docrev 0.9.13 → 0.9.15

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 (126) hide show
  1. package/.claude/settings.local.json +9 -9
  2. package/.gitattributes +1 -1
  3. package/CHANGELOG.md +149 -149
  4. package/PLAN-tables-and-postprocess.md +850 -850
  5. package/README.md +411 -391
  6. package/bin/rev.js +11 -11
  7. package/bin/rev.ts +145 -145
  8. package/completions/rev.bash +127 -127
  9. package/completions/rev.ps1 +210 -210
  10. package/completions/rev.zsh +207 -207
  11. package/dev_notes/stress2/build_adversarial.ts +186 -186
  12. package/dev_notes/stress2/drift_matcher.ts +62 -62
  13. package/dev_notes/stress2/probe_anchors.ts +35 -35
  14. package/dev_notes/stress2/project/discussion.before.md +3 -3
  15. package/dev_notes/stress2/project/discussion.md +3 -3
  16. package/dev_notes/stress2/project/methods.before.md +20 -20
  17. package/dev_notes/stress2/project/methods.md +20 -20
  18. package/dev_notes/stress2/project/rev.yaml +5 -5
  19. package/dev_notes/stress2/project/sections.yaml +4 -4
  20. package/dev_notes/stress2/sections.yaml +5 -5
  21. package/dev_notes/stress2/trace_placement.ts +50 -50
  22. package/dev_notes/stresstest_boundaries.ts +27 -27
  23. package/dev_notes/stresstest_drift_apply.ts +43 -43
  24. package/dev_notes/stresstest_drift_compare.ts +43 -43
  25. package/dev_notes/stresstest_drift_v2.ts +54 -54
  26. package/dev_notes/stresstest_inspect.ts +54 -54
  27. package/dev_notes/stresstest_pstyle.ts +55 -55
  28. package/dev_notes/stresstest_section_debug.ts +23 -23
  29. package/dev_notes/stresstest_split.ts +70 -70
  30. package/dev_notes/stresstest_trace.ts +19 -19
  31. package/dev_notes/stresstest_verify_no_overwrite.ts +40 -40
  32. package/dist/lib/build.d.ts +38 -1
  33. package/dist/lib/build.d.ts.map +1 -1
  34. package/dist/lib/build.js +68 -30
  35. package/dist/lib/build.js.map +1 -1
  36. package/dist/lib/commands/build.d.ts.map +1 -1
  37. package/dist/lib/commands/build.js +38 -5
  38. package/dist/lib/commands/build.js.map +1 -1
  39. package/dist/lib/commands/utilities.js +164 -164
  40. package/dist/lib/commands/word-tools.js +8 -8
  41. package/dist/lib/grammar.js +3 -3
  42. package/dist/lib/pdf-comments.js +44 -44
  43. package/dist/lib/plugins.js +57 -57
  44. package/dist/lib/pptx-themes.js +115 -115
  45. package/dist/lib/spelling.js +2 -2
  46. package/dist/lib/templates.js +387 -387
  47. package/dist/lib/themes.js +51 -51
  48. package/eslint.config.js +27 -27
  49. package/lib/anchor-match.ts +276 -276
  50. package/lib/annotations.ts +644 -644
  51. package/lib/build.ts +1300 -1251
  52. package/lib/citations.ts +160 -160
  53. package/lib/commands/build.ts +833 -801
  54. package/lib/commands/citations.ts +515 -515
  55. package/lib/commands/comments.ts +1050 -1050
  56. package/lib/commands/context.ts +174 -174
  57. package/lib/commands/core.ts +309 -309
  58. package/lib/commands/doi.ts +435 -435
  59. package/lib/commands/file-ops.ts +372 -372
