R:138:3', 'test-acc_end_digits.R:2:3',
'test-acc_end_digits.R:45:3', 'test-acc_end_digits.R:81:3',
'test-acc_end_digits.R:109:3', 'test-acc_margins.R:2:3',
'test-acc_margins.R:248:3', 'test-acc_shape_or_scale.R:2:3',
'test-acc_shape_or_scale.R:243:3', 'test-acc_multivariate_outlier.R:2:3',
'test-acc_multivariate_outlier.R:60:3',
'test-acc_multivariate_outlier.R:127:3', 'test-acc_univariate_outlier.R:2:3',
'test-acc_univariate_outlier.R:135:3', 'test-acc_varcomp2.R:2:3',
'test-acc_varcomp.R:2:3', 'test-acc_varcomp.R:52:3',
'test-acc_varcomp.R:88:3', 'test-acc_varcomp.R:134:3',
'test-acc_varcomp.R:174:3', 'test-com_qualified_item_missingness.R:2:3',
'test-com_qualified_segment_missingness.R:2:3',
'test-com_qualified_segment_missingness.R:32:3',
'test-com_unit_missingness.R:2:3', 'test-con_inadmissible_categorical.R:2:3',
'test-con_contradictions.R:2:3', 'test-dataquieR_resultset.R:2:3',
'test-dataquieR_resultset2.R:2:3', 'test-des_summary.R:7:3',
'test-dq_report_by_respvars.R:3:3', 'test-dq_report_by_sb.R:7:3',
'test-dq_report_by_storr.R:2:3', 'test-get_internal_api.R:2:3',
'test-function_arguments.R:2:3', 'test-function_arguments.R:61:3',
'test-function_arguments.R:88:3', 'test-int_sts_element_dataframe.R:2:3',
'test-int_datatype_matrix.R:2:3', 'test-int_unexp_elements.R:2:3',
'test-int_unexp_records.R:2:3', 'test-int_unexp_records_set.R:2:3',
'test-meta_data_env.R:2:3', 'test-nres.R:2:3',
'test-prep_acc_distributions_with_ecdf.R:2:3', 'test-prep_add_to_meta.R:2:3',
'test-prep_apply_coding.R:2:3', 'test-prep_check_meta_names.R:2:3',
'test-prep_clean_labels.R:2:3', 'test-prep_combine_report_summaries.R:2:3',
'test-prep_compare_meta_with_study.R:2:3', 'test-prep_create_meta.R:2:3',
'test-prep_create_meta_data_file.R:2:3',
'test-prep_datatype_from_data.R:2:3', 'test-prep_datatype_from_data.R:39:3',
'test-prep_dq_data_type_of.R:2:3', 'test-prep_get_data_frame.R:2:3',
'test-prep_get_study_data_segment.R:2:3',
'test-prep_load_folder_with_metadata.R:2:3', 'test-prep_map_labels.R:2:3',
'test-prep_min_obs_level.R:2:3', 'test-prep_pmap.R:2:3',
'test-prep_prepare_dataframes.R:2:3', 'test-prep_render_pie_charts.R:2:3',
'test-prep_save_report.R:2:3', 'test-prep_title_escape.R:2:3',
'test-prep_study2meta.R:2:3', 'test-prep_study2meta.R:57:3',
'test-prep_study2meta.R:132:3', 'test-prep_undisclose.R:2:3',
'test-prep_valuelabels_from_data.R:2:3',
'test-pro_applicability_matrix.R:2:3', 'test-print.R:2:3',
'test-print.R:14:3', 'test-print.R:170:3', 'test-print.R:213:3',
'test-rbind.R:2:3', 'test-reflection.R:2:3', 'test-util_acc_loess_bin.R:2:3',
'test-util_app_cd.R:2:3', 'test-util_app_dc.R:2:3', 'test-util_app_dl.R:2:3',
'test-util_app_ed.R:2:3', 'test-util_app_hl.R:2:3',
'test-util_app_iac.R:2:3', 'test-util_app_iav.R:2:3',
'test-util_app_im.R:2:3', 'test-util_app_loess.R:2:3',
'test-util_app_mar.R:2:3', 'test-util_app_mol.R:2:3',
'test-util_app_ol.R:2:3', 'test-util_app_sl.R:2:3', 'test-util_app_sm.R:2:3',
'test-util_app_sos.R:2:3', 'test-util_app_vc.R:2:3',
'test-util_as_numeric.R:2:3', 'test-util_assign_levlabs.R:2:3',
'test-util_backtickQuote.R:2:3', 'test-util_check_data_type.R:2:3',
'test-util_check_group_levels.R:2:3',
'test-util_check_one_unique_value.R:2:3',
'test-util_combine_missing_lists.R:2:3',
'test-util_compare_meta_with_study.R:2:3', 'test-util_detect_cores.R:2:3',
'test-util_dichotomize.R:2:3', 'test-util_dichotomize.R:49:3',
'test-util_dist_selection.R:2:3', 'test-util_ds1_eval_env.R:2:3',
'test-util_contradiction_rules.R:32:3',
'test-util_contradiction_rules.R:41:3',
'test-util_contradiction_rules.R:72:3',
'test-util_contradiction_rules.R:107:3',
'test-util_contradiction_rules.R:142:3',
'test-util_contradiction_rules.R:189:3',
'test-util_contradiction_rules.R:204:3',
'test-util_contradiction_rules.R:223:3',
'test-util_contradiction_rules.R:235:3',
'test-util_contradiction_rules.R:247:3', 'test-util_empty.R:2:3',
'test-util_ensure_character.R:2:3', 'test-util_ensure_suggested.R:2:3',
'test-util_error.R:2:3', 'test-util_finalize_sizing_hints.R:2:3',
'test-util_find_external_functions_in_stacktrace.R:2:3',
'test-util_find_external_functions_in_stacktrace.R:26:3',
'test-util_find_first_externally_called_functions_in_stacktrace.R:2:3',
'test-util_find_free_missing_code.R:2:3', 'test-util_get_code_list.R:2:3',
'test-util_get_code_list.R:88:3', 'test-util_get_code_list.R:117:3',
'test-util_has_no_group_vars.R:2:3', 'test-util_heatmap_1th.R:2:3',
'test-util_html_attr_quote_escape.R:2:3',
'test-util_is_valid_missing_codes.R:2:3',
'test-util_looks_like_missing.R:2:3', 'test-util_interpret_limits.R:2:3',
'test-util_map_all.R:2:3', 'test-util_map_by_largest_prefix.R:2:3',
'test-util_map_labels.R:2:3', 'test-util_no_value_labels.R:2:3',
'test-util_observations_in_subgroups.R:2:3', 'test-util_par_pmap.R:2:3',
'test-util_parallel_futures.R:4:3', 'test-util_parse_redcap_rule.R:2:3',
'test-util_parse_assignments.R:2:3', 'test-util_parse_assignments.R:18:3',
'test-util_plot_figure_no_plotly.R:2:3',
'test-util_plot_categorical_vars.R:2:3',
'test-util_plot_categorical_vars.R:55:3',
'test-util_plot_figure_plotly.R:2:3', 'test-util_queue_cluster.R:2:3',
'test-util_remove_empty_rows.R:2:3', 'test-util_remove_na_records.R:2:3',
'test-util_render_table_dataquieR_summary.R:7:3',
'test-util_replace_codes_by_na.R:2:3', 'test-util_set_doublequotes.R:2:3',
'test-util_set_singlequotes.R:2:3', 'test-util_set_size.R:2:3',
'test-util_split_val_tab.R:2:3', 'test-util_split_val_tab.R:68:3',
'test-util_standardise_ordinal_codes.R:2:3',
'test-util_startsWith_prefix._or_equals_prefix.R:2:3',
'test-util_unit2baseunit.R:2:3', 'test-util_user_hint.R:2:3',
'test-util_validate_known_meta.R:2:3', 'test-util_varcomp_robust.R:2:3',
'test-util_warn_unordered.R:3:3', 'test-util_warning.R:2:3',
'test-util_warning.R:48:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-prep_add_missing_codes.R:8:4'): prep_add_missing_codes works ───
Error in `islistfactor(x, recursive)`: NA in coercion to Rboolean
Backtrace:
▆
1. └─dataquieR::prep_add_missing_codes(...) at test-prep_add_missing_codes.R:8:4
2. └─dataquieR::prep_prepare_dataframes(...)
3. └─dataquieR:::util_validate_known_meta(meta_data)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::withCallingHandlers(...)
9. └─dataquieR:::util_interpret_limits(mdata = meta_data)
10. ├─base::cbind.data.frame(...)
11. │ └─base::data.frame(..., check.names = FALSE)
12. ├─base::t(apply(as.data.frame(X[[lv[i]]]), 1, myfun1))
13. └─base::apply(as.data.frame(X[[lv[i]]]), 1, myfun1)
14. └─dataquieR (local) FUN(newX[, i], ...)
15. ├─base::trimws(unlist(strsplit(as.character(x), split = ";"), "both"))
16. │ ├─base (local) mysub(...)
17. │ │ └─base::sub(re, "", x, perl = TRUE)
18. │ │ └─base::is.factor(x)
19. │ └─base (local) mysub(paste0("^", whitespace, "+"), x)
20. │ └─base::sub(re, "", x, perl = TRUE)
21. │ └─base::is.factor(x)
22. └─base::unlist(strsplit(as.character(x), split = ";"), "both")
── Error ('test-util_interpret_limits.R:45:3'): util_interpret_limits works ────
Error in `islistfactor(x, recursive)`: NA in coercion to Rboolean
Backtrace:
▆
1. └─dataquieR:::util_interpret_limits(meta) at test-util_interpret_limits.R:45:3
2. ├─base::cbind.data.frame(...)
3. │ └─base::data.frame(..., check.names = FALSE)
4. ├─base::t(apply(as.data.frame(X[[lv[i]]]), 1, myfun1))
5. └─base::apply(as.data.frame(X[[lv[i]]]), 1, myfun1)
6. └─dataquieR (local) FUN(newX[, i], ...)
7. ├─base::trimws(unlist(strsplit(as.character(x), split = ";"), "both"))
8. │ ├─base (local) mysub(...)
9. │ │ └─base::sub(re, "", x, perl = TRUE)
10. │ │ └─base::is.factor(x)
11. │ └─base (local) mysub(paste0("^", whitespace, "+"), x)
12. │ └─base::sub(re, "", x, perl = TRUE)
13. │ └─base::is.factor(x)
14. └─base::unlist(strsplit(as.character(x), split = ";"), "both")
[ FAIL 2 | WARN 0 | SKIP 231 | PASS 20 ]
Deleting unused snapshots:
• R4.3/acc_cat_distributions/acc-cat-distributions-education-1.svg
• R4.3/acc_distributions/empty-cat5.svg
• R4.3/acc_distributions/few-float-values.svg
• R4.3/acc_distributions/non-consecutive-codes-work.svg
• R4.3/acc_end_digits/enddigits-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-combined-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-with-covars-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-both-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-facets-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.3/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.3/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
• R4.3/acc_margins/margins-plot-for-crp-0-ok.svg
• R4.3/acc_multivariate_outlier/acc-mv-outliercrp0globheava0.svg
• R4.3/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
• R4.3/com_item_missingness/item-missingness-no-labels.svg
• R4.3/com_item_missingness/item-missingness-w-labels.svg
• R4.3/com_segment_missingness/segment-missingness-plot-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r1-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r2-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r3-ok.svg
• R4.3/con_contradictions/one-cat-contradiction-plot-ok.svg
• R4.3/con_contradictions/summary-contradiction-plot-ok.svg
• R4.3/con_contradictions_redcap/one-cat-contradiction-plot-ok.svg
• R4.3/con_contradictions_redcap/summary-contradiction-plot-ok.svg
• R4.3/con_limit_deviations/con-limit-deviations-4-hists-1-val.svg
• R4.3/con_limit_deviations/con-limit-deviations-for-reverted.svg
• R4.3/con_limit_deviations/con-limit-deviations-histgrms-misscds.svg
• R4.3/con_limit_deviations/con-limit-deviations-nothing-within.svg
• R4.3/con_limit_deviations/con-limit-deviations-reverse-w-1-0-max.svg
• R4.3/int_datatype_matrix/intdtpart-interview.svg
• R4.3/int_datatype_matrix/intdtpart-lab.svg
• R4.3/int_datatype_matrix/intdtpart-phys-exam.svg
• R4.3/int_datatype_matrix/intdtpart-questionnaire.svg
• R4.3/int_datatype_matrix/intdtpart-study.svg
• R4.3/int_datatype_matrix/integrity-datatype.svg
• R4.3/plots/acc-distributions-def-edu0.svg
• R4.3/plots/acc-distributions-gr-dbp0.svg
• R4.3/plots/acc-multivariate-outlier-test-1.svg
• R4.3/plots/acc-univariate-outlier-r-dbp-0.svg
• R4.3/plots/con-contradictions-all-checks.svg
• R4.3/plots/con-contradictions-by-tag.svg
• R4.3/plots/con-contradictions-logical-age-checks-only.svg
• R4.3/plots/con-contradictions-rc-all-checks.svg
• R4.3/plots/con-contradictions-rc-by-tag.svg
• R4.3/plots/con-contradictions-rc-logical-checks-only.svg
• R4.3/plots/con-limit-deviations-all-item.svg
• R4.3/plots/con-limit-deviations-all-quest-dt.svg
• R4.3/plots/con-limit-deviations-all-sbp-0.svg
• R4.3/plots/con-limit-deviations-low-item.svg
• R4.3/plots/con-limit-deviations-low-quest-dt.svg
• R4.3/plots/con-limit-deviations-low-sbp-0.svg
• R4.3/plots/con-limit-deviations-upp-item.svg
• R4.3/plots/con-limit-deviations-upp-quest-dt.svg
• R4.3/plots/con-limit-deviations-upp-sbp-0.svg
• R4.3/plots/empty-reportsummarytable.svg
• R4.3/plots/heatmap-with-1-cat-var.svg
• R4.3/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.3/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
