@jokerized/getresearchdone 0.4.1

package/dist/lib/commands/check-plans.js

@@ -0,0 +1,190 @@
+'use strict';
+Object.defineProperty(exports, "__esModule", { value: true });
+/** GRD Commands/CheckPlans -- Validate plan files for stale file paths */
+const fs = require('fs');
+const path = require('path');
+const { output, error, findPhaseInternal, } = require('../utils');
+const { phasesDir: getPhasesDirPath, } = require('../paths');
+function _extractFilePathsFromFrontmatter(fm) {
+    // Codex r14 P2: standard GRD plans declare paths via `files_modified:`
+    // and per-artifact `path:` entries under `must_haves.artifacts`, not
+    // a `## Files` section. Parse those before falling back to the
+    // section scanner so check-plans reports the right missing files.
+    const paths = [];
+    // Codex r15 P2: prior regex matched only the first list item of a
+    // multi-line YAML block. Walk the frontmatter line-by-line so every
+    // entry under `files_modified:` is captured.
+    const lines = fm.split('\n');
+    let inFilesModified = false;
+    for (const line of lines) {
+        // Inline-array form: `files_modified: [a.ts, b.ts]`
+        const inlineMatch = line.match(/^files_modified\s*:\s*\[(.+)\]/);
+        if (inlineMatch) {
+            for (const item of inlineMatch[1].split(',')) {
+                const p = item.trim().replace(/^["']|["']$/g, '');
+                if (p && p.includes('.') && !p.startsWith('http'))
+                    paths.push(p);
+            }
+            continue;
+        }
+        if (/^files_modified\s*:\s*$/.test(line)) {
+            inFilesModified = true;
+            continue;
+        }
+        if (inFilesModified) {
+            const item = line.match(/^\s+-\s+["']?([^"'\n]+?)["']?\s*$/);
+            if (item) {
+                const p = item[1].trim();
+                if (p && p.includes('.') && !p.startsWith('http'))
+                    paths.push(p);
+                continue;
+            }
+            // Any non-indented line ends the block
+            if (/^\S/.test(line) || line.trim() === '')
+                inFilesModified = false;
+        }
+    }
+    for (const m of fm.matchAll(/^\s+path\s*:\s*["']?([^"'\n]+?)["']?\s*$/gm)) {
+        const p = m[1].trim();
+        if (p && p.includes('.') && !p.startsWith('http'))
+            paths.push(p);
+    }
+    return paths;
+}
+function _extractFilePaths(content) {
+    const paths = [];
+    const fmMatch = content.match(/^---\n([\s\S]*?)\n---/);
+    if (fmMatch)
+        paths.push(..._extractFilePathsFromFrontmatter(fmMatch[1]));
+    const filesSectionMatch = content.search(/^##\s*Files?\b/im);
+    if (filesSectionMatch === -1)
+        return paths;
+    const afterSection = content.slice(filesSectionMatch);
+    const newlineIdx = afterSection.indexOf('\n');
+    const rest = newlineIdx === -1 ? afterSection : afterSection.slice(newlineIdx + 1);
+    const nextSectionMatch = rest.search(/^##\s+/m);
+    const section = nextSectionMatch === -1 ? rest : rest.slice(0, nextSectionMatch);
+    const lineRe = /^[-*]\s+\*{0,2}([^\s*`(]+\.[a-zA-Z0-9]+)\*{0,2}/gm;
+    let m;
+    while ((m = lineRe.exec(section)) !== null) {
+        const p = m[1].trim();
+        if (p && !p.startsWith('http') && p.includes('.')) {
+            paths.push(p);
+        }
+    }
+    return paths;
+}
+function _checkPlanFile(cwd, planFilePath) {
+    let content;
+    try {
+        content = fs.readFileSync(planFilePath, 'utf-8');
+    }
+    catch {
+        return {
+            plan_file: path.basename(planFilePath),
+            plan_path: path.relative(cwd, planFilePath),
+            missing_count: 0,
+            issues: [],
+        };
+    }
+    const filePaths = _extractFilePaths(content);
+    const issues = filePaths.map((p) => {
+        const abs = path.isAbsolute(p) ? p : path.join(cwd, p);
+        return { path: p, status: fs.existsSync(abs) ? 'found' : 'missing' };
+    });
+    return {