  60. package/lib/commands/history.ts +320 -320
  61. package/lib/commands/index.ts +87 -87
  62. package/lib/commands/init.ts +259 -259
  63. package/lib/commands/merge-resolve.ts +378 -378
  64. package/lib/commands/preview.ts +178 -178
  65. package/lib/commands/project-info.ts +244 -244
  66. package/lib/commands/quality.ts +517 -517
  67. package/lib/commands/response.ts +454 -454
  68. package/lib/commands/section-boundaries.ts +82 -82
  69. package/lib/commands/sections.ts +451 -451
  70. package/lib/commands/sync.ts +706 -706
  71. package/lib/commands/text-ops.ts +449 -449
  72. package/lib/commands/utilities.ts +448 -448
  73. package/lib/commands/verify-anchors.ts +272 -272
  74. package/lib/commands/word-tools.ts +340 -340
  75. package/lib/comment-realign.ts +517 -517
  76. package/lib/config.ts +84 -84
  77. package/lib/crossref.ts +781 -781
  78. package/lib/csl.ts +191 -191
  79. package/lib/dependencies.ts +98 -98
  80. package/lib/diff-engine.ts +465 -465
  81. package/lib/doi-cache.ts +115 -115
  82. package/lib/doi.ts +897 -897
  83. package/lib/equations.ts +506 -506
  84. package/lib/errors.ts +346 -346
  85. package/lib/format.ts +541 -541
  86. package/lib/git.ts +326 -326
  87. package/lib/grammar.ts +303 -303
  88. package/lib/image-registry.ts +180 -180
  89. package/lib/import.ts +911 -911
  90. package/lib/journals.ts +543 -543
  91. package/lib/merge.ts +633 -633
  92. package/lib/orcid.ts +144 -144
  93. package/lib/pdf-comments.ts +263 -263
  94. package/lib/pdf-import.ts +524 -524
  95. package/lib/plugins.ts +362 -362
  96. package/lib/postprocess.ts +188 -188
  97. package/lib/pptx-color-filter.lua +37 -37
  98. package/lib/pptx-template.ts +469 -469
  99. package/lib/pptx-themes.ts +483 -483
  100. package/lib/protect-restore.ts +520 -520
  101. package/lib/rate-limiter.ts +94 -94
  102. package/lib/response.ts +197 -197
  103. package/lib/restore-references.ts +240 -240
  104. package/lib/review.ts +327 -327
  105. package/lib/schema.ts +417 -417
  106. package/lib/scientific-words.ts +73 -73
  107. package/lib/sections.ts +335 -335
  108. package/lib/slides.ts +756 -756
  109. package/lib/spelling.ts +334 -334
  110. package/lib/templates.ts +526 -526
  111. package/lib/themes.ts +742 -742
  112. package/lib/trackchanges.ts +247 -247
  113. package/lib/tui.ts +450 -450
  114. package/lib/types.ts +550 -550
  115. package/lib/undo.ts +250 -250
  116. package/lib/utils.ts +69 -69
  117. package/lib/variables.ts +179 -179
  118. package/lib/word-extraction.ts +806 -806
  119. package/lib/word.ts +643 -643
  120. package/lib/wordcomments.ts +817 -817
  121. package/package.json +137 -137
  122. package/scripts/postbuild.js +28 -28
  123. package/skill/REFERENCE.md +473 -431
  124. package/skill/SKILL.md +274 -258
  125. package/tsconfig.json +26 -26
  126. package/types/index.d.ts +525 -525
@@ -1,244 +1,244 @@
1
- /**
2
- * Project information commands: word-count (wc), stats, search
3
- *
4
- * Read-only queries about the project state.