• R4.3/plots/int-datatype-matrix-reportsummarytable.svg
• R4.3/plots/int-datatype-matrix-segment-v50000.svg
• R4.3/plots/int-datatype-matrix.svg
• R4.3/plots/loess-def-dbp0.svg
• R4.3/plots/loess-def-edu0.svg
• R4.3/plots/loess-fac-dbp0.svg
• R4.3/plots/loess-fac-edu0.svg
• R4.3/plots/margins-dbp0.svg
• R4.3/plots/margins-edu0.svg
• R4.3/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.3/plots/pro-applicability-matrix-segment-v50000.svg
• R4.3/plots/pro-applicability-matrix.svg
• R4.3/plots/reportsummarytable-cont.svg
• R4.3/plots/shape-or-scale-dbp0.svg
• R4.3/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.3/prep_render_pie_charts/com-item-missingness.svg
• R4.3/print/app-ex-repsumtab.svg
• R4.3/print/im-empty-repsumtab.svg
• R4.3/print/im-ex1-repsumtab.svg
• R4.3/print/im-ex2-repsumtab.svg
• R4.3/pro_applicability_matrix/appmatrix-plot-ok.svg
• R4.3/pro_applicability_matrix/appmatrix-segment-v10000.svg
• R4.3/util_heatmap_1th/util-heatmap-1th-1.svg
• R4.3/util_heatmap_1th/util-heatmap-1th-2.svg
• R4.3/util_heatmap_1th/util-heatmap-1th-3.svg
• R4.4/acc_cat_distributions/acc-cat-distributions-education-1.svg
• R4.4/acc_distributions/empty-cat5.svg
• R4.4/acc_distributions/few-float-values.svg
• R4.4/acc_distributions/non-consecutive-codes-work.svg
• R4.4/acc_end_digits/enddigits-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-combined-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-with-covars-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-both-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-facets-ok.svg
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Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 2.5.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [44s/26s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # options("testthat.default_reporter" = testthat::RStudioReporter)
> library(dataquieR)
> testthat::test_check("dataquieR")
Starting 2 test processes
[ FAIL 2 | WARN 0 | SKIP 231 | PASS 20 ]
══ Skipped tests (231) ═════════════════════════════════════════════════════════
• On CRAN (231): 'test-dq_report_by_sm.R:7:3', 'test-dq_report2.R:2:3',
'test-dq_report_by_arguments.R:7:3', 'test-dq_report_by_s.R:3:3',
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'test-int_encoding_errors.R:80:3', 'test-dq_report_by_m.R:3:3',
'test-plots.R:2:3', 'test-plots.R:33:3', 'test-plots.R:102:3',
'test-plots.R:144:3', 'test-plots.R:167:3', 'test-plots.R:185:3',
'test-plots.R:210:3', 'test-plots.R:271:3', 'test-plots.R:301:3',
'test-plots.R:400:3', 'test-plots.R:453:3', 'test-plots.R:483:3',
'test-com_item_missingness.R:2:3', 'test-dq_report_by_na.R:3:3',
'test-dq_report_by_directories.R:3:3', 'test-acc_loess.R:2:3',
'test-acc_loess.R:273:3', 'test-acc_loess.R:438:3', 'test-acc_loess.R:521:3',
'test-acc_loess.R:565:3', 'test-acc_loess.R:681:3', 'test-acc_loess.R:886:3',
'test-acc_loess.R:949:3', 'test-acc_loess.R:993:3',
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'test-acc_loess.R:1116:3', 'test-acc_loess.R:1149:3',
'test-acc_loess.R:1207:3', 'test-con_contradictions_redcap.R:2:3',
'test-con_contradictions_redcap.R:59:3',
'test-con_contradictions_redcap.R:108:3',
'test-con_contradictions_redcap.R:182:3',
'test-com_segment_missingness.R:2:3', 'test-com_segment_missingness.R:221:3',
'test-util_correct_variable_use.R:2:3', 'test-con_limit_deviations.R:2:3',
'test-con_limit_deviations.R:47:3', 'test-con_limit_deviations.R:101:3',
'test-con_limit_deviations.R:160:3', 'test-con_limit_deviations.R:240:3',
'test-con_limit_deviations.R:288:3', 'test-con_limit_deviations.R:336:3',
'test-con_limit_deviations.R:384:3', 'test-con_limit_deviations.R:440:3',
'test-con_limit_deviations.R:531:3', 'test-con_limit_deviations.R:567:3',
'test-con_limit_deviations.R:602:3', 'test-con_limit_deviations.R:642:3',
'test-000_globs.R:3:3', 'test-acc_cat_distributions.R:2:3',
'test-acc_distributions.R:2:3', 'test-acc_distributions.R:93:3',
'test-acc_distributions.R:114:3', 'test-acc_distributions.R:138:3',
'test-acc_distributions_ecdf.R:2:3', 'test-acc_margins.R:2:3',
'test-acc_margins.R:248:3', 'test-acc_end_digits.R:2:3',
'test-acc_end_digits.R:45:3', 'test-acc_end_digits.R:81:3',
'test-acc_end_digits.R:109:3', 'test-acc_shape_or_scale.R:2:3',
'test-acc_shape_or_scale.R:243:3', 'test-acc_multivariate_outlier.R:2:3',
'test-acc_multivariate_outlier.R:60:3',
'test-acc_multivariate_outlier.R:127:3', 'test-acc_univariate_outlier.R:2:3',
'test-acc_univariate_outlier.R:135:3', 'test-acc_varcomp2.R:2:3',
'test-acc_varcomp.R:2:3', 'test-acc_varcomp.R:52:3',
'test-acc_varcomp.R:88:3', 'test-acc_varcomp.R:134:3',
'test-acc_varcomp.R:174:3', 'test-com_qualified_item_missingness.R:2:3',
'test-com_qualified_segment_missingness.R:2:3',
'test-com_qualified_segment_missingness.R:32:3',
'test-com_unit_missingness.R:2:3', 'test-con_contradictions.R:2:3',
'test-con_inadmissible_categorical.R:2:3', 'test-dataquieR_resultset.R:2:3',
'test-des_summary.R:7:3', 'test-dataquieR_resultset2.R:2:3',
'test-dq_report_by_respvars.R:3:3', 'test-dq_report_by_sb.R:7:3',
'test-dq_report_by_storr.R:2:3', 'test-function_arguments.R:2:3',
'test-function_arguments.R:61:3', 'test-function_arguments.R:88:3',
'test-get_internal_api.R:2:3', 'test-int_datatype_matrix.R:2:3',
'test-int_sts_element_dataframe.R:2:3', 'test-int_unexp_elements.R:2:3',
'test-int_unexp_records.R:2:3', 'test-int_unexp_records_set.R:2:3',
'test-meta_data_env.R:2:3', 'test-nres.R:2:3',
'test-prep_acc_distributions_with_ecdf.R:2:3', 'test-prep_add_to_meta.R:2:3',
'test-prep_apply_coding.R:2:3', 'test-prep_check_meta_names.R:2:3',
'test-prep_clean_labels.R:2:3', 'test-prep_combine_report_summaries.R:2:3',
'test-prep_compare_meta_with_study.R:2:3', 'test-prep_create_meta.R:2:3',
'test-prep_create_meta_data_file.R:2:3',
'test-prep_datatype_from_data.R:2:3', 'test-prep_datatype_from_data.R:39:3',
'test-prep_dq_data_type_of.R:2:3', 'test-prep_get_data_frame.R:2:3',
'test-prep_get_study_data_segment.R:2:3',
'test-prep_load_folder_with_metadata.R:2:3', 'test-prep_map_labels.R:2:3',
'test-prep_min_obs_level.R:2:3', 'test-prep_pmap.R:2:3',
'test-prep_prepare_dataframes.R:2:3', 'test-prep_render_pie_charts.R:2:3',
'test-prep_save_report.R:2:3', 'test-prep_title_escape.R:2:3',
'test-prep_study2meta.R:2:3', 'test-prep_study2meta.R:57:3',
'test-prep_study2meta.R:132:3', 'test-prep_undisclose.R:2:3',
'test-prep_valuelabels_from_data.R:2:3',
'test-pro_applicability_matrix.R:2:3', 'test-print.R:2:3',
'test-print.R:14:3', 'test-print.R:170:3', 'test-print.R:213:3',
'test-rbind.R:2:3', 'test-reflection.R:2:3', 'test-util_acc_loess_bin.R:2:3',
'test-util_app_cd.R:2:3', 'test-util_app_dc.R:2:3', 'test-util_app_dl.R:2:3',
'test-util_app_ed.R:2:3', 'test-util_app_hl.R:2:3',
'test-util_app_iac.R:2:3', 'test-util_app_iav.R:2:3',
'test-util_app_im.R:2:3', 'test-util_app_loess.R:2:3',
'test-util_app_mar.R:2:3', 'test-util_app_mol.R:2:3',
'test-util_app_ol.R:2:3', 'test-util_app_sl.R:2:3',
'test-util_app_sos.R:2:3', 'test-util_app_sm.R:2:3',
'test-util_app_vc.R:2:3', 'test-util_as_numeric.R:2:3',
'test-util_assign_levlabs.R:2:3', 'test-util_backtickQuote.R:2:3',
'test-util_check_data_type.R:2:3', 'test-util_check_group_levels.R:2:3',
'test-util_check_one_unique_value.R:2:3',
'test-util_combine_missing_lists.R:2:3',
'test-util_compare_meta_with_study.R:2:3', 'test-util_detect_cores.R:2:3',
'test-util_dichotomize.R:2:3', 'test-util_dichotomize.R:49:3',
'test-util_dist_selection.R:2:3', 'test-util_ds1_eval_env.R:2:3',
'test-util_contradiction_rules.R:32:3',
'test-util_contradiction_rules.R:41:3',
'test-util_contradiction_rules.R:72:3',
'test-util_contradiction_rules.R:107:3',
'test-util_contradiction_rules.R:142:3',
'test-util_contradiction_rules.R:189:3',
'test-util_contradiction_rules.R:204:3',
'test-util_contradiction_rules.R:223:3',
'test-util_contradiction_rules.R:235:3',
'test-util_contradiction_rules.R:247:3', 'test-util_empty.R:2:3',
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'test-util_error.R:2:3', 'test-util_finalize_sizing_hints.R:2:3',
'test-util_find_first_externally_called_functions_in_stacktrace.R:2:3',
'test-util_find_external_functions_in_stacktrace.R:2:3',
'test-util_find_external_functions_in_stacktrace.R:26:3',
'test-util_find_free_missing_code.R:2:3', 'test-util_get_code_list.R:2:3',
'test-util_get_code_list.R:88:3', 'test-util_get_code_list.R:117:3',
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'test-util_plot_categorical_vars.R:2:3',
'test-util_plot_categorical_vars.R:55:3',
'test-util_plot_figure_no_plotly.R:2:3',
'test-util_plot_figure_plotly.R:2:3', 'test-util_queue_cluster.R:2:3',
'test-util_remove_empty_rows.R:2:3', 'test-util_remove_na_records.R:2:3',
'test-util_render_table_dataquieR_summary.R:7:3',
'test-util_set_doublequotes.R:2:3', 'test-util_replace_codes_by_na.R:2:3',
'test-util_set_singlequotes.R:2:3', 'test-util_set_size.R:2:3',
'test-util_standardise_ordinal_codes.R:2:3', 'test-util_split_val_tab.R:2:3',
'test-util_split_val_tab.R:68:3',
'test-util_startsWith_prefix._or_equals_prefix.R:2:3',
'test-util_unit2baseunit.R:2:3', 'test-util_user_hint.R:2:3',
'test-util_validate_known_meta.R:2:3', 'test-util_varcomp_robust.R:2:3',
'test-util_warn_unordered.R:3:3', 'test-util_warning.R:2:3',
'test-util_warning.R:48:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-prep_add_missing_codes.R:8:4'): prep_add_missing_codes works ───
Error in `islistfactor(x, recursive)`: NA in coercion to Rboolean
Backtrace:
▆
1. └─dataquieR::prep_add_missing_codes(...) at test-prep_add_missing_codes.R:8:4
2. └─dataquieR::prep_prepare_dataframes(...)
3. └─dataquieR:::util_validate_known_meta(meta_data)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::withCallingHandlers(...)
9. └─dataquieR:::util_interpret_limits(mdata = meta_data)
10. ├─base::cbind.data.frame(...)
11. │ └─base::data.frame(..., check.names = FALSE)
12. ├─base::t(apply(as.data.frame(X[[lv[i]]]), 1, myfun1))
13. └─base::apply(as.data.frame(X[[lv[i]]]), 1, myfun1)
14. └─dataquieR (local) FUN(newX[, i], ...)
15. ├─base::trimws(unlist(strsplit(as.character(x), split = ";"), "both"))
16. │ ├─base (local) mysub(...)
17. │ │ └─base::sub(re, "", x, perl = TRUE)
18. │ │ └─base::is.factor(x)
19. │ └─base (local) mysub(paste0("^", whitespace, "+"), x)
20. │ └─base::sub(re, "", x, perl = TRUE)
21. │ └─base::is.factor(x)
22. └─base::unlist(strsplit(as.character(x), split = ";"), "both")
── Error ('test-util_interpret_limits.R:45:3'): util_interpret_limits works ────
Error in `islistfactor(x, recursive)`: NA in coercion to Rboolean
Backtrace:
▆
1. └─dataquieR:::util_interpret_limits(meta) at test-util_interpret_limits.R:45:3
2. ├─base::cbind.data.frame(...)
3. │ └─base::data.frame(..., check.names = FALSE)
4. ├─base::t(apply(as.data.frame(X[[lv[i]]]), 1, myfun1))
5. └─base::apply(as.data.frame(X[[lv[i]]]), 1, myfun1)
6. └─dataquieR (local) FUN(newX[, i], ...)
7. ├─base::trimws(unlist(strsplit(as.character(x), split = ";"), "both"))
8. │ ├─base (local) mysub(...)
