@organon-methodology/tools 0.4.0 → 0.5.0

package/dist/core/export.js

@@ -0,0 +1,167 @@
+/**
+ * Export organon knowledge graph as structured JSON.
+ *
+ * Produces a snapshot of entities, assertions, relationships, and rules
+ * classified by epistemic category. This is the interoperability surface —
+ * external tools consume this instead of parsing organon files directly.
+ */
+import { parseOrganonFile } from './frontmatter-parser.js';
+import { joinPath } from './config.js';
+import { discoverOrganonFiles } from './discover.js';
+import { classifyCategory } from './query.js';
+import { getRegisteredGates } from './verify.js';
+// ---------------------------------------------------------------------------
+// Main
+// ---------------------------------------------------------------------------
+export async function exportKnowledgeGraph(options) {
+    const { projectRoot, config, fs } = options;
+    const version = options.version ?? '0.0.0';
+    // Discover and parse all organon files
+    const allFiles = await discoverOrganonFiles(projectRoot, config, fs);
+    const parsed = [];
+    for (const file of allFiles) {
+        const absPath = joinPath(projectRoot, file);
+        try {
+            const content = await fs.readFile(absPath);
+            parsed.push(parseOrganonFile(file, content));
+        }
+        catch {
+            // Skip unreadable files
+        }
+    }
+    const withFrontmatter = parsed.filter((f) => f.frontmatter !== null);
+    const entities = buildEntities(withFrontmatter);
+    const assertions = buildAssertions(withFrontmatter);
+    const relationships = buildRelationships(withFrontmatter);
+    const rules = buildRules();
+    return {
+        version,
+        exported_at: new Date().toISOString(),
+        entities,
+        assertions,
+        relationships,
+        rules,
+    };
+}
+// ---------------------------------------------------------------------------
+// Entity extraction
+// ---------------------------------------------------------------------------
+function fileId(file) {
+    // Strip extension and normalize path
+    const clean = file.path.replace(/\\/g, '/').replace(/\.md$/, '');
+    return `organon:${clean}`;
+}
+function buildEntities(files) {
+    return files.map((f) => ({
+        id: fileId(f),
+        kind: 'organon-file',
+        name: f.frontmatter.name,
+        scope: f.frontmatter.scope,
+        type: f.frontmatter.type,
+        category: classifyCategory(f),
+    }));
+}
+// ---------------------------------------------------------------------------
+// Assertion extraction
+// ---------------------------------------------------------------------------
+function buildAssertions(files) {
+    const assertions = [];
+    for (const f of files) {
+        const fm = f.frontmatter;
+        const category = classifyCategory(f);
+        // Extract invariants from ETHOS files as constraints
+        if (fm.type === 'constraints' && fm.invariants) {
+            for (const inv of fm.invariants) {
+                assertions.push({
+                    id: `inv:${inv.id}`,
+                    category: 'constraint',
+                    source: f.path,
+                    predicate: 'declares_invariant',
+                    content: inv.name,
+                });
+            }
+        }
+        // Extract observations as assertions
+        if (category === 'assertion') {
+            assertions.push({
+                id: `obs:${fm.name}`,
+                category: 'assertion',
+                source: f.path,
+                predicate: 'observed',
+                content: fm.summary,
+            });
+        }
+    }
+    return assertions;
+}
+// ---------------------------------------------------------------------------
+// Relationship extraction
+// ---------------------------------------------------------------------------
+function buildRelationships(files) {
+    const relationships = [];
+    // Build name→entity ID map so inherits_from names resolve to real entities
+    const nameToId = new Map();
+    for (const f of files) {
+        if (f.frontmatter?.name) {
+            nameToId.set(f.frontmatter.name, fileId(f));
+        }
+    }
+    for (const f of files) {
+        const fm = f.frontmatter;
+        const id = fileId(f);
+        // inherits_from — resolve names to entity IDs when possible
+        if (fm.inherits_from) {
+            for (const parent of fm.inherits_from) {
+                relationships.push({
+                    source: id,
+                    predicate: 'inherits_from',
+                    target: nameToId.get(parent) ?? `organon:${parent}`,
+                });
+            }
+        }
+        // related_domains
+        if (fm.related_domains) {
+            for (const domain of fm.related_domains) {
+                relationships.push({
+                    source: id,
+                    predicate: 'related_to_domain',
+                    target: `domain:${domain}`,
+                });
+            }
+        }
+        // related_features
+        if (fm.related_features) {
+            for (const feature of fm.related_features) {
+                relationships.push({
+                    source: id,
+                    predicate: 'related_to_feature',
+                    target: `feature:${feature}`,
+                });
+            }
+        }
+        // primary_rfcs
+        if (fm.primary_rfcs) {
+            for (const rfc of fm.primary_rfcs) {
+                relationships.push({
+                    source: id,
+                    predicate: 'shaped_by_rfc',
+                    target: `rfc:${String(rfc).padStart(3, '0')}`,
+                });
+            }
+        }
+    }
+    return relationships;
+}
+// ---------------------------------------------------------------------------
+// Rule extraction
+// ---------------------------------------------------------------------------
+function buildRules() {
+    const gateNames = getRegisteredGates();
+    return gateNames.map((name) => ({
+        id: `gate:${name}`,
+        predicate: 'validates',
+        targets: ['all organon files'],
+        type: 'blocking',
+    }));
+}
+//# sourceMappingURL=export.js.map

package/dist/core/export.js.map

@@ -0,0 +1 @@
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package/dist/core/export.test.d.ts