5
- */
6
-
7
- import type { Command } from 'commander';
8
- import {
9
- chalk,
10
- fs,
11
- path,
12
- fmt,
13
- findFiles,
14
- loadBuildConfig,
15
- countAnnotations,
16
- getComments,
17
- countWords,
18
- } from './context.js';
19
-
20
- // Use the actual BuildConfig from build.ts which allows string|Author[]
21
- type BuildConfig = ReturnType<typeof loadBuildConfig>;
22
-
23
- // Options interfaces
24
- interface WordCountOptions {
25
- limit?: number;
26
- journal?: string;
27
- }
28
-
29
- interface StatsOptions {
30
- // No options currently
31
- }
32
-
33
- interface SearchOptions {
34
- ignoreCase?: boolean;
35
- context?: number;
36
- }
37
-
38
- /**
39
- * Register project-info commands with the program
40
- */
41
- export function register(program: Command): void {
42
- // ==========================================================================
43
- // WORD-COUNT command - Per-section word counts
44
- // ==========================================================================
45
-
46
- program
47
- .command('word-count')
48
- .alias('wc')
49
- .description('Show word counts per section')
50
- .option('-l, --limit <number>', 'Warn if total exceeds limit', parseInt)
51
- .option('-j, --journal <name>', 'Use journal word limit')
52
- .action(async (options: WordCountOptions) => {
53
- let config: Partial<BuildConfig> = {};
54
- try {
55
- config = loadBuildConfig('.') || {};
56
- } catch {
57
- // Not in a rev project, that's ok
58
- }
59
- const sections = config.sections || [];
60
-
61
- if (sections.length === 0) {
62
- // Try to find .md files
63
- const mdFiles = fs.readdirSync('.').filter(f =>
64
- f.endsWith('.md') && !['README.md', 'CLAUDE.md', 'paper.md'].includes(f)
65
- );
66
- if (mdFiles.length === 0) {
67
- console.error(chalk.red('No section files found. Run from a rev project directory.'));
68
- process.exit(1);
69
- }
70
- sections.push(...mdFiles);
71
- }
72
-
73
- let total = 0;
74
- const rows: string[][] = [];
75
-
76
- for (const section of sections) {
77
- if (!fs.existsSync(section)) continue;
78
- const text = fs.readFileSync(section, 'utf-8');
79
- const words = countWords(text);
80
- total += words;
81
- rows.push([section, words.toLocaleString()]);
82
- }
83
-
84
- rows.push(['', '']);
85
- rows.push([chalk.bold('Total'), chalk.bold(total.toLocaleString())]);
86
-
87
- console.log(fmt.header('Word Count'));
88
- console.log(fmt.table(['Section', 'Words'], rows));
89
-
90
- // Check limit
91
- let limit = options.limit;
92
- if (options.journal) {
93
- const { getJournalProfile } = await import('../journals.js');
94
- const profile = getJournalProfile(options.journal);
95
- if (profile?.requirements?.wordLimit?.main) {
96
- limit = profile.requirements.wordLimit.main;
97
- console.log(chalk.dim(`\nUsing ${profile.name} word limit: ${limit.toLocaleString()}`));
98
- }
99
- }
100
-
101
- if (limit && total > limit) {
102
- console.log(chalk.red(`\n⚠ Over limit by ${(total - limit).toLocaleString()} words`));
103
- } else if (limit) {
104
- console.log(chalk.green(`\n✓ Within limit (${(limit - total).toLocaleString()} words remaining)`));
105
- }
106
- });
107
-
108
- // ==========================================================================
109
- // STATS command - Project dashboard
110
- // ==========================================================================
111
-
112
- program
113
- .command('stats')
114
- .description('Show project statistics dashboard')
115
- .action(async (_options: StatsOptions) => {
116
- let config: Partial<BuildConfig> = {};
117
- try {
118
- config = loadBuildConfig('.') || {};
119
- } catch {
120
- // Not in a rev project, that's ok
121
- }
122
- let sections = config.sections || [];
123
-
124
- if (sections.length === 0) {
125
- sections = fs.readdirSync('.').filter(f =>
126
- f.endsWith('.md') && !['README.md', 'CLAUDE.md', 'paper.md'].includes(f)
127
- );
128
- }
129
-
130
- let totalWords = 0;
131
- let totalFigures = 0;
132
- let totalTables = 0;
133
- let totalComments = 0;
134