9. │ │ └─base::sub(re, "", x, perl = TRUE)
10. │ │ └─base::is.factor(x)
11. │ └─base (local) mysub(paste0("^", whitespace, "+"), x)
12. │ └─base::sub(re, "", x, perl = TRUE)
13. │ └─base::is.factor(x)
14. └─base::unlist(strsplit(as.character(x), split = ";"), "both")
[ FAIL 2 | WARN 0 | SKIP 231 | PASS 20 ]
Deleting unused snapshots:
• R4.3/acc_cat_distributions/acc-cat-distributions-education-1.svg
• R4.3/acc_distributions/empty-cat5.svg
• R4.3/acc_distributions/few-float-values.svg
• R4.3/acc_distributions/non-consecutive-codes-work.svg
• R4.3/acc_end_digits/enddigits-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-combined-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-with-covars-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-both-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-facets-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.3/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.3/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
• R4.3/acc_margins/margins-plot-for-crp-0-ok.svg
• R4.3/acc_multivariate_outlier/acc-mv-outliercrp0globheava0.svg
• R4.3/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
• R4.3/com_item_missingness/item-missingness-no-labels.svg
• R4.3/com_item_missingness/item-missingness-w-labels.svg
• R4.3/com_segment_missingness/segment-missingness-plot-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r1-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r2-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r3-ok.svg
• R4.3/con_contradictions/one-cat-contradiction-plot-ok.svg
• R4.3/con_contradictions/summary-contradiction-plot-ok.svg
• R4.3/con_contradictions_redcap/one-cat-contradiction-plot-ok.svg
• R4.3/con_contradictions_redcap/summary-contradiction-plot-ok.svg
• R4.3/con_limit_deviations/con-limit-deviations-4-hists-1-val.svg
• R4.3/con_limit_deviations/con-limit-deviations-for-reverted.svg
• R4.3/con_limit_deviations/con-limit-deviations-histgrms-misscds.svg
• R4.3/con_limit_deviations/con-limit-deviations-nothing-within.svg
• R4.3/con_limit_deviations/con-limit-deviations-reverse-w-1-0-max.svg
• R4.3/int_datatype_matrix/intdtpart-interview.svg
• R4.3/int_datatype_matrix/intdtpart-lab.svg
• R4.3/int_datatype_matrix/intdtpart-phys-exam.svg
• R4.3/int_datatype_matrix/intdtpart-questionnaire.svg
• R4.3/int_datatype_matrix/intdtpart-study.svg
• R4.3/int_datatype_matrix/integrity-datatype.svg
• R4.3/plots/acc-distributions-def-edu0.svg
• R4.3/plots/acc-distributions-gr-dbp0.svg
• R4.3/plots/acc-multivariate-outlier-test-1.svg
• R4.3/plots/acc-univariate-outlier-r-dbp-0.svg
• R4.3/plots/con-contradictions-all-checks.svg
• R4.3/plots/con-contradictions-by-tag.svg
• R4.3/plots/con-contradictions-logical-age-checks-only.svg
• R4.3/plots/con-contradictions-rc-all-checks.svg
• R4.3/plots/con-contradictions-rc-by-tag.svg
• R4.3/plots/con-contradictions-rc-logical-checks-only.svg
• R4.3/plots/con-limit-deviations-all-item.svg
• R4.3/plots/con-limit-deviations-all-quest-dt.svg
• R4.3/plots/con-limit-deviations-all-sbp-0.svg
• R4.3/plots/con-limit-deviations-low-item.svg
• R4.3/plots/con-limit-deviations-low-quest-dt.svg
• R4.3/plots/con-limit-deviations-low-sbp-0.svg
• R4.3/plots/con-limit-deviations-upp-item.svg
• R4.3/plots/con-limit-deviations-upp-quest-dt.svg
• R4.3/plots/con-limit-deviations-upp-sbp-0.svg
• R4.3/plots/empty-reportsummarytable.svg
• R4.3/plots/heatmap-with-1-cat-var.svg
• R4.3/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.3/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
• R4.3/plots/int-datatype-matrix-reportsummarytable.svg
• R4.3/plots/int-datatype-matrix-segment-v50000.svg
• R4.3/plots/int-datatype-matrix.svg
• R4.3/plots/loess-def-dbp0.svg
• R4.3/plots/loess-def-edu0.svg
• R4.3/plots/loess-fac-dbp0.svg
• R4.3/plots/loess-fac-edu0.svg
• R4.3/plots/margins-dbp0.svg
• R4.3/plots/margins-edu0.svg
• R4.3/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.3/plots/pro-applicability-matrix-segment-v50000.svg
• R4.3/plots/pro-applicability-matrix.svg
• R4.3/plots/reportsummarytable-cont.svg
• R4.3/plots/shape-or-scale-dbp0.svg
• R4.3/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.3/prep_render_pie_charts/com-item-missingness.svg
• R4.3/print/app-ex-repsumtab.svg
• R4.3/print/im-empty-repsumtab.svg
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• R4.3/print/im-ex2-repsumtab.svg
• R4.3/pro_applicability_matrix/appmatrix-plot-ok.svg
• R4.3/pro_applicability_matrix/appmatrix-segment-v10000.svg
• R4.3/util_heatmap_1th/util-heatmap-1th-1.svg
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• R4.3/util_heatmap_1th/util-heatmap-1th-3.svg
• R4.4/acc_cat_distributions/acc-cat-distributions-education-1.svg
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• R4.4/acc_distributions/few-float-values.svg
• R4.4/acc_distributions/non-consecutive-codes-work.svg
• R4.4/acc_end_digits/enddigits-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
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• R4.4/acc_loess/loess-combined-plot-for-crp-0-ok.svg
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• R4.4/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.4/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.4/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
• R4.4/acc_margins/margins-plot-for-crp-0-ok.svg
• R4.4/acc_multivariate_outlier/acc-mv-outliercrp0globheava0.svg
• R4.4/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
• R4.4/com_item_missingness/item-missingness-no-labels.svg
• R4.4/com_item_missingness/item-missingness-w-labels.svg
• R4.4/com_segment_missingness/segment-missingness-plot-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r1-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r2-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r3-ok.svg
• R4.4/con_contradictions/one-cat-contradiction-plot-ok.svg
• R4.4/con_contradictions/summary-contradiction-plot-ok.svg
• R4.4/con_contradictions_redcap/one-cat-contradiction-plot-ok.svg
• R4.4/con_contradictions_redcap/summary-contradiction-plot-ok.svg
• R4.4/con_limit_deviations/con-limit-deviations-4-hists-1-val.svg
• R4.4/con_limit_deviations/con-limit-deviations-for-reverted.svg
• R4.4/con_limit_deviations/con-limit-deviations-histgrms-misscds.svg
• R4.4/con_limit_deviations/con-limit-deviations-nothing-within.svg
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• R4.4/con_limit_deviations/con-limit-deviations-reverse-w-1-0-max.svg
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• R4.4/plots/acc-multivariate-outlier-test-1.svg
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• R4.4/plots/con-contradictions-by-tag.svg
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• R4.4/plots/con-limit-deviations-all-quest-dt.svg
• R4.4/plots/con-limit-deviations-all-sbp-0.svg
• R4.4/plots/con-limit-deviations-low-item.svg
• R4.4/plots/con-limit-deviations-low-quest-dt.svg
• R4.4/plots/con-limit-deviations-low-sbp-0.svg
• R4.4/plots/con-limit-deviations-upp-item.svg
• R4.4/plots/con-limit-deviations-upp-quest-dt.svg
• R4.4/plots/con-limit-deviations-upp-sbp-0.svg
• R4.4/plots/empty-reportsummarytable.svg
• R4.4/plots/heatmap-with-1-cat-var.svg
• R4.4/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.4/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
• R4.4/plots/int-datatype-matrix-reportsummarytable.svg
• R4.4/plots/int-datatype-matrix-segment-v50000.svg
• R4.4/plots/int-datatype-matrix.svg
• R4.4/plots/loess-def-dbp0.svg
• R4.4/plots/loess-def-edu0.svg
• R4.4/plots/loess-fac-dbp0.svg
• R4.4/plots/loess-fac-edu0.svg
• R4.4/plots/margins-dbp0.svg
• R4.4/plots/margins-edu0.svg
• R4.4/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.4/plots/pro-applicability-matrix-segment-v50000.svg
• R4.4/plots/pro-applicability-matrix.svg
• R4.4/plots/reportsummarytable-cont.svg
• R4.4/plots/shape-or-scale-dbp0.svg
• R4.4/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.4/prep_render_pie_charts/com-item-missingness.svg
• R4.4/print/app-ex-repsumtab.svg
• R4.4/print/im-empty-repsumtab.svg
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• R4.5/acc_loess/loess-combined-plot-for-crp-0-ok.svg
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• R4.5/acc_loess/loess-facets-plot-for-crp-0-facets-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
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• R4.5/com_item_missingness/item-missingness-no-labels.svg
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• R4.5/com_segment_missingness/segment-missingness-plot-ok.svg
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• R4.5/int_datatype_matrix/intdtpart-study.svg
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• R4.5/plots/acc-distributions-def-edu0.svg
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• R4.5/plots/acc-multivariate-outlier-test-1.svg
• R4.5/plots/acc-univariate-outlier-r-dbp-0.svg
• R4.5/plots/con-contradictions-all-checks.svg
• R4.5/plots/con-contradictions-by-tag.svg
• R4.5/plots/con-contradictions-logical-age-checks-only.svg
• R4.5/plots/con-contradictions-rc-all-checks.svg
• R4.5/plots/con-contradictions-rc-by-tag.svg
• R4.5/plots/con-contradictions-rc-logical-checks-only.svg
• R4.5/plots/con-limit-deviations-all-item.svg
• R4.5/plots/con-limit-deviations-all-quest-dt.svg
• R4.5/plots/con-limit-deviations-all-sbp-0.svg
• R4.5/plots/con-limit-deviations-low-item.svg
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• R4.5/plots/con-limit-deviations-low-sbp-0.svg
• R4.5/plots/con-limit-deviations-upp-item.svg
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• R4.5/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.5/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
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• R4.5/plots/int-datatype-matrix.svg
• R4.5/plots/loess-def-dbp0.svg
• R4.5/plots/loess-def-edu0.svg
• R4.5/plots/loess-fac-dbp0.svg
• R4.5/plots/loess-fac-edu0.svg
• R4.5/plots/margins-dbp0.svg
• R4.5/plots/margins-edu0.svg
• R4.5/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.5/plots/pro-applicability-matrix-segment-v50000.svg
• R4.5/plots/pro-applicability-matrix.svg
• R4.5/plots/reportsummarytable-cont.svg
• R4.5/plots/shape-or-scale-dbp0.svg
• R4.5/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.5/prep_render_pie_charts/com-item-missingness.svg
• R4.5/print/app-ex-repsumtab.svg
• R4.5/print/im-empty-repsumtab.svg
• R4.5/print/im-ex1-repsumtab.svg
• R4.5/print/im-ex2-repsumtab.svg
• R4.5/pro_applicability_matrix/appmatrix-plot-ok.svg
• R4.5/pro_applicability_matrix/appmatrix-segment-v10000.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-1.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-2.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-3.svg
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.5.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [107s/80s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # options("testthat.default_reporter" = testthat::RStudioReporter)
> library(dataquieR)
> testthat::test_check("dataquieR")
Starting 2 test processes
[ FAIL 2 | WARN 0 | SKIP 231 | PASS 20 ]
══ Skipped tests (231) ═════════════════════════════════════════════════════════
• On CRAN (231): 'test-dq_report2.R:2:3', 'test-dq_report_by_sm.R:7:3',
'test-dq_report_by_arguments.R:7:3', 'test-dq_report_by_s.R:3:3',
'test-int_encoding_errors.R:2:3', 'test-int_encoding_errors.R:80:3',
'test-dq_report_by_pipesymbol_list.R:3:3', 'test-dq_report_by_m.R:3:3',
'test-plots.R:2:3', 'test-plots.R:33:3', 'test-plots.R:102:3',
'test-plots.R:144:3', 'test-plots.R:167:3', 'test-plots.R:185:3',
'test-plots.R:210:3', 'test-plots.R:271:3', 'test-plots.R:301:3',
'test-plots.R:400:3', 'test-plots.R:453:3', 'test-plots.R:483:3',
'test-com_item_missingness.R:2:3', 'test-dq_report_by_na.R:3:3',
'test-acc_loess.R:2:3', 'test-acc_loess.R:273:3', 'test-acc_loess.R:438:3',
'test-acc_loess.R:521:3', 'test-acc_loess.R:565:3', 'test-acc_loess.R:681:3',
'test-acc_loess.R:886:3', 'test-acc_loess.R:949:3', 'test-acc_loess.R:993:3',
'test-acc_loess.R:1037:3', 'test-acc_loess.R:1083:3',
'test-acc_loess.R:1116:3', 'test-acc_loess.R:1149:3',
'test-acc_loess.R:1207:3', 'test-dq_report_by_directories.R:3:3',
'test-con_contradictions_redcap.R:2:3',
'test-con_contradictions_redcap.R:59:3',
'test-con_contradictions_redcap.R:108:3',
'test-con_contradictions_redcap.R:182:3',
'test-com_segment_missingness.R:2:3', 'test-com_segment_missingness.R:221:3',
'test-util_correct_variable_use.R:2:3', 'test-con_limit_deviations.R:2:3',
'test-con_limit_deviations.R:47:3', 'test-con_limit_deviations.R:101:3',
'test-con_limit_deviations.R:160:3', 'test-con_limit_deviations.R:240:3',
'test-con_limit_deviations.R:288:3', 'test-con_limit_deviations.R:336:3',
'test-con_limit_deviations.R:384:3', 'test-con_limit_deviations.R:440:3',
'test-con_limit_deviations.R:531:3', 'test-con_limit_deviations.R:567:3',
'test-con_limit_deviations.R:602:3', 'test-con_limit_deviations.R:642:3',
'test-acc_cat_distributions.R:2:3', 'test-000_globs.R:3:3',
'test-acc_distributions.R:2:3', 'test-acc_distributions.R:93:3',
'test-acc_distributions.R:114:3', 'test-acc_distributions.R:138:3',
'test-acc_distributions_ecdf.R:2:3', 'test-acc_margins.R:2:3',
'test-acc_margins.R:248:3', 'test-acc_end_digits.R:2:3',
'test-acc_end_digits.R:45:3', 'test-acc_end_digits.R:81:3',
'test-acc_end_digits.R:109:3', 'test-acc_shape_or_scale.R:2:3',
'test-acc_shape_or_scale.R:243:3', 'test-acc_multivariate_outlier.R:2:3',
'test-acc_multivariate_outlier.R:60:3',
'test-acc_multivariate_outlier.R:127:3', 'test-acc_univariate_outlier.R:2:3',
'test-acc_univariate_outlier.R:135:3', 'test-acc_varcomp2.R:2:3',
'test-com_qualified_item_missingness.R:2:3',
'test-com_qualified_segment_missingness.R:2:3',
'test-com_qualified_segment_missingness.R:32:3', 'test-acc_varcomp.R:2:3',
'test-acc_varcomp.R:52:3', 'test-acc_varcomp.R:88:3',
'test-acc_varcomp.R:134:3', 'test-acc_varcomp.R:174:3',
'test-com_unit_missingness.R:2:3', 'test-con_inadmissible_categorical.R:2:3',
'test-con_contradictions.R:2:3', 'test-dataquieR_resultset.R:2:3',
'test-des_summary.R:7:3', 'test-dq_report_by_respvars.R:3:3',
'test-dq_report_by_sb.R:7:3', 'test-dq_report_by_storr.R:2:3',
