docrev 0.10.1 → 0.10.2

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (119) hide show
  1. package/.gitattributes +1 -1
  2. package/CHANGELOG.md +184 -173
  3. package/PLAN-tables-and-postprocess.md +850 -850
  4. package/README.md +431 -431
  5. package/bin/rev.js +11 -11
  6. package/bin/rev.ts +145 -145
  7. package/completions/rev.bash +127 -127
  8. package/completions/rev.ps1 +210 -210
  9. package/completions/rev.zsh +207 -207
  10. package/dist/lib/anchor-match.d.ts +1 -1
  11. package/dist/lib/anchor-match.d.ts.map +1 -1
  12. package/dist/lib/anchor-match.js +47 -17
  13. package/dist/lib/anchor-match.js.map +1 -1
  14. package/dist/lib/build.js +4 -4
  15. package/dist/lib/commands/sync.d.ts.map +1 -1
  16. package/dist/lib/commands/sync.js +78 -100
  17. package/dist/lib/commands/sync.js.map +1 -1
  18. package/dist/lib/commands/utilities.js +164 -164
  19. package/dist/lib/commands/word-tools.js +8 -8
  20. package/dist/lib/grammar.js +3 -3
  21. package/dist/lib/macro-filter.lua +201 -201
  22. package/dist/lib/pdf-comments.js +44 -44
  23. package/dist/lib/plugins.js +57 -57
  24. package/dist/lib/pptx-color-filter.lua +37 -37
  25. package/dist/lib/pptx-themes.js +115 -115
  26. package/dist/lib/sections.d.ts.map +1 -1
  27. package/dist/lib/sections.js +5 -2
  28. package/dist/lib/sections.js.map +1 -1
  29. package/dist/lib/spelling.js +2 -2
  30. package/dist/lib/templates.js +387 -387
  31. package/dist/lib/themes.js +51 -51
  32. package/eslint.config.js +27 -27
  33. package/issues.md +180 -0
  34. package/lib/anchor-match.ts +308 -276
  35. package/lib/annotations.ts +644 -644
  36. package/lib/build.ts +1766 -1766
  37. package/lib/citations.ts +160 -160
  38. package/lib/commands/build.ts +855 -855
  39. package/lib/commands/citations.ts +515 -515
  40. package/lib/commands/comments.ts +1050 -1050
  41. package/lib/commands/context.ts +176 -176
  42. package/lib/commands/core.ts +309 -309
  43. package/lib/commands/doi.ts +435 -435
  44. package/lib/commands/file-ops.ts +372 -372
  45. package/lib/commands/history.ts +320 -320
  46. package/lib/commands/index.ts +87 -87
  47. package/lib/commands/init.ts +259 -259
  48. package/lib/commands/merge-resolve.ts +378 -378
  49. package/lib/commands/preview.ts +178 -178
  50. package/lib/commands/project-info.ts +244 -244
  51. package/lib/commands/quality.ts +517 -517
  52. package/lib/commands/response.ts +454 -454
  53. package/lib/commands/section-boundaries.ts +82 -82
  54. package/lib/commands/sections.ts +451 -451
  55. package/lib/commands/sync.ts +676 -709
  56. package/lib/commands/text-ops.ts +449 -449
  57. package/lib/commands/utilities.ts +448 -448
  58. package/lib/commands/verify-anchors.ts +272 -272
  59. package/lib/commands/word-tools.ts +340 -340
  60. package/lib/comment-realign.ts +517 -517
  61. package/lib/config.ts +84 -84
  62. package/lib/crossref.ts +781 -781
  63. package/lib/csl.ts +191 -191
  64. package/lib/dependencies.ts +98 -98
  65. package/lib/diff-engine.ts +465 -465
  66. package/lib/doi-cache.ts +115 -115
  67. package/lib/doi.ts +897 -897
  68. package/lib/equations.ts +506 -506
  69. package/lib/errors.ts +346 -346