- let pendingComments = 0;
135
- const citations = new Set<string>();
136
-
137
- for (const section of sections) {
138
- if (!fs.existsSync(section)) continue;
139
- const text = fs.readFileSync(section, 'utf-8');
140
-
141
- totalWords += countWords(text);
142
- totalFigures += (text.match(/!\[.*?\]\(.*?\)/g) || []).length;
143
- totalTables += (text.match(/^\|[^|]+\|/gm) || []).length / 5; // Approximate
144
-
145
- const comments = getComments(text);
146
- totalComments += comments.length;
147
- pendingComments += comments.filter(c => !c.resolved).length;
148
-
149
- const cites = text.match(/@(\w+)(?![:\w])/g) || [];
150
- cites.forEach(c => citations.add(c.slice(1)));
151
- }
152
-
153
- console.log(fmt.header('Project Statistics'));
154
- console.log();
155
-
156
- const stats: [string, string | number][] = [
157
- ['Sections', sections.length],
158
- ['Words', totalWords.toLocaleString()],
159
- ['Figures', Math.round(totalFigures)],
160
- ['Tables', Math.round(totalTables)],
161
- ['Citations', citations.size],
162
- ['Comments', `${totalComments} (${pendingComments} pending)`],
163
- ];
164
-
165
- for (const [label, value] of stats) {
166
- console.log(` ${chalk.dim(label.padEnd(12))} ${chalk.bold(value)}`);
167
- }
168
-
169
- // Bibliography stats
170
- const bibPath = config.bibliography || 'references.bib';
171
- if (fs.existsSync(bibPath)) {
172
- const bibContent = fs.readFileSync(bibPath, 'utf-8');
173
- const bibEntries = (bibContent.match(/@\w+\s*\{/g) || []).length;
174
- console.log(` ${chalk.dim('Bib entries'.padEnd(12))} ${chalk.bold(bibEntries)}`);
175
- }
176
-
177
- console.log();
178
- });
179
-
180
- // ==========================================================================
181
- // SEARCH command - Search across section files
182
- // ==========================================================================
183
-
184
- program
185
- .command('search')
186
- .description('Search across all section files')
187
- .argument('<query>', 'Search query (supports regex)')
188
- .option('-i, --ignore-case', 'Case-insensitive search')
189
- .option('-c, --context <lines>', 'Show context lines', parseInt, 1)
190
- .action((query: string, options: SearchOptions) => {
191
- let config: Partial<BuildConfig> = {};
192
- try {
193
- config = loadBuildConfig('.') || {};
194
- } catch {
195
- // Not in a rev project, that's ok
196
- }
197
- let sections = config.sections || [];
198
-
199
- if (sections.length === 0) {
200
- sections = fs.readdirSync('.').filter(f =>
201
- f.endsWith('.md') && !['README.md', 'CLAUDE.md'].includes(f)
202
- );
203
- }
204
-
205
- const flags = options.ignoreCase ? 'gi' : 'g';
206
- let pattern: RegExp;
207
- try {
208
- pattern = new RegExp(query, flags);
209
- } catch {
210
- pattern = new RegExp(query.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'), flags);
211
- }
212
-
213
- let totalMatches = 0;
214
-
215
- for (const section of sections) {
216
- if (!fs.existsSync(section)) continue;
217
- const text = fs.readFileSync(section, 'utf-8');
218
- const lines = text.split('\n');
219
-
220
- const matches: { line: number; text: string }[] = [];
221
- for (let i = 0; i < lines.length; i++) {
222
- if (pattern.test(lines[i])) {
223
- matches.push({ line: i + 1, text: lines[i] });
224
- pattern.lastIndex = 0;
225
- }
226
- }
227
-
228
- if (matches.length > 0) {
229
- console.log(chalk.cyan.bold(`\n${section}`));
230
- for (const match of matches) {
231
- const highlighted = match.text.replace(pattern, (m) => chalk.yellow.bold(m));
232
- console.log(` ${chalk.dim(match.line + ':')} ${highlighted}`);
233
- }
234
- totalMatches += matches.length;
235
- }
236
- }
237
-
238
- if (totalMatches === 0) {
239
- console.log(chalk.yellow(`No matches found for "${query}"`));
240
- } else {
241
- console.log(chalk.dim(`\n${totalMatches} match${totalMatches === 1 ? '' : 'es'} found`));
242
- }
243
- });
244
- }
1
+ /**
2
+ * Project information commands: word-count (wc), stats, search
3
+ *
4
+ * Read-only queries about the project state.