'test-dataquieR_resultset2.R:2:3', 'test-function_arguments.R:2:3',
'test-function_arguments.R:61:3', 'test-function_arguments.R:88:3',
'test-get_internal_api.R:2:3', 'test-int_datatype_matrix.R:2:3',
'test-int_unexp_elements.R:2:3', 'test-int_sts_element_dataframe.R:2:3',
'test-int_unexp_records.R:2:3', 'test-int_unexp_records_set.R:2:3',
'test-meta_data_env.R:2:3', 'test-nres.R:2:3',
'test-prep_acc_distributions_with_ecdf.R:2:3', 'test-prep_add_to_meta.R:2:3',
'test-prep_apply_coding.R:2:3', 'test-prep_check_meta_names.R:2:3',
'test-prep_clean_labels.R:2:3', 'test-prep_combine_report_summaries.R:2:3',
'test-prep_compare_meta_with_study.R:2:3', 'test-prep_create_meta.R:2:3',
'test-prep_create_meta_data_file.R:2:3',
'test-prep_datatype_from_data.R:2:3', 'test-prep_datatype_from_data.R:39:3',
'test-prep_dq_data_type_of.R:2:3', 'test-prep_get_data_frame.R:2:3',
'test-prep_get_study_data_segment.R:2:3',
'test-prep_load_folder_with_metadata.R:2:3', 'test-prep_map_labels.R:2:3',
'test-prep_min_obs_level.R:2:3', 'test-prep_pmap.R:2:3',
'test-prep_prepare_dataframes.R:2:3', 'test-prep_save_report.R:2:3',
'test-prep_render_pie_charts.R:2:3', 'test-prep_study2meta.R:2:3',
'test-prep_study2meta.R:57:3', 'test-prep_study2meta.R:132:3',
'test-prep_title_escape.R:2:3', 'test-prep_undisclose.R:2:3',
'test-prep_valuelabels_from_data.R:2:3', 'test-print.R:2:3',
'test-print.R:14:3', 'test-print.R:170:3', 'test-print.R:213:3',
'test-pro_applicability_matrix.R:2:3', 'test-rbind.R:2:3',
'test-reflection.R:2:3', 'test-util_app_cd.R:2:3',
'test-util_acc_loess_bin.R:2:3', 'test-util_app_dc.R:2:3',
'test-util_app_dl.R:2:3', 'test-util_app_ed.R:2:3', 'test-util_app_hl.R:2:3',
'test-util_app_iac.R:2:3', 'test-util_app_iav.R:2:3',
'test-util_app_im.R:2:3', 'test-util_app_loess.R:2:3',
'test-util_app_mar.R:2:3', 'test-util_app_ol.R:2:3',
'test-util_app_mol.R:2:3', 'test-util_app_sl.R:2:3',
'test-util_app_sm.R:2:3', 'test-util_app_sos.R:2:3',
'test-util_app_vc.R:2:3', 'test-util_as_numeric.R:2:3',
'test-util_assign_levlabs.R:2:3', 'test-util_backtickQuote.R:2:3',
'test-util_check_data_type.R:2:3', 'test-util_check_one_unique_value.R:2:3',
'test-util_check_group_levels.R:2:3',
'test-util_compare_meta_with_study.R:2:3',
'test-util_combine_missing_lists.R:2:3', 'test-util_detect_cores.R:2:3',
'test-util_dichotomize.R:2:3', 'test-util_dichotomize.R:49:3',
'test-util_contradiction_rules.R:32:3',
'test-util_contradiction_rules.R:41:3',
'test-util_contradiction_rules.R:72:3',
'test-util_contradiction_rules.R:107:3',
'test-util_contradiction_rules.R:142:3',
'test-util_contradiction_rules.R:189:3',
'test-util_contradiction_rules.R:204:3',
'test-util_contradiction_rules.R:223:3',
'test-util_contradiction_rules.R:235:3',
'test-util_contradiction_rules.R:247:3', 'test-util_dist_selection.R:2:3',
'test-util_ds1_eval_env.R:2:3', 'test-util_empty.R:2:3',
'test-util_ensure_character.R:2:3', 'test-util_error.R:2:3',
'test-util_ensure_suggested.R:2:3', 'test-util_finalize_sizing_hints.R:2:3',
'test-util_find_first_externally_called_functions_in_stacktrace.R:2:3',
'test-util_find_external_functions_in_stacktrace.R:2:3',
'test-util_find_external_functions_in_stacktrace.R:26:3',
'test-util_find_free_missing_code.R:2:3',
'test-util_has_no_group_vars.R:2:3', 'test-util_get_code_list.R:2:3',
'test-util_get_code_list.R:88:3', 'test-util_get_code_list.R:117:3',
'test-util_heatmap_1th.R:2:3', 'test-util_html_attr_quote_escape.R:2:3',
'test-util_interpret_limits.R:2:3', 'test-util_is_valid_missing_codes.R:2:3',
'test-util_looks_like_missing.R:2:3', 'test-util_map_all.R:2:3',
'test-util_map_by_largest_prefix.R:2:3', 'test-util_no_value_labels.R:2:3',
'test-util_map_labels.R:2:3', 'test-util_par_pmap.R:2:3',
'test-util_observations_in_subgroups.R:2:3',
'test-util_parse_assignments.R:2:3', 'test-util_parse_assignments.R:18:3',
'test-util_parallel_futures.R:4:3', 'test-util_parse_redcap_rule.R:2:3',
'test-util_plot_figure_no_plotly.R:2:3',
'test-util_plot_categorical_vars.R:2:3',
'test-util_plot_categorical_vars.R:55:3', 'test-util_queue_cluster.R:2:3',
'test-util_plot_figure_plotly.R:2:3', 'test-util_remove_na_records.R:2:3',
'test-util_remove_empty_rows.R:2:3',
'test-util_render_table_dataquieR_summary.R:7:3',
'test-util_replace_codes_by_na.R:2:3', 'test-util_set_doublequotes.R:2:3',
'test-util_set_size.R:2:3', 'test-util_set_singlequotes.R:2:3',
'test-util_standardise_ordinal_codes.R:2:3', 'test-util_split_val_tab.R:2:3',
'test-util_split_val_tab.R:68:3',
'test-util_startsWith_prefix._or_equals_prefix.R:2:3',
'test-util_unit2baseunit.R:2:3', 'test-util_validate_known_meta.R:2:3',
'test-util_user_hint.R:2:3', 'test-util_varcomp_robust.R:2:3',
'test-util_warn_unordered.R:3:3', 'test-util_warning.R:2:3',
'test-util_warning.R:48:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-prep_add_missing_codes.R:8:4'): prep_add_missing_codes works ───
Error in `islistfactor(x, recursive)`: NA in coercion to Rboolean
Backtrace:
▆
1. └─dataquieR::prep_add_missing_codes(...) at test-prep_add_missing_codes.R:8:4
2. └─dataquieR::prep_prepare_dataframes(...)
3. └─dataquieR:::util_validate_known_meta(meta_data)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::withCallingHandlers(...)
9. └─dataquieR:::util_interpret_limits(mdata = meta_data)
10. ├─base::cbind.data.frame(...)
11. │ └─base::data.frame(..., check.names = FALSE)
12. ├─base::t(apply(as.data.frame(X[[lv[i]]]), 1, myfun1))
13. └─base::apply(as.data.frame(X[[lv[i]]]), 1, myfun1)
14. └─dataquieR (local) FUN(newX[, i], ...)
15. ├─base::trimws(unlist(strsplit(as.character(x), split = ";"), "both"))
16. │ ├─base (local) mysub(...)
17. │ │ └─base::sub(re, "", x, perl = TRUE)
18. │ │ └─base::is.factor(x)
19. │ └─base (local) mysub(paste0("^", whitespace, "+"), x)
20. │ └─base::sub(re, "", x, perl = TRUE)
21. │ └─base::is.factor(x)
22. └─base::unlist(strsplit(as.character(x), split = ";"), "both")
── Error ('test-util_interpret_limits.R:45:3'): util_interpret_limits works ────
Error in `islistfactor(x, recursive)`: NA in coercion to Rboolean
Backtrace:
▆
1. └─dataquieR:::util_interpret_limits(meta) at test-util_interpret_limits.R:45:3
2. ├─base::cbind.data.frame(...)
3. │ └─base::data.frame(..., check.names = FALSE)
4. ├─base::t(apply(as.data.frame(X[[lv[i]]]), 1, myfun1))
5. └─base::apply(as.data.frame(X[[lv[i]]]), 1, myfun1)
6. └─dataquieR (local) FUN(newX[, i], ...)
7. ├─base::trimws(unlist(strsplit(as.character(x), split = ";"), "both"))
8. │ ├─base (local) mysub(...)
9. │ │ └─base::sub(re, "", x, perl = TRUE)
10. │ │ └─base::is.factor(x)
11. │ └─base (local) mysub(paste0("^", whitespace, "+"), x)
12. │ └─base::sub(re, "", x, perl = TRUE)
13. │ └─base::is.factor(x)
14. └─base::unlist(strsplit(as.character(x), split = ";"), "both")
[ FAIL 2 | WARN 0 | SKIP 231 | PASS 20 ]
Deleting unused snapshots:
• R4.3/acc_cat_distributions/acc-cat-distributions-education-1.svg
• R4.3/acc_distributions/empty-cat5.svg
• R4.3/acc_distributions/few-float-values.svg
• R4.3/acc_distributions/non-consecutive-codes-work.svg
• R4.3/acc_end_digits/enddigits-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-combined-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-with-covars-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-both-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-facets-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.3/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.3/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
• R4.3/acc_margins/margins-plot-for-crp-0-ok.svg
• R4.3/acc_multivariate_outlier/acc-mv-outliercrp0globheava0.svg
• R4.3/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
• R4.3/com_item_missingness/item-missingness-no-labels.svg
• R4.3/com_item_missingness/item-missingness-w-labels.svg
• R4.3/com_segment_missingness/segment-missingness-plot-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r1-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r2-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r3-ok.svg
• R4.3/con_contradictions/one-cat-contradiction-plot-ok.svg
• R4.3/con_contradictions/summary-contradiction-plot-ok.svg
• R4.3/con_contradictions_redcap/one-cat-contradiction-plot-ok.svg
• R4.3/con_contradictions_redcap/summary-contradiction-plot-ok.svg
• R4.3/con_limit_deviations/con-limit-deviations-4-hists-1-val.svg
• R4.3/con_limit_deviations/con-limit-deviations-for-reverted.svg
• R4.3/con_limit_deviations/con-limit-deviations-histgrms-misscds.svg
• R4.3/con_limit_deviations/con-limit-deviations-nothing-within.svg
• R4.3/con_limit_deviations/con-limit-deviations-reverse-w-1-0-max.svg
• R4.3/int_datatype_matrix/intdtpart-interview.svg
• R4.3/int_datatype_matrix/intdtpart-lab.svg
• R4.3/int_datatype_matrix/intdtpart-phys-exam.svg
• R4.3/int_datatype_matrix/intdtpart-questionnaire.svg
• R4.3/int_datatype_matrix/intdtpart-study.svg
• R4.3/int_datatype_matrix/integrity-datatype.svg
• R4.3/plots/acc-distributions-def-edu0.svg
• R4.3/plots/acc-distributions-gr-dbp0.svg
• R4.3/plots/acc-multivariate-outlier-test-1.svg
• R4.3/plots/acc-univariate-outlier-r-dbp-0.svg
• R4.3/plots/con-contradictions-all-checks.svg
• R4.3/plots/con-contradictions-by-tag.svg
• R4.3/plots/con-contradictions-logical-age-checks-only.svg
• R4.3/plots/con-contradictions-rc-all-checks.svg
• R4.3/plots/con-contradictions-rc-by-tag.svg
• R4.3/plots/con-contradictions-rc-logical-checks-only.svg
• R4.3/plots/con-limit-deviations-all-item.svg
• R4.3/plots/con-limit-deviations-all-quest-dt.svg
• R4.3/plots/con-limit-deviations-all-sbp-0.svg
• R4.3/plots/con-limit-deviations-low-item.svg
• R4.3/plots/con-limit-deviations-low-quest-dt.svg
• R4.3/plots/con-limit-deviations-low-sbp-0.svg
• R4.3/plots/con-limit-deviations-upp-item.svg
• R4.3/plots/con-limit-deviations-upp-quest-dt.svg
• R4.3/plots/con-limit-deviations-upp-sbp-0.svg
• R4.3/plots/empty-reportsummarytable.svg
• R4.3/plots/heatmap-with-1-cat-var.svg
• R4.3/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.3/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
• R4.3/plots/int-datatype-matrix-reportsummarytable.svg
• R4.3/plots/int-datatype-matrix-segment-v50000.svg
• R4.3/plots/int-datatype-matrix.svg
• R4.3/plots/loess-def-dbp0.svg
• R4.3/plots/loess-def-edu0.svg
• R4.3/plots/loess-fac-dbp0.svg
• R4.3/plots/loess-fac-edu0.svg
• R4.3/plots/margins-dbp0.svg
• R4.3/plots/margins-edu0.svg
• R4.3/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.3/plots/pro-applicability-matrix-segment-v50000.svg
• R4.3/plots/pro-applicability-matrix.svg
• R4.3/plots/reportsummarytable-cont.svg
• R4.3/plots/shape-or-scale-dbp0.svg
• R4.3/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.3/prep_render_pie_charts/com-item-missingness.svg
• R4.3/print/app-ex-repsumtab.svg
• R4.3/print/im-empty-repsumtab.svg
• R4.3/print/im-ex1-repsumtab.svg
• R4.3/print/im-ex2-repsumtab.svg
• R4.3/pro_applicability_matrix/appmatrix-plot-ok.svg
• R4.3/pro_applicability_matrix/appmatrix-segment-v10000.svg
• R4.3/util_heatmap_1th/util-heatmap-1th-1.svg
• R4.3/util_heatmap_1th/util-heatmap-1th-2.svg
• R4.3/util_heatmap_1th/util-heatmap-1th-3.svg
• R4.4/acc_cat_distributions/acc-cat-distributions-education-1.svg
• R4.4/acc_distributions/empty-cat5.svg
• R4.4/acc_distributions/few-float-values.svg
• R4.4/acc_distributions/non-consecutive-codes-work.svg
• R4.4/acc_end_digits/enddigits-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-combined-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-with-covars-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-both-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-facets-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.4/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.4/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
• R4.4/acc_margins/margins-plot-for-crp-0-ok.svg
• R4.4/acc_multivariate_outlier/acc-mv-outliercrp0globheava0.svg
• R4.4/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
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• R4.4/com_item_missingness/item-missingness-w-labels.svg
• R4.4/com_segment_missingness/segment-missingness-plot-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r1-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r2-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r3-ok.svg
• R4.4/con_contradictions/one-cat-contradiction-plot-ok.svg
• R4.4/con_contradictions/summary-contradiction-plot-ok.svg
• R4.4/con_contradictions_redcap/one-cat-contradiction-plot-ok.svg
• R4.4/con_contradictions_redcap/summary-contradiction-plot-ok.svg
• R4.4/con_limit_deviations/con-limit-deviations-4-hists-1-val.svg
• R4.4/con_limit_deviations/con-limit-deviations-for-reverted.svg
• R4.4/con_limit_deviations/con-limit-deviations-histgrms-misscds.svg
• R4.4/con_limit_deviations/con-limit-deviations-nothing-within.svg
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• R4.4/con_limit_deviations/con-limit-deviations-reverse-w-1-0-max.svg
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• R4.4/int_datatype_matrix/intdtpart-lab.svg
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• R4.4/int_datatype_matrix/intdtpart-study.svg
• R4.4/int_datatype_matrix/integrity-datatype.svg
• R4.4/plots/acc-distributions-def-edu0.svg
• R4.4/plots/acc-distributions-gr-dbp0.svg
• R4.4/plots/acc-multivariate-outlier-test-1.svg
• R4.4/plots/acc-univariate-outlier-r-dbp-0.svg
• R4.4/plots/con-contradictions-all-checks.svg
• R4.4/plots/con-contradictions-by-tag.svg
• R4.4/plots/con-contradictions-logical-age-checks-only.svg
• R4.4/plots/con-contradictions-rc-all-checks.svg
• R4.4/plots/con-contradictions-rc-by-tag.svg
• R4.4/plots/con-contradictions-rc-logical-checks-only.svg
• R4.4/plots/con-limit-deviations-all-item.svg
• R4.4/plots/con-limit-deviations-all-quest-dt.svg
• R4.4/plots/con-limit-deviations-all-sbp-0.svg
• R4.4/plots/con-limit-deviations-low-item.svg
• R4.4/plots/con-limit-deviations-low-quest-dt.svg
• R4.4/plots/con-limit-deviations-low-sbp-0.svg
• R4.4/plots/con-limit-deviations-upp-item.svg
• R4.4/plots/con-limit-deviations-upp-quest-dt.svg
• R4.4/plots/con-limit-deviations-upp-sbp-0.svg
• R4.4/plots/empty-reportsummarytable.svg
• R4.4/plots/heatmap-with-1-cat-var.svg