  70. package/lib/format.ts +541 -541
  71. package/lib/git.ts +326 -326
  72. package/lib/grammar.ts +303 -303
  73. package/lib/image-registry.ts +180 -180
  74. package/lib/import.ts +911 -911
  75. package/lib/journals.ts +543 -543
  76. package/lib/macro-filter.lua +201 -201
  77. package/lib/macros.ts +273 -273
  78. package/lib/merge.ts +633 -633
  79. package/lib/orcid.ts +144 -144
  80. package/lib/pdf-comments.ts +263 -263
  81. package/lib/pdf-import.ts +524 -524
  82. package/lib/plugins.ts +362 -362
  83. package/lib/postprocess.ts +188 -188
  84. package/lib/pptx-color-filter.lua +37 -37
  85. package/lib/pptx-template.ts +469 -469
  86. package/lib/pptx-themes.ts +483 -483
  87. package/lib/protect-restore.ts +520 -520
  88. package/lib/rate-limiter.ts +94 -94
  89. package/lib/response.ts +197 -197
  90. package/lib/restore-references.ts +240 -240
  91. package/lib/review.ts +327 -327
  92. package/lib/schema.ts +488 -488
  93. package/lib/scientific-words.ts +73 -73
  94. package/lib/sections.ts +428 -425
  95. package/lib/slides.ts +756 -756
  96. package/lib/spelling.ts +334 -334
  97. package/lib/templates.ts +526 -526
  98. package/lib/themes.ts +742 -742
  99. package/lib/trackchanges.ts +247 -247
  100. package/lib/tui.ts +450 -450
  101. package/lib/types.ts +550 -550
  102. package/lib/undo.ts +250 -250
  103. package/lib/utils.ts +69 -69
  104. package/lib/variables.ts +179 -179
  105. package/lib/word-extraction.ts +806 -806
  106. package/lib/word.ts +643 -643
  107. package/lib/wordcomments.ts +840 -840
  108. package/package.json +137 -137
  109. package/scripts/postbuild.js +47 -47
  110. package/site/assets/extra.css +208 -0
  111. package/site/commands.html +926 -0
  112. package/site/configuration.html +469 -0
  113. package/site/index.html +288 -0
  114. package/site/troubleshooting.html +461 -0
  115. package/site/workflow.html +518 -0
  116. package/skill/REFERENCE.md +539 -539
  117. package/skill/SKILL.md +295 -295
  118. package/tsconfig.json +26 -26
  119. package/types/index.d.ts +525 -525
package/lib/scientific-words.ts CHANGED
@@ -1,73 +1,73 @@
1
- /**
2
- * Common scientific and academic words not in standard dictionaries
3
- * These words are accepted by Word's spellchecker
4
- */
5
-
6
- export const scientificWords = new Set([
7
- // Biology/Ecology
8
- 'abiotic', 'biotic', 'biogeographic', 'biogeography', 'phenotypic', 'phenotype',
9
- 'anthropogenic', 'propagule', 'propagules', 'herbivory', 'herbivore', 'herbivores',
10
- 'ruderal', 'ruderals', 'refugia', 'refugium', 'hotspot', 'hotspots',
11
- 'biodiversity', 'ecosystem', 'ecosystems', 'ecotype', 'ecotypes',
12
- 'taxonomic', 'phylogenetic', 'phylogeny', 'morphological', 'morphology',
13
- 'allometric', 'allometry', 'biomass', 'biome', 'biomes',
14
- 'invasibility', 'invasive', 'invasives', 'neophyte', 'neophytes',
15
- 'archaeophyte', 'archaeophytes', 'naturalisation', 'naturalization',
16
- 'colonisation', 'colonization', 'dispersal', 'fecundity',
17
- 'phenology', 'phenological', 'ontogeny', 'ontogenetic',
18
- 'mesic', 'xeric', 'hydric', 'riparian', 'riverine',
19
- 'subalpine', 'alpine', 'boreal', 'temperate', 'tropical',
20