+        plan_file: path.basename(planFilePath),
+        plan_path: path.relative(cwd, planFilePath),
+        missing_count: issues.filter((i) => i.status === 'missing').length,
+        issues,
+    };
+}
+/**
+ * CLI command: Validate plan files for stale (non-existent) file path references.
+ */
+function cmdCheckPlans(cwd, options, raw) {
+    const phasesBase = getPhasesDirPath(cwd, options.milestone ?? null);
+    let planFiles = [];
+    if (options.phase) {
+        // Codex r13 P2: when --milestone is explicit, look up the phase
+        // inside that milestone's phases dir instead of letting
+        // findPhaseInternal default to the current milestone.
+        let phaseDir = null;
+        if (options.milestone) {
+            const padded = /^\d+$/.test(options.phase) ? options.phase.padStart(2, '0') : options.phase;
+            try {
+                const match = fs.readdirSync(phasesBase).find((d) => d === options.phase || d === padded ||
+                    d.startsWith(`${options.phase}-`) || d.startsWith(`${padded}-`));
+                if (match)
+                    phaseDir = path.join(phasesBase, match);
+            }
+            catch { /* fall through */ }
+            if (!phaseDir) {
+                error(`Phase ${options.phase} not found in milestone ${options.milestone}`);
+            }
+        }
+        else {
+            const phaseInfo = findPhaseInternal(cwd, options.phase);
+            if (!phaseInfo || !phaseInfo.found) {
+                error(`Phase ${options.phase} not found`);
+            }
+            phaseDir = path.join(cwd, phaseInfo.directory);
+        }
+        try {
+            planFiles = fs.readdirSync(phaseDir)
+                .filter((f) => f.endsWith('-PLAN.md') || f === 'PLAN.md')
+                .map((f) => path.join(phaseDir, f));
+        }
+        catch {
+            error(`Cannot read phase directory: ${phaseDir}`);
+        }
+    }
+    else {
+        try {
+            const phaseDirs = fs.readdirSync(phasesBase, { withFileTypes: true })
+                .filter((e) => e.isDirectory())
+                .map((e) => path.join(phasesBase, e.name));
+            for (const pd of phaseDirs) {
+                try {
+                    const files = fs.readdirSync(pd)
+                        .filter((f) => f.endsWith('-PLAN.md') || f === 'PLAN.md')
+                        .map((f) => path.join(pd, f));
+                    planFiles.push(...files);
+                }
+                catch {
+                    // skip unreadable phase dir
+                }
+            }
+        }
+        catch {
+            // phasesBase doesn't exist
+        }
+    }
+    const planResults = planFiles.map((f) => _checkPlanFile(cwd, f));
+    const totalMissing = planResults.reduce((s, r) => s + r.missing_count, 0);
+    const result = {
+        ...(options.phase ? { phase: options.phase } : {}),
+        plans_checked: planFiles.length,
+        total_missing: totalMissing,
+        plan_results: planResults.filter((r) => r.missing_count > 0 || planFiles.length <= 5),
+    };
+    if (raw) {
+        const lines = [`Plan check: ${planFiles.length} plan(s), ${totalMissing} stale path(s)`];
+        for (const r of planResults) {
+            if (r.missing_count > 0) {
+                lines.push(`  ${r.plan_file}: ${r.missing_count} missing`);
+                for (const issue of r.issues.filter((i) => i.status === 'missing')) {
+                    lines.push(`    x ${issue.path}`);
+                }
+            }
+        }
+        if (totalMissing === 0)
+            lines.push('  All file references valid.');
+        output(result, raw, lines.join('\n'));
+    }
+    else {
+        output(result, raw, `${planFiles.length} plans, ${totalMissing} missing paths`);
+    }
+}
+module.exports = { cmdCheckPlans };
+//# sourceMappingURL=check-plans.js.map

package/dist/lib/commands/check-plans.js.map

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package/dist/lib/commands/config.d.ts