• R4.4/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.4/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
• R4.4/plots/int-datatype-matrix-reportsummarytable.svg
• R4.4/plots/int-datatype-matrix-segment-v50000.svg
• R4.4/plots/int-datatype-matrix.svg
• R4.4/plots/loess-def-dbp0.svg
• R4.4/plots/loess-def-edu0.svg
• R4.4/plots/loess-fac-dbp0.svg
• R4.4/plots/loess-fac-edu0.svg
• R4.4/plots/margins-dbp0.svg
• R4.4/plots/margins-edu0.svg
• R4.4/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.4/plots/pro-applicability-matrix-segment-v50000.svg
• R4.4/plots/pro-applicability-matrix.svg
• R4.4/plots/reportsummarytable-cont.svg
• R4.4/plots/shape-or-scale-dbp0.svg
• R4.4/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.4/prep_render_pie_charts/com-item-missingness.svg
• R4.4/print/app-ex-repsumtab.svg
• R4.4/print/im-empty-repsumtab.svg
• R4.4/print/im-ex1-repsumtab.svg
• R4.4/print/im-ex2-repsumtab.svg
• R4.4/pro_applicability_matrix/appmatrix-plot-ok.svg
• R4.4/pro_applicability_matrix/appmatrix-segment-v10000.svg
• R4.4/util_heatmap_1th/util-heatmap-1th-1.svg
• R4.4/util_heatmap_1th/util-heatmap-1th-2.svg
• R4.4/util_heatmap_1th/util-heatmap-1th-3.svg
• R4.5/acc_cat_distributions/acc-cat-distributions-education-1.svg
• R4.5/acc_distributions/empty-cat5.svg
• R4.5/acc_distributions/few-float-values.svg
• R4.5/acc_distributions/non-consecutive-codes-work.svg
• R4.5/acc_end_digits/enddigits-plot-for-crp-0-ok.svg
• R4.5/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
• R4.5/acc_loess/loess-combined-plot-for-crp-0-combined-ok.svg
• R4.5/acc_loess/loess-combined-plot-for-crp-0-ok.svg
• R4.5/acc_loess/loess-combined-plot-for-crp-0-with-covars-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-both-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-facets-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.5/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.5/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
• R4.5/acc_margins/margins-plot-for-crp-0-ok.svg
• R4.5/acc_multivariate_outlier/acc-mv-outliercrp0globheava0.svg
• R4.5/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
• R4.5/com_item_missingness/item-missingness-no-labels.svg
• R4.5/com_item_missingness/item-missingness-w-labels.svg
• R4.5/com_segment_missingness/segment-missingness-plot-ok.svg
• R4.5/com_segment_missingness/segment-missingness-plot-r1-ok.svg
• R4.5/com_segment_missingness/segment-missingness-plot-r2-ok.svg
• R4.5/com_segment_missingness/segment-missingness-plot-r3-ok.svg
• R4.5/con_contradictions/one-cat-contradiction-plot-ok.svg
• R4.5/con_contradictions/summary-contradiction-plot-ok.svg
• R4.5/con_contradictions_redcap/one-cat-contradiction-plot-ok.svg
• R4.5/con_contradictions_redcap/summary-contradiction-plot-ok.svg
• R4.5/con_limit_deviations/con-limit-deviations-4-hists-1-val.svg
• R4.5/con_limit_deviations/con-limit-deviations-for-reverted.svg
• R4.5/con_limit_deviations/con-limit-deviations-histgrms-misscds.svg
• R4.5/con_limit_deviations/con-limit-deviations-nothing-within.svg
• R4.5/con_limit_deviations/con-limit-deviations-quest-dt-0.svg
• R4.5/con_limit_deviations/con-limit-deviations-reverse-w-1-0-max.svg
• R4.5/int_datatype_matrix/intdtpart-interview.svg
• R4.5/int_datatype_matrix/intdtpart-lab.svg
• R4.5/int_datatype_matrix/intdtpart-phys-exam.svg
• R4.5/int_datatype_matrix/intdtpart-questionnaire.svg
• R4.5/int_datatype_matrix/intdtpart-study.svg
• R4.5/int_datatype_matrix/integrity-datatype.svg
• R4.5/plots/acc-distributions-def-edu0.svg
• R4.5/plots/acc-distributions-gr-dbp0.svg
• R4.5/plots/acc-multivariate-outlier-test-1.svg
• R4.5/plots/acc-univariate-outlier-r-dbp-0.svg
• R4.5/plots/con-contradictions-all-checks.svg
• R4.5/plots/con-contradictions-by-tag.svg
• R4.5/plots/con-contradictions-logical-age-checks-only.svg
• R4.5/plots/con-contradictions-rc-all-checks.svg
• R4.5/plots/con-contradictions-rc-by-tag.svg
• R4.5/plots/con-contradictions-rc-logical-checks-only.svg
• R4.5/plots/con-limit-deviations-all-item.svg
• R4.5/plots/con-limit-deviations-all-quest-dt.svg
• R4.5/plots/con-limit-deviations-all-sbp-0.svg
• R4.5/plots/con-limit-deviations-low-item.svg
• R4.5/plots/con-limit-deviations-low-quest-dt.svg
• R4.5/plots/con-limit-deviations-low-sbp-0.svg
• R4.5/plots/con-limit-deviations-upp-item.svg
• R4.5/plots/con-limit-deviations-upp-quest-dt.svg
• R4.5/plots/con-limit-deviations-upp-sbp-0.svg
• R4.5/plots/empty-reportsummarytable.svg
• R4.5/plots/heatmap-with-1-cat-var.svg
• R4.5/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.5/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
• R4.5/plots/int-datatype-matrix-reportsummarytable.svg
• R4.5/plots/int-datatype-matrix-segment-v50000.svg
• R4.5/plots/int-datatype-matrix.svg
• R4.5/plots/loess-def-dbp0.svg
• R4.5/plots/loess-def-edu0.svg
• R4.5/plots/loess-fac-dbp0.svg
• R4.5/plots/loess-fac-edu0.svg
• R4.5/plots/margins-dbp0.svg
• R4.5/plots/margins-edu0.svg
• R4.5/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.5/plots/pro-applicability-matrix-segment-v50000.svg
• R4.5/plots/pro-applicability-matrix.svg
• R4.5/plots/reportsummarytable-cont.svg
• R4.5/plots/shape-or-scale-dbp0.svg
• R4.5/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.5/prep_render_pie_charts/com-item-missingness.svg
• R4.5/print/app-ex-repsumtab.svg
• R4.5/print/im-empty-repsumtab.svg
• R4.5/print/im-ex1-repsumtab.svg
• R4.5/print/im-ex2-repsumtab.svg
• R4.5/pro_applicability_matrix/appmatrix-plot-ok.svg
• R4.5/pro_applicability_matrix/appmatrix-segment-v10000.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-1.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-2.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-3.svg
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 2.5.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [108s/161s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # options("testthat.default_reporter" = testthat::RStudioReporter)
> library(dataquieR)
> testthat::test_check("dataquieR")
Starting 2 test processes
[ FAIL 2 | WARN 0 | SKIP 231 | PASS 20 ]
══ Skipped tests (231) ═════════════════════════════════════════════════════════
• On CRAN (231): 'test-dq_report_by_sm.R:7:3', 'test-dq_report2.R:2:3',
'test-dq_report_by_arguments.R:7:3', 'test-dq_report_by_s.R:3:3',
'test-int_encoding_errors.R:2:3', 'test-int_encoding_errors.R:80:3',
'test-dq_report_by_pipesymbol_list.R:3:3', 'test-dq_report_by_m.R:3:3',
'test-plots.R:2:3', 'test-plots.R:33:3', 'test-plots.R:102:3',
'test-plots.R:144:3', 'test-plots.R:167:3', 'test-plots.R:185:3',
'test-plots.R:210:3', 'test-plots.R:271:3', 'test-plots.R:301:3',
'test-plots.R:400:3', 'test-plots.R:453:3', 'test-plots.R:483:3',
'test-com_item_missingness.R:2:3', 'test-dq_report_by_na.R:3:3',
'test-dq_report_by_directories.R:3:3', 'test-acc_loess.R:2:3',
'test-acc_loess.R:273:3', 'test-acc_loess.R:438:3', 'test-acc_loess.R:521:3',
'test-acc_loess.R:565:3', 'test-acc_loess.R:681:3', 'test-acc_loess.R:886:3',
'test-acc_loess.R:949:3', 'test-acc_loess.R:993:3',
'test-acc_loess.R:1037:3', 'test-acc_loess.R:1083:3',
'test-acc_loess.R:1116:3', 'test-acc_loess.R:1149:3',
'test-acc_loess.R:1207:3', 'test-con_contradictions_redcap.R:2:3',
'test-con_contradictions_redcap.R:59:3',
'test-con_contradictions_redcap.R:108:3',
'test-con_contradictions_redcap.R:182:3',
'test-com_segment_missingness.R:2:3', 'test-com_segment_missingness.R:221:3',
'test-util_correct_variable_use.R:2:3', 'test-000_globs.R:3:3',
'test-acc_cat_distributions.R:2:3', 'test-con_limit_deviations.R:2:3',
'test-con_limit_deviations.R:47:3', 'test-con_limit_deviations.R:101:3',
'test-con_limit_deviations.R:160:3', 'test-con_limit_deviations.R:240:3',
'test-con_limit_deviations.R:288:3', 'test-con_limit_deviations.R:336:3',
'test-con_limit_deviations.R:384:3', 'test-con_limit_deviations.R:440:3',
'test-con_limit_deviations.R:531:3', 'test-con_limit_deviations.R:567:3',
'test-con_limit_deviations.R:602:3', 'test-con_limit_deviations.R:642:3',
'test-acc_distributions_ecdf.R:2:3', 'test-acc_distributions.R:2:3',
'test-acc_distributions.R:93:3', 'test-acc_distributions.R:114:3',
'test-acc_distributions.R:138:3', 'test-acc_margins.R:2:3',
'test-acc_margins.R:248:3', 'test-acc_end_digits.R:2:3',
'test-acc_end_digits.R:45:3', 'test-acc_end_digits.R:81:3',
'test-acc_end_digits.R:109:3', 'test-acc_multivariate_outlier.R:2:3',
'test-acc_multivariate_outlier.R:60:3',
'test-acc_multivariate_outlier.R:127:3', 'test-acc_shape_or_scale.R:2:3',
'test-acc_shape_or_scale.R:243:3', 'test-acc_univariate_outlier.R:2:3',
'test-acc_univariate_outlier.R:135:3', 'test-acc_varcomp.R:2:3',
'test-acc_varcomp.R:52:3', 'test-acc_varcomp.R:88:3',
'test-acc_varcomp.R:134:3', 'test-acc_varcomp.R:174:3',
'test-acc_varcomp2.R:2:3', 'test-com_qualified_item_missingness.R:2:3',
'test-com_unit_missingness.R:2:3',
'test-com_qualified_segment_missingness.R:2:3',
'test-com_qualified_segment_missingness.R:32:3',
'test-con_contradictions.R:2:3', 'test-con_inadmissible_categorical.R:2:3',
'test-dataquieR_resultset.R:2:3', 'test-des_summary.R:7:3',
'test-dataquieR_resultset2.R:2:3', 'test-dq_report_by_sb.R:7:3',
'test-dq_report_by_respvars.R:3:3', 'test-dq_report_by_storr.R:2:3',
'test-get_internal_api.R:2:3', 'test-function_arguments.R:2:3',
'test-function_arguments.R:61:3', 'test-function_arguments.R:88:3',
'test-int_datatype_matrix.R:2:3', 'test-int_unexp_elements.R:2:3',
'test-int_sts_element_dataframe.R:2:3', 'test-int_unexp_records.R:2:3',
'test-int_unexp_records_set.R:2:3', 'test-meta_data_env.R:2:3',
'test-prep_acc_distributions_with_ecdf.R:2:3', 'test-nres.R:2:3',
'test-prep_add_to_meta.R:2:3', 'test-prep_apply_coding.R:2:3',
'test-prep_check_meta_names.R:2:3', 'test-prep_clean_labels.R:2:3',
'test-prep_combine_report_summaries.R:2:3',
'test-prep_compare_meta_with_study.R:2:3', 'test-prep_create_meta.R:2:3',
'test-prep_create_meta_data_file.R:2:3',
'test-prep_datatype_from_data.R:2:3', 'test-prep_datatype_from_data.R:39:3',
'test-prep_dq_data_type_of.R:2:3', 'test-prep_get_data_frame.R:2:3',
'test-prep_get_study_data_segment.R:2:3',
'test-prep_load_folder_with_metadata.R:2:3', 'test-prep_map_labels.R:2:3',
'test-prep_min_obs_level.R:2:3', 'test-prep_pmap.R:2:3',
'test-prep_prepare_dataframes.R:2:3', 'test-prep_render_pie_charts.R:2:3',
'test-prep_save_report.R:2:3', 'test-prep_title_escape.R:2:3',
'test-prep_study2meta.R:2:3', 'test-prep_study2meta.R:57:3',
'test-prep_study2meta.R:132:3', 'test-prep_undisclose.R:2:3',
'test-prep_valuelabels_from_data.R:2:3',
'test-pro_applicability_matrix.R:2:3', 'test-print.R:2:3',
'test-print.R:14:3', 'test-print.R:170:3', 'test-print.R:213:3',
'test-rbind.R:2:3', 'test-reflection.R:2:3', 'test-util_acc_loess_bin.R:2:3',
'test-util_app_cd.R:2:3', 'test-util_app_dc.R:2:3', 'test-util_app_dl.R:2:3',
'test-util_app_ed.R:2:3', 'test-util_app_iac.R:2:3',
'test-util_app_hl.R:2:3', 'test-util_app_im.R:2:3',
'test-util_app_iav.R:2:3', 'test-util_app_loess.R:2:3',
'test-util_app_mar.R:2:3', 'test-util_app_mol.R:2:3',
'test-util_app_ol.R:2:3', 'test-util_app_sl.R:2:3', 'test-util_app_sm.R:2:3',
'test-util_app_vc.R:2:3', 'test-util_app_sos.R:2:3',
'test-util_as_numeric.R:2:3', 'test-util_assign_levlabs.R:2:3',
'test-util_backtickQuote.R:2:3', 'test-util_check_data_type.R:2:3',
'test-util_check_group_levels.R:2:3',
'test-util_check_one_unique_value.R:2:3',
'test-util_compare_meta_with_study.R:2:3',
'test-util_combine_missing_lists.R:2:3', 'test-util_detect_cores.R:2:3',
'test-util_dichotomize.R:2:3', 'test-util_dichotomize.R:49:3',
'test-util_dist_selection.R:2:3', 'test-util_ds1_eval_env.R:2:3',
'test-util_empty.R:2:3', 'test-util_contradiction_rules.R:32:3',
'test-util_contradiction_rules.R:41:3',
'test-util_contradiction_rules.R:72:3',
'test-util_contradiction_rules.R:107:3',
'test-util_contradiction_rules.R:142:3',
'test-util_contradiction_rules.R:189:3',
'test-util_contradiction_rules.R:204:3',
'test-util_contradiction_rules.R:223:3',
'test-util_contradiction_rules.R:235:3',
'test-util_contradiction_rules.R:247:3', 'test-util_ensure_character.R:2:3',
'test-util_ensure_suggested.R:2:3', 'test-util_error.R:2:3',
'test-util_finalize_sizing_hints.R:2:3',
'test-util_find_external_functions_in_stacktrace.R:2:3',
'test-util_find_external_functions_in_stacktrace.R:26:3',
'test-util_find_first_externally_called_functions_in_stacktrace.R:2:3',
'test-util_find_free_missing_code.R:2:3',
'test-util_has_no_group_vars.R:2:3', 'test-util_get_code_list.R:2:3',
'test-util_get_code_list.R:88:3', 'test-util_get_code_list.R:117:3',
'test-util_heatmap_1th.R:2:3', 'test-util_html_attr_quote_escape.R:2:3',
'test-util_is_valid_missing_codes.R:2:3',
'test-util_looks_like_missing.R:2:3', 'test-util_map_all.R:2:3',
'test-util_interpret_limits.R:2:3', 'test-util_map_by_largest_prefix.R:2:3',
'test-util_no_value_labels.R:2:3', 'test-util_map_labels.R:2:3',
'test-util_observations_in_subgroups.R:2:3',
'test-util_parallel_futures.R:4:3', 'test-util_par_pmap.R:2:3',
'test-util_parse_assignments.R:2:3', 'test-util_parse_assignments.R:18:3',
'test-util_parse_redcap_rule.R:2:3', 'test-util_plot_figure_no_plotly.R:2:3',
'test-util_plot_categorical_vars.R:2:3',
'test-util_plot_categorical_vars.R:55:3',
'test-util_plot_figure_plotly.R:2:3', 'test-util_queue_cluster.R:2:3',
'test-util_remove_empty_rows.R:2:3', 'test-util_remove_na_records.R:2:3',
'test-util_render_table_dataquieR_summary.R:7:3',
'test-util_replace_codes_by_na.R:2:3', 'test-util_set_doublequotes.R:2:3',
'test-util_set_singlequotes.R:2:3', 'test-util_set_size.R:2:3',
'test-util_split_val_tab.R:2:3', 'test-util_split_val_tab.R:68:3',
'test-util_startsWith_prefix._or_equals_prefix.R:2:3',
'test-util_standardise_ordinal_codes.R:2:3', 'test-util_unit2baseunit.R:2:3',
'test-util_user_hint.R:2:3', 'test-util_validate_known_meta.R:2:3',
'test-util_varcomp_robust.R:2:3', 'test-util_warn_unordered.R:3:3',
'test-util_warning.R:2:3', 'test-util_warning.R:48:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-prep_add_missing_codes.R:8:4'): prep_add_missing_codes works ───
Error in `islistfactor(x, recursive)`: NA in coercion to Rboolean
Backtrace:
▆
1. └─dataquieR::prep_add_missing_codes(...) at test-prep_add_missing_codes.R:8:4
2. └─dataquieR::prep_prepare_dataframes(...)