- 'heathland', 'heathlands', 'scrubland', 'scrublands', 'grassland', 'grasslands',
21
- 'broadleaf', 'broadleaved', 'coniferous', 'deciduous', 'evergreen',
22
- 'autochory', 'autochorous', 'zoochory', 'zoochorous',
23
- 'anemochory', 'anemochorous', 'hydrochory', 'hydrochorous',
24
- 'anthropochory', 'anthropochorous', 'hemerochor', 'hemerochorist',
25
- 'helophyte', 'helophytes', 'hydrophyte', 'hydrophytes',
26
- 'therophyte', 'therophytes', 'geophyte', 'geophytes',
27
- 'chamaephyte', 'chamaephytes', 'phanerophyte', 'phanerophytes',
28
-
29
- // Statistics
30
- 'logit', 'logistic', 'probit', 'frequentist', 'bayesian',
31
- 'overdispersion', 'underdispersion', 'heteroscedasticity', 'homoscedasticity',
32
- 'multicollinearity', 'autocorrelation', 'covariate', 'covariates',
33
- 'parameterization', 'parameterisation', 'reparameterization',
34
- 'bootstrapping', 'resampling', 'imputation', 'interpolation',
35
- 'standardized', 'standardised', 'normalized', 'normalised',
36
- 'discretized', 'discretised', 'categorized', 'categorised',
37
-
38
- // Compound words
39
- 'overrepresentation', 'underrepresentation', 'overrepresented', 'underrepresented',
40
- 'outcompete', 'outcompetes', 'outcompeted', 'outcompeting',
41
- 'subdataset', 'subgroup', 'subgroups', 'subtype', 'subtypes',
42
- 'dataset', 'datasets', 'datapoint', 'datapoints',
43
- 'spatiotemporal', 'spatio', 'geospatial',
44
- 'timestep', 'timesteps', 'timeframe', 'timeframes',
45
- 'warmup', 'backend', 'frontend', 'workflow', 'workflows',
46
- 'fallback', 'fallbacks', 'tradeoff', 'tradeoffs',
47
-
48
- // Academic writing
49
- 'interpretability', 'reproducibility', 'replicability',
50
- 'hypothesise', 'hypothesised', 'hypothesize', 'hypothesized',
51
- 'analyse', 'analysed', 'analyze', 'analyzed',
52
- 'prioritise', 'prioritised', 'prioritize', 'prioritized',
53
- 'characterise', 'characterised', 'characterize', 'characterized',
54
- 'generalise', 'generalised', 'generalize', 'generalized',
55
- 'parameterise', 'parameterised', 'parameterize', 'parameterized',
56
- 'visualise', 'visualised', 'visualize', 'visualized',
57
- 'modelling', 'modeling', 'modelled', 'modeled',
58
-
59
- // Geography
60
- 'unvegetated', 'landform', 'landforms', 'topographic', 'topography',
61
- 'elevational', 'latitudinal', 'longitudinal', 'altitudinal',
62
-
63
- // Technical
64
- 'doi', 'dois', 'pdf', 'pdfs', 'csv', 'xlsx',
65
- 'pandoc', 'markdown', 'bibtex', 'crossref',
66
-
67
- // R packages and tools
68
- 'brms', 'cmdstanr', 'rstanarm', 'lme', 'glmm', 'glmer', 'lmer',
69
- 'ggplot', 'dplyr', 'tidyr', 'tidyverse', 'rmarkdown',
70
-
71
- // Common in papers
72
- 'foci', 'et', 'al', 'cf', 'eg', 'ie', 'vs',
73
- ]);
1
+ /**
2
+ * Common scientific and academic words not in standard dictionaries
3
+ * These words are accepted by Word's spellchecker
4
+ */
5
+
6
+ export const scientificWords = new Set([
7
+ // Biology/Ecology
8
+ 'abiotic', 'biotic', 'biogeographic', 'biogeography', 'phenotypic', 'phenotype',
9
+ 'anthropogenic', 'propagule', 'propagules', 'herbivory', 'herbivore', 'herbivores',
10
+ 'ruderal', 'ruderals', 'refugia', 'refugium', 'hotspot', 'hotspots',
11
+ 'biodiversity', 'ecosystem', 'ecosystems', 'ecotype', 'ecotypes',
12