5
+ */
6
+
7
+ import type { Command } from 'commander';
8
+ import {
9
+ chalk,
10
+ fs,
11
+ path,
12
+ fmt,
13
+ findFiles,
14
+ loadBuildConfig,
15
+ countAnnotations,
16
+ getComments,
17
+ countWords,
18
+ } from './context.js';
19
+
20
+ // Use the actual BuildConfig from build.ts which allows string|Author[]
21
+ type BuildConfig = ReturnType<typeof loadBuildConfig>;
22
+
23
+ // Options interfaces
24
+ interface WordCountOptions {
25
+ limit?: number;
26
+ journal?: string;
27
+ }
28
+
29
+ interface StatsOptions {
30
+ // No options currently
31
+ }
32
+
33
+ interface SearchOptions {
34
+ ignoreCase?: boolean;
35
+ context?: number;
36
+ }
37
+
38
+ /**
39
+ * Register project-info commands with the program
40
+ */
41
+ export function register(program: Command): void {
42
+ // ==========================================================================
43
+ // WORD-COUNT command - Per-section word counts
44
+ // ==========================================================================
45
+
46
+ program
47
+ .command('word-count')
48
+ .alias('wc')
49
+ .description('Show word counts per section')
50
+ .option('-l, --limit <number>', 'Warn if total exceeds limit', parseInt)
51
+ .option('-j, --journal <name>', 'Use journal word limit')
52
+ .action(async (options: WordCountOptions) => {
53
+ let config: Partial<BuildConfig> = {};
54
+ try {
55
+ config = loadBuildConfig('.') || {};
56
+ } catch {
57
+ // Not in a rev project, that's ok
58
+ }
59
+ const sections = config.sections || [];
60
+
61
+ if (sections.length === 0) {
62
+ // Try to find .md files
63
+ const mdFiles = fs.readdirSync('.').filter(f =>
64
+ f.endsWith('.md') && !['README.md', 'CLAUDE.md', 'paper.md'].includes(f)
65
+ );
66
+ if (mdFiles.length === 0) {
67
+ console.error(chalk.red('No section files found. Run from a rev project directory.'));
68
+ process.exit(1);
69
+ }
70
+ sections.push(...mdFiles);
71
+ }
72
+
73
+ let total = 0;
74
+ const rows: string[][] = [];
75
+
76
+ for (const section of sections) {
77
+ if (!fs.existsSync(section)) continue;
78
+ const text = fs.readFileSync(section, 'utf-8');
79
+ const words = countWords(text);
80
+ total += words;
81
+ rows.push([section, words.toLocaleString()]);
82
+ }
83
+
84
+ rows.push(['', '']);
85
+ rows.push([chalk.bold('Total'), chalk.bold(total.toLocaleString())]);
86
+
87
+ console.log(fmt.header('Word Count'));
88
+ console.log(fmt.table(['Section', 'Words'], rows));
89
+
90
+ // Check limit
91
+ let limit = options.limit;
92
+ if (options.journal) {
93
+ const { getJournalProfile } = await import('../journals.js');
94
+ const profile = getJournalProfile(options.journal);
95
+ if (profile?.requirements?.wordLimit?.main) {
96
+ limit = profile.requirements.wordLimit.main;
97
+ console.log(chalk.dim(`\nUsing ${profile.name} word limit: ${limit.toLocaleString()}`));
98
+ }
99
+ }
100
+
101
+ if (limit && total > limit) {
102
+ console.log(chalk.red(`\n⚠ Over limit by ${(total - limit).toLocaleString()} words`));
103
+ } else if (limit) {
104
+ console.log(chalk.green(`\n✓ Within limit (${(limit - total).toLocaleString()} words remaining)`));
105
+ }
106
+ });
107
+
108
+ // ==========================================================================
109
+ // STATS command - Project dashboard
110
+ // ==========================================================================
111
+
112
+ program
113
+ .command('stats')
114
+ .description('Show project statistics dashboard')
115
+ .action(async (_options: StatsOptions) => {
116
+ let config: Partial<BuildConfig> = {};
117
+ try {
118
+ config = loadBuildConfig('.') || {};
119
+ } catch {
120
+ // Not in a rev project, that's ok
121
+ }
122
+ let sections = config.sections || [];
123
+
124
+ if (sections.length === 0) {
125
+ sections = fs.readdirSync('.').filter(f =>
126
+ f.endsWith('.md') && !['README.md', 'CLAUDE.md', 'paper.md'].includes(f)
127
+ );
128
+ }
129
+
130
+ let totalWords = 0;
131
+ let totalFigures = 0;
132
+ let totalTables = 0;
133
+ let totalComments = 0;
134
+ let pendingComments = 0;
135
+ const citations = new Set<string>();
136
+
137
+ for (const section of sections) {
138
+ if (!fs.existsSync(section)) continue;
139
+ const text = fs.readFileSync(section, 'utf-8');
140
+
141
+ totalWords += countWords(text);
142
+ totalFigures += (text.match(/!\[.*?\]\(.*?\)/g) || []).length;