3. └─dataquieR:::util_validate_known_meta(meta_data)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::withCallingHandlers(...)
9. └─dataquieR:::util_interpret_limits(mdata = meta_data)
10. ├─base::cbind.data.frame(...)
11. │ └─base::data.frame(..., check.names = FALSE)
12. ├─base::t(apply(as.data.frame(X[[lv[i]]]), 1, myfun1))
13. └─base::apply(as.data.frame(X[[lv[i]]]), 1, myfun1)
14. └─dataquieR (local) FUN(newX[, i], ...)
15. ├─base::trimws(unlist(strsplit(as.character(x), split = ";"), "both"))
16. │ ├─base (local) mysub(...)
17. │ │ └─base::sub(re, "", x, perl = TRUE)
18. │ │ └─base::is.factor(x)
19. │ └─base (local) mysub(paste0("^", whitespace, "+"), x)
20. │ └─base::sub(re, "", x, perl = TRUE)
21. │ └─base::is.factor(x)
22. └─base::unlist(strsplit(as.character(x), split = ";"), "both")
── Error ('test-util_interpret_limits.R:45:3'): util_interpret_limits works ────
Error in `islistfactor(x, recursive)`: NA in coercion to Rboolean
Backtrace:
▆
1. └─dataquieR:::util_interpret_limits(meta) at test-util_interpret_limits.R:45:3
2. ├─base::cbind.data.frame(...)
3. │ └─base::data.frame(..., check.names = FALSE)
4. ├─base::t(apply(as.data.frame(X[[lv[i]]]), 1, myfun1))
5. └─base::apply(as.data.frame(X[[lv[i]]]), 1, myfun1)
6. └─dataquieR (local) FUN(newX[, i], ...)
7. ├─base::trimws(unlist(strsplit(as.character(x), split = ";"), "both"))
8. │ ├─base (local) mysub(...)
9. │ │ └─base::sub(re, "", x, perl = TRUE)
10. │ │ └─base::is.factor(x)
11. │ └─base (local) mysub(paste0("^", whitespace, "+"), x)
12. │ └─base::sub(re, "", x, perl = TRUE)
13. │ └─base::is.factor(x)
14. └─base::unlist(strsplit(as.character(x), split = ";"), "both")
[ FAIL 2 | WARN 0 | SKIP 231 | PASS 20 ]
Deleting unused snapshots:
• R4.3/acc_cat_distributions/acc-cat-distributions-education-1.svg
• R4.3/acc_distributions/empty-cat5.svg
• R4.3/acc_distributions/few-float-values.svg
• R4.3/acc_distributions/non-consecutive-codes-work.svg
• R4.3/acc_end_digits/enddigits-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-combined-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-with-covars-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-both-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-facets-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.3/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.3/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
• R4.3/acc_margins/margins-plot-for-crp-0-ok.svg
• R4.3/acc_multivariate_outlier/acc-mv-outliercrp0globheava0.svg
• R4.3/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
• R4.3/com_item_missingness/item-missingness-no-labels.svg
• R4.3/com_item_missingness/item-missingness-w-labels.svg
• R4.3/com_segment_missingness/segment-missingness-plot-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r1-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r2-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r3-ok.svg
• R4.3/con_contradictions/one-cat-contradiction-plot-ok.svg
• R4.3/con_contradictions/summary-contradiction-plot-ok.svg
• R4.3/con_contradictions_redcap/one-cat-contradiction-plot-ok.svg
• R4.3/con_contradictions_redcap/summary-contradiction-plot-ok.svg
• R4.3/con_limit_deviations/con-limit-deviations-4-hists-1-val.svg
• R4.3/con_limit_deviations/con-limit-deviations-for-reverted.svg
• R4.3/con_limit_deviations/con-limit-deviations-histgrms-misscds.svg
• R4.3/con_limit_deviations/con-limit-deviations-nothing-within.svg
• R4.3/con_limit_deviations/con-limit-deviations-reverse-w-1-0-max.svg
• R4.3/int_datatype_matrix/intdtpart-interview.svg
• R4.3/int_datatype_matrix/intdtpart-lab.svg
• R4.3/int_datatype_matrix/intdtpart-phys-exam.svg
• R4.3/int_datatype_matrix/intdtpart-questionnaire.svg
• R4.3/int_datatype_matrix/intdtpart-study.svg
• R4.3/int_datatype_matrix/integrity-datatype.svg
• R4.3/plots/acc-distributions-def-edu0.svg
• R4.3/plots/acc-distributions-gr-dbp0.svg
• R4.3/plots/acc-multivariate-outlier-test-1.svg
• R4.3/plots/acc-univariate-outlier-r-dbp-0.svg
• R4.3/plots/con-contradictions-all-checks.svg
• R4.3/plots/con-contradictions-by-tag.svg
• R4.3/plots/con-contradictions-logical-age-checks-only.svg
• R4.3/plots/con-contradictions-rc-all-checks.svg
• R4.3/plots/con-contradictions-rc-by-tag.svg
• R4.3/plots/con-contradictions-rc-logical-checks-only.svg
• R4.3/plots/con-limit-deviations-all-item.svg
• R4.3/plots/con-limit-deviations-all-quest-dt.svg
• R4.3/plots/con-limit-deviations-all-sbp-0.svg
• R4.3/plots/con-limit-deviations-low-item.svg
• R4.3/plots/con-limit-deviations-low-quest-dt.svg
• R4.3/plots/con-limit-deviations-low-sbp-0.svg
• R4.3/plots/con-limit-deviations-upp-item.svg
• R4.3/plots/con-limit-deviations-upp-quest-dt.svg
• R4.3/plots/con-limit-deviations-upp-sbp-0.svg
• R4.3/plots/empty-reportsummarytable.svg
• R4.3/plots/heatmap-with-1-cat-var.svg
• R4.3/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.3/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
• R4.3/plots/int-datatype-matrix-reportsummarytable.svg
• R4.3/plots/int-datatype-matrix-segment-v50000.svg
• R4.3/plots/int-datatype-matrix.svg
• R4.3/plots/loess-def-dbp0.svg
• R4.3/plots/loess-def-edu0.svg
• R4.3/plots/loess-fac-dbp0.svg
• R4.3/plots/loess-fac-edu0.svg
• R4.3/plots/margins-dbp0.svg
• R4.3/plots/margins-edu0.svg
• R4.3/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.3/plots/pro-applicability-matrix-segment-v50000.svg
• R4.3/plots/pro-applicability-matrix.svg
• R4.3/plots/reportsummarytable-cont.svg
• R4.3/plots/shape-or-scale-dbp0.svg
• R4.3/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.3/prep_render_pie_charts/com-item-missingness.svg
• R4.3/print/app-ex-repsumtab.svg
• R4.3/print/im-empty-repsumtab.svg
• R4.3/print/im-ex1-repsumtab.svg
• R4.3/print/im-ex2-repsumtab.svg
• R4.3/pro_applicability_matrix/appmatrix-plot-ok.svg
• R4.3/pro_applicability_matrix/appmatrix-segment-v10000.svg
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• R4.3/util_heatmap_1th/util-heatmap-1th-2.svg
• R4.3/util_heatmap_1th/util-heatmap-1th-3.svg
• R4.4/acc_cat_distributions/acc-cat-distributions-education-1.svg
• R4.4/acc_distributions/empty-cat5.svg
• R4.4/acc_distributions/few-float-values.svg
• R4.4/acc_distributions/non-consecutive-codes-work.svg
• R4.4/acc_end_digits/enddigits-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-combined-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-with-covars-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-both-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-facets-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.4/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.4/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
• R4.4/acc_margins/margins-plot-for-crp-0-ok.svg
• R4.4/acc_multivariate_outlier/acc-mv-outliercrp0globheava0.svg
• R4.4/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
• R4.4/com_item_missingness/item-missingness-no-labels.svg
• R4.4/com_item_missingness/item-missingness-w-labels.svg
• R4.4/com_segment_missingness/segment-missingness-plot-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r1-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r2-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r3-ok.svg
• R4.4/con_contradictions/one-cat-contradiction-plot-ok.svg
• R4.4/con_contradictions/summary-contradiction-plot-ok.svg
• R4.4/con_contradictions_redcap/one-cat-contradiction-plot-ok.svg
• R4.4/con_contradictions_redcap/summary-contradiction-plot-ok.svg
• R4.4/con_limit_deviations/con-limit-deviations-4-hists-1-val.svg
• R4.4/con_limit_deviations/con-limit-deviations-for-reverted.svg
• R4.4/con_limit_deviations/con-limit-deviations-histgrms-misscds.svg
• R4.4/con_limit_deviations/con-limit-deviations-nothing-within.svg
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• R4.4/con_limit_deviations/con-limit-deviations-reverse-w-1-0-max.svg
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• R4.4/int_datatype_matrix/intdtpart-lab.svg
• R4.4/int_datatype_matrix/intdtpart-phys-exam.svg
• R4.4/int_datatype_matrix/intdtpart-questionnaire.svg
• R4.4/int_datatype_matrix/intdtpart-study.svg
• R4.4/int_datatype_matrix/integrity-datatype.svg
• R4.4/plots/acc-distributions-def-edu0.svg
• R4.4/plots/acc-distributions-gr-dbp0.svg
• R4.4/plots/acc-multivariate-outlier-test-1.svg
• R4.4/plots/acc-univariate-outlier-r-dbp-0.svg
• R4.4/plots/con-contradictions-all-checks.svg
• R4.4/plots/con-contradictions-by-tag.svg
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• R4.4/plots/con-contradictions-rc-logical-checks-only.svg
• R4.4/plots/con-limit-deviations-all-item.svg
• R4.4/plots/con-limit-deviations-all-quest-dt.svg
• R4.4/plots/con-limit-deviations-all-sbp-0.svg
• R4.4/plots/con-limit-deviations-low-item.svg
• R4.4/plots/con-limit-deviations-low-quest-dt.svg
• R4.4/plots/con-limit-deviations-low-sbp-0.svg
• R4.4/plots/con-limit-deviations-upp-item.svg
• R4.4/plots/con-limit-deviations-upp-quest-dt.svg
• R4.4/plots/con-limit-deviations-upp-sbp-0.svg
• R4.4/plots/empty-reportsummarytable.svg
• R4.4/plots/heatmap-with-1-cat-var.svg
• R4.4/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.4/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
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• R4.4/plots/int-datatype-matrix-segment-v50000.svg
• R4.4/plots/int-datatype-matrix.svg
• R4.4/plots/loess-def-dbp0.svg
• R4.4/plots/loess-def-edu0.svg
• R4.4/plots/loess-fac-dbp0.svg
• R4.4/plots/loess-fac-edu0.svg
• R4.4/plots/margins-dbp0.svg
• R4.4/plots/margins-edu0.svg
• R4.4/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.4/plots/pro-applicability-matrix-segment-v50000.svg
• R4.4/plots/pro-applicability-matrix.svg
• R4.4/plots/reportsummarytable-cont.svg
• R4.4/plots/shape-or-scale-dbp0.svg
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• R4.4/prep_render_pie_charts/com-item-missingness.svg
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• R4.4/print/im-empty-repsumtab.svg
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• R4.5/acc_distributions/non-consecutive-codes-work.svg
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• R4.5/acc_loess/loess-combined-plot-for-crp-0-combined-ok.svg
• R4.5/acc_loess/loess-combined-plot-for-crp-0-ok.svg
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• R4.5/acc_loess/loess-facets-plot-for-crp-0-facets-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.5/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.5/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
• R4.5/acc_margins/margins-plot-for-crp-0-ok.svg
• R4.5/acc_multivariate_outlier/acc-mv-outliercrp0globheava0.svg
• R4.5/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
• R4.5/com_item_missingness/item-missingness-no-labels.svg
• R4.5/com_item_missingness/item-missingness-w-labels.svg
• R4.5/com_segment_missingness/segment-missingness-plot-ok.svg
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• R4.5/com_segment_missingness/segment-missingness-plot-r2-ok.svg
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• R4.5/con_contradictions_redcap/summary-contradiction-plot-ok.svg
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• R4.5/int_datatype_matrix/intdtpart-study.svg