+ 'taxonomic', 'phylogenetic', 'phylogeny', 'morphological', 'morphology',
13
+ 'allometric', 'allometry', 'biomass', 'biome', 'biomes',
14
+ 'invasibility', 'invasive', 'invasives', 'neophyte', 'neophytes',
15
+ 'archaeophyte', 'archaeophytes', 'naturalisation', 'naturalization',
16
+ 'colonisation', 'colonization', 'dispersal', 'fecundity',
17
+ 'phenology', 'phenological', 'ontogeny', 'ontogenetic',
18
+ 'mesic', 'xeric', 'hydric', 'riparian', 'riverine',
19
+ 'subalpine', 'alpine', 'boreal', 'temperate', 'tropical',
20
+ 'heathland', 'heathlands', 'scrubland', 'scrublands', 'grassland', 'grasslands',
21
+ 'broadleaf', 'broadleaved', 'coniferous', 'deciduous', 'evergreen',
22
+ 'autochory', 'autochorous', 'zoochory', 'zoochorous',
23
+ 'anemochory', 'anemochorous', 'hydrochory', 'hydrochorous',
24
+ 'anthropochory', 'anthropochorous', 'hemerochor', 'hemerochorist',
25
+ 'helophyte', 'helophytes', 'hydrophyte', 'hydrophytes',
26
+ 'therophyte', 'therophytes', 'geophyte', 'geophytes',
27
+ 'chamaephyte', 'chamaephytes', 'phanerophyte', 'phanerophytes',
28
+
29
+ // Statistics
30
+ 'logit', 'logistic', 'probit', 'frequentist', 'bayesian',
31
+ 'overdispersion', 'underdispersion', 'heteroscedasticity', 'homoscedasticity',
32
+ 'multicollinearity', 'autocorrelation', 'covariate', 'covariates',
33
+ 'parameterization', 'parameterisation', 'reparameterization',
34
+ 'bootstrapping', 'resampling', 'imputation', 'interpolation',
35
+ 'standardized', 'standardised', 'normalized', 'normalised',
36
+ 'discretized', 'discretised', 'categorized', 'categorised',
37
+
38
+ // Compound words
39
+ 'overrepresentation', 'underrepresentation', 'overrepresented', 'underrepresented',
40
+ 'outcompete', 'outcompetes', 'outcompeted', 'outcompeting',
41
+ 'subdataset', 'subgroup', 'subgroups', 'subtype', 'subtypes',
42
+ 'dataset', 'datasets', 'datapoint', 'datapoints',
43
+ 'spatiotemporal', 'spatio', 'geospatial',
44
+ 'timestep', 'timesteps', 'timeframe', 'timeframes',
45
+ 'warmup', 'backend', 'frontend', 'workflow', 'workflows',
46
+ 'fallback', 'fallbacks', 'tradeoff', 'tradeoffs',
47
+
48
+ // Academic writing
49
+ 'interpretability', 'reproducibility', 'replicability',
50
+ 'hypothesise', 'hypothesised', 'hypothesize', 'hypothesized',
51
+ 'analyse', 'analysed', 'analyze', 'analyzed',
52
+ 'prioritise', 'prioritised', 'prioritize', 'prioritized',
53
+ 'characterise', 'characterised', 'characterize', 'characterized',
54
+ 'generalise', 'generalised', 'generalize', 'generalized',
55
+ 'parameterise', 'parameterised', 'parameterize', 'parameterized',
56
+ 'visualise', 'visualised', 'visualize', 'visualized',
57
+ 'modelling', 'modeling', 'modelled', 'modeled',
58
+
59
+ // Geography
60
+ 'unvegetated', 'landform', 'landforms', 'topographic', 'topography',
61
+ 'elevational', 'latitudinal', 'longitudinal', 'altitudinal',
62
+
63
+ // Technical
64
+ 'doi', 'dois', 'pdf', 'pdfs', 'csv', 'xlsx',
65
+ 'pandoc', 'markdown', 'bibtex', 'crossref',
66
+
67
+ // R packages and tools
68
+ 'brms', 'cmdstanr', 'rstanarm', 'lme', 'glmm', 'glmer', 'lmer',
69
+ 'ggplot', 'dplyr', 'tidyr', 'tidyverse', 'rmarkdown',
70
+
71
+ // Common in papers
72
+ 'foci', 'et', 'al', 'cf', 'eg', 'ie', 'vs',
73
+ ]);