@@ -0,0 +1,2 @@
+export {};
+//# sourceMappingURL=config.d.ts.map

package/dist/lib/commands/config.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"config.d.ts","sourceRoot":"","sources":["../../../lib/commands/config.ts"],"names":[],"mappings":""}

package/dist/lib/commands/config.js

@@ -0,0 +1,188 @@
+'use strict';
+Object.defineProperty(exports, "__esModule", { value: true });
+/** GRD Commands/Config -- Configuration management and path verification operations */
+const fs = require('fs');
+const path = require('path');
+const { output, error, } = require('../utils');
+const { planningDir: getPlanningDir, } = require('../paths');
+// ─── Path Verification ──────────────────────────────────────────────────────
+/**
+ * CLI command: Check if a path exists in the project and report its type.
+ * @param cwd - Project working directory
+ * @param targetPath - Path to check for existence
+ * @param raw - Output raw 'true'/'false' instead of JSON
+ * @param dryRun - If true, report what would be checked without side effects
+ */
+function cmdVerifyPathExists(cwd, targetPath, raw, dryRun) {
+    if (!targetPath) {
+        error('path required for verification. Usage: verify path-exists <path>');
+        return;
+    }
+    const fullPath = path.isAbsolute(targetPath) ? targetPath : path.join(cwd, targetPath);
+    if (dryRun) {
+        output({ dry_run: true, path: targetPath, full_path: fullPath }, raw, `dry-run: would check ${targetPath}`);
+        return;
+    }
+    try {
+        const stats = fs.statSync(fullPath);
+        const type = stats.isDirectory() ? 'directory' : stats.isFile() ? 'file' : 'other';
+        const result = { exists: true, type };
+        output(result, raw, 'true');
+    }
+    catch {
+        const result = { exists: false, type: null };
+        output(result, raw, 'false');
+    }
+}
+// ─── Config Ensure Section ──────────────────────────────────────────────────
+/**
+ * CLI command: Ensure config.json exists with required sections, creating defaults if missing.
+ * @param cwd - Project working directory
+ * @param raw - Output raw 'created'/'exists' instead of JSON
+ * @param dryRun - If true, preview changes without writing
+ */
+function cmdConfigEnsureSection(cwd, raw, dryRun) {
+    const planningDir = getPlanningDir(cwd);
+    const configPath = path.join(planningDir, 'config.json');
+    // Ensure .planning directory exists
+    try {
+        if (!fs.existsSync(planningDir)) {
+            fs.mkdirSync(planningDir, { recursive: true });
+        }
+    }
+    catch (err) {
+        error('Failed to create .planning directory: ' + err.message);
+        return;
+    }
+    // Check if config already exists
+    if (fs.existsSync(configPath)) {
+        const result = { created: false, reason: 'already_exists' };
+        output(result, raw, 'exists');
+        return;
+    }
+    // Create default config
+    const defaults = {
+        model_profile: 'balanced',
+        commit_docs: true,
+        search_gitignored: false,
+        branching_strategy: 'none',
+        phase_branch_template: 'grd/{milestone}/{phase}-{slug}',
+        milestone_branch_template: 'grd/{milestone}-{slug}',
+        workflow: {
+            research: true,
+            plan_check: true,
+            verifier: true,
+        },
+        parallelization: true,
+        autonomous_mode: false,
+        research_gates: {
+            verification_design: true,
+            method_selection: true,
+            baseline_review: true,
+        },
+        eval_config: {
+            default_metrics: ['PSNR', 'SSIM', 'LPIPS'],
+            baseline_tracking: true,
+        },
+        ceremony: {
+            default_level: 'auto',
+            phase_overrides: {},
+        },
+        tracker: {
+            provider: 'none',
+            auto_sync: true,
+            github: {