• R4.5/int_datatype_matrix/integrity-datatype.svg
• R4.5/plots/acc-distributions-def-edu0.svg
• R4.5/plots/acc-distributions-gr-dbp0.svg
• R4.5/plots/acc-multivariate-outlier-test-1.svg
• R4.5/plots/acc-univariate-outlier-r-dbp-0.svg
• R4.5/plots/con-contradictions-all-checks.svg
• R4.5/plots/con-contradictions-by-tag.svg
• R4.5/plots/con-contradictions-logical-age-checks-only.svg
• R4.5/plots/con-contradictions-rc-all-checks.svg
• R4.5/plots/con-contradictions-rc-by-tag.svg
• R4.5/plots/con-contradictions-rc-logical-checks-only.svg
• R4.5/plots/con-limit-deviations-all-item.svg
• R4.5/plots/con-limit-deviations-all-quest-dt.svg
• R4.5/plots/con-limit-deviations-all-sbp-0.svg
• R4.5/plots/con-limit-deviations-low-item.svg
• R4.5/plots/con-limit-deviations-low-quest-dt.svg
• R4.5/plots/con-limit-deviations-low-sbp-0.svg
• R4.5/plots/con-limit-deviations-upp-item.svg
• R4.5/plots/con-limit-deviations-upp-quest-dt.svg
• R4.5/plots/con-limit-deviations-upp-sbp-0.svg
• R4.5/plots/empty-reportsummarytable.svg
• R4.5/plots/heatmap-with-1-cat-var.svg
• R4.5/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.5/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
• R4.5/plots/int-datatype-matrix-reportsummarytable.svg
• R4.5/plots/int-datatype-matrix-segment-v50000.svg
• R4.5/plots/int-datatype-matrix.svg
• R4.5/plots/loess-def-dbp0.svg
• R4.5/plots/loess-def-edu0.svg
• R4.5/plots/loess-fac-dbp0.svg
• R4.5/plots/loess-fac-edu0.svg
• R4.5/plots/margins-dbp0.svg
• R4.5/plots/margins-edu0.svg
• R4.5/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.5/plots/pro-applicability-matrix-segment-v50000.svg
• R4.5/plots/pro-applicability-matrix.svg
• R4.5/plots/reportsummarytable-cont.svg
• R4.5/plots/shape-or-scale-dbp0.svg
• R4.5/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.5/prep_render_pie_charts/com-item-missingness.svg
• R4.5/print/app-ex-repsumtab.svg
• R4.5/print/im-empty-repsumtab.svg
• R4.5/print/im-ex1-repsumtab.svg
• R4.5/print/im-ex2-repsumtab.svg
• R4.5/pro_applicability_matrix/appmatrix-plot-ok.svg
• R4.5/pro_applicability_matrix/appmatrix-segment-v10000.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-1.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-2.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-3.svg
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 2.5.0
Check: tests
Result: ERROR
Running 'testthat.R' [38s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> # options("testthat.default_reporter" = testthat::RStudioReporter)
> library(dataquieR)
> testthat::test_check("dataquieR")
Starting 2 test processes
[ FAIL 2 | WARN 0 | SKIP 231 | PASS 20 ]
══ Skipped tests (231) ═════════════════════════════════════════════════════════
• On CRAN (231): 'test-dq_report_by_sm.R:7:3', 'test-dq_report2.R:2:3',
'test-dq_report_by_arguments.R:7:3', 'test-dq_report_by_s.R:3:3',
'test-int_encoding_errors.R:2:3', 'test-int_encoding_errors.R:80:3',
'test-dq_report_by_pipesymbol_list.R:3:3', 'test-dq_report_by_m.R:3:3',
'test-plots.R:2:3', 'test-plots.R:33:3', 'test-plots.R:102:3',
'test-plots.R:144:3', 'test-plots.R:167:3', 'test-plots.R:185:3',
'test-plots.R:210:3', 'test-plots.R:271:3', 'test-plots.R:301:3',
'test-plots.R:400:3', 'test-plots.R:453:3', 'test-plots.R:483:3',
'test-com_item_missingness.R:2:3', 'test-dq_report_by_na.R:3:3',
'test-dq_report_by_directories.R:3:3', 'test-acc_loess.R:2:3',
'test-acc_loess.R:273:3', 'test-acc_loess.R:438:3', 'test-acc_loess.R:521:3',
'test-acc_loess.R:565:3', 'test-acc_loess.R:681:3', 'test-acc_loess.R:886:3',
'test-acc_loess.R:949:3', 'test-acc_loess.R:993:3',
'test-acc_loess.R:1037:3', 'test-acc_loess.R:1083:3',
'test-acc_loess.R:1116:3', 'test-acc_loess.R:1149:3',
'test-acc_loess.R:1207:3', 'test-con_contradictions_redcap.R:2:3',
'test-con_contradictions_redcap.R:59:3',
'test-con_contradictions_redcap.R:108:3',
'test-con_contradictions_redcap.R:182:3',
'test-com_segment_missingness.R:2:3', 'test-com_segment_missingness.R:221:3',
'test-util_correct_variable_use.R:2:3', 'test-con_limit_deviations.R:2:3',
'test-con_limit_deviations.R:47:3', 'test-con_limit_deviations.R:101:3',
'test-con_limit_deviations.R:160:3', 'test-con_limit_deviations.R:240:3',
'test-con_limit_deviations.R:288:3', 'test-con_limit_deviations.R:336:3',
'test-con_limit_deviations.R:384:3', 'test-con_limit_deviations.R:440:3',
'test-con_limit_deviations.R:531:3', 'test-con_limit_deviations.R:567:3',
'test-con_limit_deviations.R:602:3', 'test-con_limit_deviations.R:642:3',
'test-acc_cat_distributions.R:2:3', 'test-000_globs.R:3:3',
'test-acc_distributions_ecdf.R:2:3', 'test-acc_distributions.R:2:3',
'test-acc_distributions.R:93:3', 'test-acc_distributions.R:114:3',
'test-acc_distributions.R:138:3', 'test-acc_margins.R:2:3',
'test-acc_margins.R:248:3', 'test-acc_end_digits.R:2:3',
'test-acc_end_digits.R:45:3', 'test-acc_end_digits.R:81:3',
'test-acc_end_digits.R:109:3', 'test-acc_shape_or_scale.R:2:3',
'test-acc_shape_or_scale.R:243:3', 'test-acc_multivariate_outlier.R:2:3',
'test-acc_multivariate_outlier.R:60:3',
'test-acc_multivariate_outlier.R:127:3', 'test-acc_univariate_outlier.R:2:3',
'test-acc_univariate_outlier.R:135:3', 'test-acc_varcomp2.R:2:3',
'test-acc_varcomp.R:2:3', 'test-acc_varcomp.R:52:3',
'test-acc_varcomp.R:88:3', 'test-acc_varcomp.R:134:3',
'test-acc_varcomp.R:174:3', 'test-com_qualified_item_missingness.R:2:3',
'test-com_qualified_segment_missingness.R:2:3',
'test-com_qualified_segment_missingness.R:32:3',
'test-com_unit_missingness.R:2:3', 'test-con_inadmissible_categorical.R:2:3',
'test-con_contradictions.R:2:3', 'test-dataquieR_resultset.R:2:3',
'test-dataquieR_resultset2.R:2:3', 'test-des_summary.R:7:3',
'test-dq_report_by_respvars.R:3:3', 'test-dq_report_by_sb.R:7:3',
'test-dq_report_by_storr.R:2:3', 'test-function_arguments.R:2:3',
'test-function_arguments.R:61:3', 'test-function_arguments.R:88:3',
'test-get_internal_api.R:2:3', 'test-int_sts_element_dataframe.R:2:3',
'test-int_datatype_matrix.R:2:3', 'test-int_unexp_elements.R:2:3',
'test-int_unexp_records.R:2:3', 'test-int_unexp_records_set.R:2:3',
'test-meta_data_env.R:2:3', 'test-nres.R:2:3',
'test-prep_acc_distributions_with_ecdf.R:2:3', 'test-prep_add_to_meta.R:2:3',
'test-prep_apply_coding.R:2:3', 'test-prep_check_meta_names.R:2:3',
'test-prep_clean_labels.R:2:3', 'test-prep_combine_report_summaries.R:2:3',
'test-prep_compare_meta_with_study.R:2:3', 'test-prep_create_meta.R:2:3',
'test-prep_create_meta_data_file.R:2:3',
'test-prep_datatype_from_data.R:2:3', 'test-prep_datatype_from_data.R:39:3',
'test-prep_dq_data_type_of.R:2:3', 'test-prep_get_data_frame.R:2:3',
'test-prep_get_study_data_segment.R:2:3',
'test-prep_load_folder_with_metadata.R:2:3', 'test-prep_map_labels.R:2:3',
'test-prep_min_obs_level.R:2:3', 'test-prep_pmap.R:2:3',
'test-prep_prepare_dataframes.R:2:3', 'test-prep_render_pie_charts.R:2:3',
'test-prep_save_report.R:2:3', 'test-prep_title_escape.R:2:3',
'test-prep_study2meta.R:2:3', 'test-prep_study2meta.R:57:3',
'test-prep_study2meta.R:132:3', 'test-prep_undisclose.R:2:3',
'test-prep_valuelabels_from_data.R:2:3',
'test-pro_applicability_matrix.R:2:3', 'test-print.R:2:3',
'test-print.R:14:3', 'test-print.R:170:3', 'test-print.R:213:3',
'test-rbind.R:2:3', 'test-reflection.R:2:3', 'test-util_acc_loess_bin.R:2:3',
'test-util_app_cd.R:2:3', 'test-util_app_dc.R:2:3', 'test-util_app_dl.R:2:3',
'test-util_app_ed.R:2:3', 'test-util_app_hl.R:2:3',
'test-util_app_iac.R:2:3', 'test-util_app_iav.R:2:3',
'test-util_app_im.R:2:3', 'test-util_app_loess.R:2:3',
'test-util_app_mar.R:2:3', 'test-util_app_mol.R:2:3',
'test-util_app_ol.R:2:3', 'test-util_app_sl.R:2:3', 'test-util_app_sm.R:2:3',
'test-util_app_sos.R:2:3', 'test-util_app_vc.R:2:3',
'test-util_as_numeric.R:2:3', 'test-util_assign_levlabs.R:2:3',
'test-util_backtickQuote.R:2:3', 'test-util_check_group_levels.R:2:3',
'test-util_check_data_type.R:2:3', 'test-util_check_one_unique_value.R:2:3',
'test-util_combine_missing_lists.R:2:3',
'test-util_compare_meta_with_study.R:2:3', 'test-util_detect_cores.R:2:3',
'test-util_dichotomize.R:2:3', 'test-util_dichotomize.R:49:3',
'test-util_dist_selection.R:2:3', 'test-util_ds1_eval_env.R:2:3',
'test-util_contradiction_rules.R:32:3',
'test-util_contradiction_rules.R:41:3',
'test-util_contradiction_rules.R:72:3',
'test-util_contradiction_rules.R:107:3',
'test-util_contradiction_rules.R:142:3',
'test-util_contradiction_rules.R:189:3',
'test-util_contradiction_rules.R:204:3',
'test-util_contradiction_rules.R:223:3',
'test-util_contradiction_rules.R:235:3',
'test-util_contradiction_rules.R:247:3', 'test-util_empty.R:2:3',
'test-util_ensure_character.R:2:3', 'test-util_error.R:2:3',
'test-util_ensure_suggested.R:2:3', 'test-util_finalize_sizing_hints.R:2:3',
'test-util_find_external_functions_in_stacktrace.R:2:3',
'test-util_find_external_functions_in_stacktrace.R:26:3',
'test-util_find_first_externally_called_functions_in_stacktrace.R:2:3',
'test-util_find_free_missing_code.R:2:3',
'test-util_has_no_group_vars.R:2:3', 'test-util_get_code_list.R:2:3',
'test-util_get_code_list.R:88:3', 'test-util_get_code_list.R:117:3',
'test-util_heatmap_1th.R:2:3', 'test-util_html_attr_quote_escape.R:2:3',
'test-util_is_valid_missing_codes.R:2:3',
'test-util_looks_like_missing.R:2:3', 'test-util_interpret_limits.R:2:3',
'test-util_map_all.R:2:3', 'test-util_map_by_largest_prefix.R:2:3',
'test-util_map_labels.R:2:3', 'test-util_no_value_labels.R:2:3',
'test-util_observations_in_subgroups.R:2:3', 'test-util_par_pmap.R:2:3',
'test-util_parallel_futures.R:4:3', 'test-util_parse_assignments.R:2:3',
'test-util_parse_assignments.R:18:3', 'test-util_parse_redcap_rule.R:2:3',
'test-util_plot_figure_no_plotly.R:2:3',
'test-util_plot_categorical_vars.R:2:3',
'test-util_plot_categorical_vars.R:55:3',
'test-util_plot_figure_plotly.R:2:3', 'test-util_queue_cluster.R:2:3',
'test-util_remove_empty_rows.R:2:3', 'test-util_remove_na_records.R:2:3',
'test-util_render_table_dataquieR_summary.R:7:3',
'test-util_replace_codes_by_na.R:2:3', 'test-util_set_doublequotes.R:2:3',
'test-util_set_singlequotes.R:2:3', 'test-util_set_size.R:2:3',
'test-util_standardise_ordinal_codes.R:2:3', 'test-util_split_val_tab.R:2:3',
'test-util_split_val_tab.R:68:3', 'test-util_unit2baseunit.R:2:3',
'test-util_startsWith_prefix._or_equals_prefix.R:2:3',
'test-util_user_hint.R:2:3', 'test-util_validate_known_meta.R:2:3',
'test-util_varcomp_robust.R:2:3', 'test-util_warn_unordered.R:3:3',
'test-util_warning.R:2:3', 'test-util_warning.R:48:3'
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-prep_add_missing_codes.R:8:4'): prep_add_missing_codes works ───
Error in `islistfactor(x, recursive)`: NA in coercion to Rboolean
Backtrace:
▆
1. └─dataquieR::prep_add_missing_codes(...) at test-prep_add_missing_codes.R:8:4
2. └─dataquieR::prep_prepare_dataframes(...)
3. └─dataquieR:::util_validate_known_meta(meta_data)
4. ├─base::suppressMessages(...)
5. │ └─base::withCallingHandlers(...)
6. ├─base::suppressWarnings(...)
7. │ └─base::withCallingHandlers(...)
8. ├─base::withCallingHandlers(...)
9. └─dataquieR:::util_interpret_limits(mdata = meta_data)
10. ├─base::cbind.data.frame(...)