@@ -0,0 +1,7 @@
+/**
+ * Tests for organon export (knowledge graph).
+ *
+ * @organon-invariant INV-TOOLS-2 every-command-has-tests
+ */
+export {};
+//# sourceMappingURL=export.test.d.ts.map

package/dist/core/export.test.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"export.test.d.ts","sourceRoot":"","sources":["../../src/core/export.test.ts"],"names":[],"mappings":"AAAA;;;;GAIG"}

package/dist/core/export.test.js

@@ -0,0 +1,265 @@
+/**
+ * Tests for organon export (knowledge graph).
+ *
+ * @organon-invariant INV-TOOLS-2 every-command-has-tests
+ */
+import { describe, it, expect } from 'vitest';
+import { exportKnowledgeGraph } from './export.js';
+import { MemoryFileSystem, makeEthos, makePhilosophy, makeReadme } from './test-helpers.js';
+function makeConfig(projectRoot) {
+    return {
+        projectRoot,
+        organonPaths: ['.', 'organon'],
+        organonGlobs: ['**/ETHOS.md', '**/PHILOSOPHY.md', '**/PROTOCOLS.md', '**/README.md', '**/observations/*.md'],
+        ignorePatterns: [],
+        workflowPaths: {},
+        freshnessThresholdHours: 24,
+    };
+}
+const observationContent = `---
+type: rationale
+scope: product
+name: test-observation
+version: "1.0"
+summary: Two review passes is optimal for organon files
+token_estimate: 300
+status: pattern
+created: "2026-02-15"
+---
+
+# Observation 001
+
+Some learning about review passes.
+`;
+const ethosWithInvariants = `---
+type: constraints
+scope: domain
+name: tools
+version: "1.0"
+summary: Tools domain constraints
+token_estimate: 500
+invariants_count: 2
+principles_count: 1
+heuristics_count: 1
+invariants:
+  - id: INV-TOOLS-1
+    name: schema-fidelity
+  - id: INV-TOOLS-2
+    name: every-command-tested
+inherits_from:
+  - product
+related_domains:
+  - testing
+---
+
+# tools
+
+## Identity
+
+### What tools IS
+- A CLI
+
+### What tools IS NOT
+- Not a library
+
+## Invariants
+
+1. **Schema fidelity.** All frontmatter validated.
+2. **Every command tested.** All commands have tests.
+
+## Principles (Prioritized)
+
+1. **Fail fast.** Stop on first error.
+
+## Decision Heuristics
+
+| Situation | Action |
+|-----------|--------|
+| New command | Add tests |
+`;
+describe('exportKnowledgeGraph', () => {
+    function makeFs() {
+        return new MemoryFileSystem({
+            '/project/organon/domains/tools/ETHOS.md': ethosWithInvariants,
+            '/project/organon/observations/001-test.md': observationContent,
+            '/project/organon/domains/tools/PHILOSOPHY.md': makePhilosophy({ name: 'tools-phil' }),
+            '/project/README.md': makeReadme({ name: 'root', scope: 'product' }),
+        });
+    }
+    it('returns structured export with all sections', async () => {
+        const fs = makeFs();
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+            version: '0.4.1',
+        });
+        expect(result.version).toBe('0.4.1');
+        expect(result.exported_at).toBeTruthy();
+        expect(result.entities).toBeInstanceOf(Array);
+        expect(result.assertions).toBeInstanceOf(Array);
+        expect(result.relationships).toBeInstanceOf(Array);
+        expect(result.rules).toBeInstanceOf(Array);
+    });
+    it('builds entities from parsed files', async () => {
+        const fs = makeFs();
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+            version: '0.4.1',
+        });
+        expect(result.entities.length).toBeGreaterThan(0);
+        const toolsEntity = result.entities.find((e) => e.name === 'tools');
+        expect(toolsEntity).toBeDefined();
+        expect(toolsEntity.kind).toBe('organon-file');
+        expect(toolsEntity.type).toBe('constraints');
+        expect(toolsEntity.category).toBe('constraint');
+        expect(toolsEntity.scope).toBe('domain');
+    });
+    it('extracts invariants as constraint assertions', async () => {
+        const fs = makeFs();
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+            version: '0.4.1',
+        });
+        const invariantAssertions = result.assertions.filter((a) => a.category === 'constraint');
+        expect(invariantAssertions.length).toBe(2);
+        expect(invariantAssertions[0].id).toBe('inv:INV-TOOLS-1');
+        expect(invariantAssertions[0].predicate).toBe('declares_invariant');
+        expect(invariantAssertions[0].content).toBe('schema-fidelity');
+    });
+    it('extracts observations as assertion assertions', async () => {
+        const fs = makeFs();
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+            version: '0.4.1',
+        });
+        const obsAssertions = result.assertions.filter((a) => a.category === 'assertion');
+        expect(obsAssertions.length).toBe(1);