143
+ totalTables += (text.match(/^\|[^|]+\|/gm) || []).length / 5; // Approximate
144
+
145
+ const comments = getComments(text);
146
+ totalComments += comments.length;
147
+ pendingComments += comments.filter(c => !c.resolved).length;
148
+
149
+ const cites = text.match(/@(\w+)(?![:\w])/g) || [];
150
+ cites.forEach(c => citations.add(c.slice(1)));
151
+ }
152
+
153
+ console.log(fmt.header('Project Statistics'));
154
+ console.log();
155
+
156
+ const stats: [string, string | number][] = [
157
+ ['Sections', sections.length],
158
+ ['Words', totalWords.toLocaleString()],
159
+ ['Figures', Math.round(totalFigures)],
160
+ ['Tables', Math.round(totalTables)],
161
+ ['Citations', citations.size],
162
+ ['Comments', `${totalComments} (${pendingComments} pending)`],
163
+ ];
164
+
165
+ for (const [label, value] of stats) {
166
+ console.log(` ${chalk.dim(label.padEnd(12))} ${chalk.bold(value)}`);
167
+ }
168
+
169
+ // Bibliography stats
170
+ const bibPath = config.bibliography || 'references.bib';
171
+ if (fs.existsSync(bibPath)) {
172
+ const bibContent = fs.readFileSync(bibPath, 'utf-8');
173
+ const bibEntries = (bibContent.match(/@\w+\s*\{/g) || []).length;
174
+ console.log(` ${chalk.dim('Bib entries'.padEnd(12))} ${chalk.bold(bibEntries)}`);
175
+ }
176
+
177
+ console.log();
178
+ });
179
+
180
+ // ==========================================================================
181
+ // SEARCH command - Search across section files
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+ // ==========================================================================
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+
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+ program
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+ .command('search')
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+ .description('Search across all section files')
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+ .argument('<query>', 'Search query (supports regex)')
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+ .option('-i, --ignore-case', 'Case-insensitive search')
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+ .option('-c, --context <lines>', 'Show context lines', parseInt, 1)
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+ .action((query: string, options: SearchOptions) => {
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+ let config: Partial<BuildConfig> = {};
192
+ try {
193
+ config = loadBuildConfig('.') || {};
194
+ } catch {
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+ // Not in a rev project, that's ok
196
+ }
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+ let sections = config.sections || [];
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+
199
+ if (sections.length === 0) {
200
+ sections = fs.readdirSync('.').filter(f =>
201
+ f.endsWith('.md') && !['README.md', 'CLAUDE.md'].includes(f)
202
+ );
203
+ }
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+
205
+ const flags = options.ignoreCase ? 'gi' : 'g';
206
+ let pattern: RegExp;
207
+ try {
208
+ pattern = new RegExp(query, flags);
209
+ } catch {
210
+ pattern = new RegExp(query.replace(/[.*+?^${}()|[\]\\]/g, '\\$&'), flags);
211
+ }
212
+
213
+ let totalMatches = 0;
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+
215
+ for (const section of sections) {
216
+ if (!fs.existsSync(section)) continue;
217
+ const text = fs.readFileSync(section, 'utf-8');
218
+ const lines = text.split('\n');
219
+
220
+ const matches: { line: number; text: string }[] = [];
221
+ for (let i = 0; i < lines.length; i++) {
222
+ if (pattern.test(lines[i])) {
223
+ matches.push({ line: i + 1, text: lines[i] });
224
+ pattern.lastIndex = 0;
225
+ }
226
+ }
227
+
228
+ if (matches.length > 0) {
229
+ console.log(chalk.cyan.bold(`\n${section}`));
230
+ for (const match of matches) {
231
+ const highlighted = match.text.replace(pattern, (m) => chalk.yellow.bold(m));
232
+ console.log(` ${chalk.dim(match.line + ':')} ${highlighted}`);
233
+ }
234
+ totalMatches += matches.length;
235
+ }
236
+ }
237
+
238
+ if (totalMatches === 0) {
239
+ console.log(chalk.yellow(`No matches found for "${query}"`));
240
+ } else {
241
+ console.log(chalk.dim(`\n${totalMatches} match${totalMatches === 1 ? '' : 'es'} found`));
242
+ }
243
+ });
244
+ }