11. │ └─base::data.frame(..., check.names = FALSE)
12. ├─base::t(apply(as.data.frame(X[[lv[i]]]), 1, myfun1))
13. └─base::apply(as.data.frame(X[[lv[i]]]), 1, myfun1)
14. └─dataquieR (local) FUN(newX[, i], ...)
15. ├─base::trimws(unlist(strsplit(as.character(x), split = ";"), "both"))
16. │ ├─base (local) mysub(...)
17. │ │ └─base::sub(re, "", x, perl = TRUE)
18. │ │ └─base::is.factor(x)
19. │ └─base (local) mysub(paste0("^", whitespace, "+"), x)
20. │ └─base::sub(re, "", x, perl = TRUE)
21. │ └─base::is.factor(x)
22. └─base::unlist(strsplit(as.character(x), split = ";"), "both")
── Error ('test-util_interpret_limits.R:45:3'): util_interpret_limits works ────
Error in `islistfactor(x, recursive)`: NA in coercion to Rboolean
Backtrace:
▆
1. └─dataquieR:::util_interpret_limits(meta) at test-util_interpret_limits.R:45:3
2. ├─base::cbind.data.frame(...)
3. │ └─base::data.frame(..., check.names = FALSE)
4. ├─base::t(apply(as.data.frame(X[[lv[i]]]), 1, myfun1))
5. └─base::apply(as.data.frame(X[[lv[i]]]), 1, myfun1)
6. └─dataquieR (local) FUN(newX[, i], ...)
7. ├─base::trimws(unlist(strsplit(as.character(x), split = ";"), "both"))
8. │ ├─base (local) mysub(...)
9. │ │ └─base::sub(re, "", x, perl = TRUE)
10. │ │ └─base::is.factor(x)
11. │ └─base (local) mysub(paste0("^", whitespace, "+"), x)
12. │ └─base::sub(re, "", x, perl = TRUE)
13. │ └─base::is.factor(x)
14. └─base::unlist(strsplit(as.character(x), split = ";"), "both")
[ FAIL 2 | WARN 0 | SKIP 231 | PASS 20 ]
Deleting unused snapshots:
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• R4.3/acc_distributions/empty-cat5.svg
• R4.3/acc_distributions/few-float-values.svg
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• R4.3/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-combined-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-combined-plot-for-crp-0-with-covars-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-both-ok.svg
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• R4.3/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.3/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.3/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.3/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
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• R4.3/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
• R4.3/com_item_missingness/item-missingness-no-labels.svg
• R4.3/com_item_missingness/item-missingness-w-labels.svg
• R4.3/com_segment_missingness/segment-missingness-plot-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r1-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r2-ok.svg
• R4.3/com_segment_missingness/segment-missingness-plot-r3-ok.svg
• R4.3/con_contradictions/one-cat-contradiction-plot-ok.svg
• R4.3/con_contradictions/summary-contradiction-plot-ok.svg
• R4.3/con_contradictions_redcap/one-cat-contradiction-plot-ok.svg
• R4.3/con_contradictions_redcap/summary-contradiction-plot-ok.svg
• R4.3/con_limit_deviations/con-limit-deviations-4-hists-1-val.svg
• R4.3/con_limit_deviations/con-limit-deviations-for-reverted.svg
• R4.3/con_limit_deviations/con-limit-deviations-histgrms-misscds.svg
• R4.3/con_limit_deviations/con-limit-deviations-nothing-within.svg
• R4.3/con_limit_deviations/con-limit-deviations-reverse-w-1-0-max.svg
• R4.3/int_datatype_matrix/intdtpart-interview.svg
• R4.3/int_datatype_matrix/intdtpart-lab.svg
• R4.3/int_datatype_matrix/intdtpart-phys-exam.svg
• R4.3/int_datatype_matrix/intdtpart-questionnaire.svg
• R4.3/int_datatype_matrix/intdtpart-study.svg
• R4.3/int_datatype_matrix/integrity-datatype.svg
• R4.3/plots/acc-distributions-def-edu0.svg
• R4.3/plots/acc-distributions-gr-dbp0.svg
• R4.3/plots/acc-multivariate-outlier-test-1.svg
• R4.3/plots/acc-univariate-outlier-r-dbp-0.svg
• R4.3/plots/con-contradictions-all-checks.svg
• R4.3/plots/con-contradictions-by-tag.svg
• R4.3/plots/con-contradictions-logical-age-checks-only.svg
• R4.3/plots/con-contradictions-rc-all-checks.svg
• R4.3/plots/con-contradictions-rc-by-tag.svg
• R4.3/plots/con-contradictions-rc-logical-checks-only.svg
• R4.3/plots/con-limit-deviations-all-item.svg
• R4.3/plots/con-limit-deviations-all-quest-dt.svg
• R4.3/plots/con-limit-deviations-all-sbp-0.svg
• R4.3/plots/con-limit-deviations-low-item.svg
• R4.3/plots/con-limit-deviations-low-quest-dt.svg
• R4.3/plots/con-limit-deviations-low-sbp-0.svg
• R4.3/plots/con-limit-deviations-upp-item.svg
• R4.3/plots/con-limit-deviations-upp-quest-dt.svg
• R4.3/plots/con-limit-deviations-upp-sbp-0.svg
• R4.3/plots/empty-reportsummarytable.svg
• R4.3/plots/heatmap-with-1-cat-var.svg
• R4.3/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.3/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
• R4.3/plots/int-datatype-matrix-reportsummarytable.svg
• R4.3/plots/int-datatype-matrix-segment-v50000.svg
• R4.3/plots/int-datatype-matrix.svg
• R4.3/plots/loess-def-dbp0.svg
• R4.3/plots/loess-def-edu0.svg
• R4.3/plots/loess-fac-dbp0.svg
• R4.3/plots/loess-fac-edu0.svg
• R4.3/plots/margins-dbp0.svg
• R4.3/plots/margins-edu0.svg
• R4.3/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.3/plots/pro-applicability-matrix-segment-v50000.svg
• R4.3/plots/pro-applicability-matrix.svg
• R4.3/plots/reportsummarytable-cont.svg
• R4.3/plots/shape-or-scale-dbp0.svg
• R4.3/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.3/prep_render_pie_charts/com-item-missingness.svg
• R4.3/print/app-ex-repsumtab.svg
• R4.3/print/im-empty-repsumtab.svg
• R4.3/print/im-ex1-repsumtab.svg
• R4.3/print/im-ex2-repsumtab.svg
• R4.3/pro_applicability_matrix/appmatrix-plot-ok.svg
• R4.3/pro_applicability_matrix/appmatrix-segment-v10000.svg
• R4.3/util_heatmap_1th/util-heatmap-1th-1.svg
• R4.3/util_heatmap_1th/util-heatmap-1th-2.svg
• R4.3/util_heatmap_1th/util-heatmap-1th-3.svg
• R4.4/acc_cat_distributions/acc-cat-distributions-education-1.svg
• R4.4/acc_distributions/empty-cat5.svg
• R4.4/acc_distributions/few-float-values.svg
• R4.4/acc_distributions/non-consecutive-codes-work.svg
• R4.4/acc_end_digits/enddigits-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
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• R4.4/acc_loess/loess-combined-plot-for-crp-0-ok.svg
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• R4.4/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.4/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.4/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.4/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
• R4.4/acc_margins/margins-plot-for-crp-0-ok.svg
• R4.4/acc_multivariate_outlier/acc-mv-outliercrp0globheava0.svg
• R4.4/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
• R4.4/com_item_missingness/item-missingness-no-labels.svg
• R4.4/com_item_missingness/item-missingness-w-labels.svg
• R4.4/com_segment_missingness/segment-missingness-plot-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r1-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r2-ok.svg
• R4.4/com_segment_missingness/segment-missingness-plot-r3-ok.svg
• R4.4/con_contradictions/one-cat-contradiction-plot-ok.svg
• R4.4/con_contradictions/summary-contradiction-plot-ok.svg
• R4.4/con_contradictions_redcap/one-cat-contradiction-plot-ok.svg
• R4.4/con_contradictions_redcap/summary-contradiction-plot-ok.svg
• R4.4/con_limit_deviations/con-limit-deviations-4-hists-1-val.svg
• R4.4/con_limit_deviations/con-limit-deviations-for-reverted.svg
• R4.4/con_limit_deviations/con-limit-deviations-histgrms-misscds.svg
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• R4.4/plots/shape-or-scale-dbp0.svg
• R4.4/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.4/prep_render_pie_charts/com-item-missingness.svg
• R4.4/print/app-ex-repsumtab.svg
• R4.4/print/im-empty-repsumtab.svg
• R4.4/print/im-ex1-repsumtab.svg
• R4.4/print/im-ex2-repsumtab.svg
• R4.4/pro_applicability_matrix/appmatrix-plot-ok.svg
• R4.4/pro_applicability_matrix/appmatrix-segment-v10000.svg
• R4.4/util_heatmap_1th/util-heatmap-1th-1.svg
• R4.4/util_heatmap_1th/util-heatmap-1th-2.svg
• R4.4/util_heatmap_1th/util-heatmap-1th-3.svg
• R4.5/acc_cat_distributions/acc-cat-distributions-education-1.svg
• R4.5/acc_distributions/empty-cat5.svg
• R4.5/acc_distributions/few-float-values.svg
• R4.5/acc_distributions/non-consecutive-codes-work.svg
• R4.5/acc_end_digits/enddigits-plot-for-crp-0-ok.svg
• R4.5/acc_loess/loess-combined-plot-for-crp-0-both-ok.svg
• R4.5/acc_loess/loess-combined-plot-for-crp-0-combined-ok.svg
• R4.5/acc_loess/loess-combined-plot-for-crp-0-ok.svg
• R4.5/acc_loess/loess-combined-plot-for-crp-0-with-covars-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-both-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-facets-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-ok.svg
• R4.5/acc_loess/loess-facets-plot-for-crp-0-with-covars-ok.svg
• R4.5/acc_loess/loess-plot-for-crp-0-auto1-ok.svg
• R4.5/acc_loess/loess-plot-for-crp-0-auto2-ok.svg
• R4.5/acc_margins/margins-plot-for-crp-0-ok.svg
• R4.5/acc_multivariate_outlier/acc-mv-outliercrp0globheava0.svg
• R4.5/acc_shape_or_scale/shape-or-scale-plot-for-crp-0-ok.svg
• R4.5/com_item_missingness/item-missingness-no-labels.svg
• R4.5/com_item_missingness/item-missingness-w-labels.svg
• R4.5/com_segment_missingness/segment-missingness-plot-ok.svg
• R4.5/com_segment_missingness/segment-missingness-plot-r1-ok.svg
• R4.5/com_segment_missingness/segment-missingness-plot-r2-ok.svg
• R4.5/com_segment_missingness/segment-missingness-plot-r3-ok.svg
• R4.5/con_contradictions/one-cat-contradiction-plot-ok.svg
• R4.5/con_contradictions/summary-contradiction-plot-ok.svg
• R4.5/con_contradictions_redcap/one-cat-contradiction-plot-ok.svg
• R4.5/con_contradictions_redcap/summary-contradiction-plot-ok.svg
• R4.5/con_limit_deviations/con-limit-deviations-4-hists-1-val.svg
• R4.5/con_limit_deviations/con-limit-deviations-for-reverted.svg
• R4.5/con_limit_deviations/con-limit-deviations-histgrms-misscds.svg
• R4.5/con_limit_deviations/con-limit-deviations-nothing-within.svg
• R4.5/con_limit_deviations/con-limit-deviations-quest-dt-0.svg
• R4.5/con_limit_deviations/con-limit-deviations-reverse-w-1-0-max.svg
• R4.5/int_datatype_matrix/intdtpart-interview.svg
• R4.5/int_datatype_matrix/intdtpart-lab.svg
• R4.5/int_datatype_matrix/intdtpart-phys-exam.svg
• R4.5/int_datatype_matrix/intdtpart-questionnaire.svg
• R4.5/int_datatype_matrix/intdtpart-study.svg
• R4.5/int_datatype_matrix/integrity-datatype.svg
• R4.5/plots/acc-distributions-def-edu0.svg
• R4.5/plots/acc-distributions-gr-dbp0.svg
• R4.5/plots/acc-multivariate-outlier-test-1.svg
• R4.5/plots/acc-univariate-outlier-r-dbp-0.svg
• R4.5/plots/con-contradictions-all-checks.svg
• R4.5/plots/con-contradictions-by-tag.svg
• R4.5/plots/con-contradictions-logical-age-checks-only.svg
• R4.5/plots/con-contradictions-rc-all-checks.svg
• R4.5/plots/con-contradictions-rc-by-tag.svg
• R4.5/plots/con-contradictions-rc-logical-checks-only.svg
• R4.5/plots/con-limit-deviations-all-item.svg
• R4.5/plots/con-limit-deviations-all-quest-dt.svg
• R4.5/plots/con-limit-deviations-all-sbp-0.svg
• R4.5/plots/con-limit-deviations-low-item.svg
• R4.5/plots/con-limit-deviations-low-quest-dt.svg
• R4.5/plots/con-limit-deviations-low-sbp-0.svg
• R4.5/plots/con-limit-deviations-upp-item.svg
• R4.5/plots/con-limit-deviations-upp-quest-dt.svg
• R4.5/plots/con-limit-deviations-upp-sbp-0.svg
• R4.5/plots/empty-reportsummarytable.svg
• R4.5/plots/heatmap-with-1-cat-var.svg
• R4.5/plots/heatmap-with-2-cat-vars-but-w-o-strata-vars.svg
• R4.5/plots/heatmap-with-2-cat-vars-but-w-strata-vars.svg
• R4.5/plots/int-datatype-matrix-reportsummarytable.svg
• R4.5/plots/int-datatype-matrix-segment-v50000.svg
• R4.5/plots/int-datatype-matrix.svg
• R4.5/plots/loess-def-dbp0.svg
• R4.5/plots/loess-def-edu0.svg
• R4.5/plots/loess-fac-dbp0.svg
• R4.5/plots/loess-fac-edu0.svg
• R4.5/plots/margins-dbp0.svg
• R4.5/plots/margins-edu0.svg
• R4.5/plots/pro-applicability-matrix-reportsummarytable.svg
• R4.5/plots/pro-applicability-matrix-segment-v50000.svg
• R4.5/plots/pro-applicability-matrix.svg
• R4.5/plots/reportsummarytable-cont.svg
• R4.5/plots/shape-or-scale-dbp0.svg
• R4.5/prep_render_pie_charts/acc-varcomp-observer.svg
• R4.5/prep_render_pie_charts/com-item-missingness.svg
• R4.5/print/app-ex-repsumtab.svg
• R4.5/print/im-empty-repsumtab.svg
• R4.5/print/im-ex1-repsumtab.svg
• R4.5/print/im-ex2-repsumtab.svg
• R4.5/pro_applicability_matrix/appmatrix-plot-ok.svg
• R4.5/pro_applicability_matrix/appmatrix-segment-v10000.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-1.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-2.svg
• R4.5/util_heatmap_1th/util-heatmap-1th-3.svg
Error: Test failures
Execution halted
Flavor: r-devel-windows-x86_64