+                project_board: '',
+                default_assignee: '',
+                default_labels: ['research', 'implementation', 'evaluation', 'integration'],
+                auto_issues: true,
+                pr_per_phase: false,
+            },
+            mcp_atlassian: {
+                base_url: '',
+                project_key: '',
+                auth_method: 'api_token',
+                epic_issue_type: 'Epic',
+                task_issue_type: 'Task',
+            },
+        },
+    };
+    if (dryRun) {
+        output({ dry_run: true, would_create: path.relative(cwd, configPath) }, raw, `dry-run: would create ${path.relative(cwd, configPath)}`);
+        return;
+    }
+    try {
+        fs.writeFileSync(configPath, JSON.stringify(defaults, null, 2), 'utf-8');
+        const result = { created: true, path: path.relative(cwd, configPath) };
+        output(result, raw, 'created');
+    }
+    catch (err) {
+        error('Failed to create config.json: ' + err.message);
+    }
+}
+// ─── Config Set ─────────────────────────────────────────────────────────────
+/**
+ * CLI command: Set a configuration value by dot-path key in config.json.
+ * @param cwd - Project working directory
+ * @param keyPath - Dot-notation key path (e.g., 'workflow.research')
+ * @param value - Value to set (auto-parsed to boolean/number if applicable)
+ * @param raw - Output raw 'key=value' instead of JSON
+ * @param dryRun - If true, preview changes without writing
+ */
+function cmdConfigSet(cwd, keyPath, value, raw, dryRun) {
+    const configPath = path.join(getPlanningDir(cwd), 'config.json');
+    if (!keyPath) {
+        error('Usage: config-set <key.path> <value>');
+        return;
+    }
+    // Parse value (handle booleans and numbers)
+    let parsedValue = value;
+    if (value === 'true')
+        parsedValue = true;
+    else if (value === 'false')
+        parsedValue = false;
+    else if (!isNaN(Number(value)) && value !== '')
+        parsedValue = Number(value);
+    // Load existing config or start with empty object
+    let config = {};
+    try {
+        if (fs.existsSync(configPath)) {
+            config = JSON.parse(fs.readFileSync(configPath, 'utf-8'));
+        }
+    }
+    catch (err) {
+        error('Failed to read config.json: ' + err.message);
+        return;
+    }
+    // Set nested value using dot notation (e.g., "workflow.research")
+    const keys = keyPath.split('.');
+    let current = config;
+    for (let i = 0; i < keys.length - 1; i++) {
+        const key = keys[i];
+        if (current[key] === undefined || typeof current[key] !== 'object') {
+            current[key] = {};
+        }
+        current = current[key];
+    }
+    current[keys[keys.length - 1]] = parsedValue;
+    if (dryRun) {
+        output({ dry_run: true, key: keyPath, value: parsedValue }, raw, `dry-run: would set ${keyPath}=${parsedValue}`);
+        return;
+    }
+    // Write back
+    try {
+        fs.writeFileSync(configPath, JSON.stringify(config, null, 2), 'utf-8');
+        const result = { updated: true, key: keyPath, value: parsedValue };
+        output(result, raw, `${keyPath}=${parsedValue}`);
+    }
+    catch (err) {
+        error('Failed to write config.json: ' + err.message);
+    }
+}
+// ─── Exports ─────────────────────────────────────────────────────────────────
+module.exports = {
+    cmdConfigEnsureSection,
+    cmdConfigSet,
+    cmdVerifyPathExists,
+};
+//# sourceMappingURL=config.js.map

package/dist/lib/commands/config.js.map

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package/dist/lib/commands/dashboard.d.ts

@@ -0,0 +1,2 @@
+export {};
+//# sourceMappingURL=dashboard.d.ts.map

package/dist/lib/commands/dashboard.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"dashboard.d.ts","sourceRoot":"","sources":["../../../lib/commands/dashboard.ts"],"names":[],"mappings":""}