+        expect(obsAssertions[0].id).toBe('obs:test-observation');
+        expect(obsAssertions[0].predicate).toBe('observed');
+        expect(obsAssertions[0].content).toContain('Two review passes');
+    });
+    it('extracts inherits_from relationships', async () => {
+        const fs = makeFs();
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+            version: '0.4.1',
+        });
+        const inherits = result.relationships.filter((r) => r.predicate === 'inherits_from');
+        expect(inherits.length).toBeGreaterThan(0);
+        // 'product' doesn't match any entity name, so falls back to organon:product
+        expect(inherits.some((r) => r.target === 'organon:product')).toBe(true);
+    });
+    it('resolves inherits_from names to entity IDs when possible', async () => {
+        const fs = new MemoryFileSystem({
+            '/project/organon/ETHOS.md': makeEthos({ name: 'my-project', scope: 'product' }),
+            '/project/organon/domains/tools/ETHOS.md': ethosWithInvariants,
+        });
+        // Override the tools ETHOS to inherit from 'my-project' instead of 'product'
+        const toolsEthos = ethosWithInvariants.replace('inherits_from:\n  - product', 'inherits_from:\n  - my-project');
+        fs.addFile('/project/organon/domains/tools/ETHOS.md', toolsEthos);
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+            version: '0.4.1',
+        });
+        const inherits = result.relationships.filter((r) => r.predicate === 'inherits_from');
+        // Should resolve 'my-project' to the actual entity ID
+        expect(inherits.some((r) => r.target === 'organon:organon/ETHOS')).toBe(true);
+    });
+    it('extracts related_domains relationships', async () => {
+        const fs = makeFs();
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+            version: '0.4.1',
+        });
+        const domainRels = result.relationships.filter((r) => r.predicate === 'related_to_domain');
+        expect(domainRels.length).toBeGreaterThan(0);
+        expect(domainRels.some((r) => r.target === 'domain:testing')).toBe(true);
+    });
+    it('extracts verification gates as rules', async () => {
+        const fs = makeFs();
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+            version: '0.4.1',
+        });
+        // Built-in gates are registered when verify module loads
+        expect(result.rules.length).toBeGreaterThan(0);
+        expect(result.rules[0].predicate).toBe('validates');
+        expect(result.rules[0].type).toBe('blocking');
+    });
+    it('skips files without frontmatter', async () => {
+        const fs = new MemoryFileSystem({
+            '/project/README.md': '# No frontmatter here',
+        });
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+            version: '0.4.1',
+        });
+        expect(result.entities.length).toBe(0);
+        expect(result.assertions.length).toBe(0);
+    });
+    it('uses default version when not provided', async () => {
+        const fs = makeFs();
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+        });
+        expect(result.version).toBe('0.0.0');
+    });
+    it('handles unreadable files gracefully', async () => {
+        const fs = makeFs();
+        fs.throwOnRead('ETHOS.md');
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+            version: '0.4.1',
+        });
+        // Should still return results for readable files
+        expect(result.entities).toBeInstanceOf(Array);
+    });
+    it('classifies entities by epistemic category', async () => {
+        const fs = makeFs();
+        const config = makeConfig('/project');
+        const result = await exportKnowledgeGraph({
+            projectRoot: '/project',
+            config,
+            fs,
+            version: '0.4.1',
+        });
+        const categories = result.entities.map((e) => e.category);
+        expect(categories).toContain('constraint');
+        expect(categories).toContain('assertion');
+        // PHILOSOPHY and README files have null category
+        expect(categories).toContain(null);
+    });
+});
+//# sourceMappingURL=export.test.js.map

package/dist/core/export.test.js.map

@@ -0,0 +1 @@
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package/dist/core/find.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"find.d.ts","sourceRoot":"","sources":["../../src/core/find.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAIH,OAAO,KAAK,EAEV,UAAU,EAEV,UAAU,EACV,gBAAgB,EAChB,eAAe,EACf,aAAa,EAEd,MAAM,YAAY,CAAC;AAMpB,MAAM,WAAW,WAAW;IAC1B,WAAW,EAAE,MAAM,CAAC;IACpB,MAAM,EAAE,aAAa,CAAC;IACtB,EAAE,EAAE,UAAU,CAAC;IACf,+CAA+C;IAC/C,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,4CAA4C;IAC5C,KAAK,CAAC,EAAE,gBAAgB,CAAC;IACzB,qCAAqC;IACrC,IAAI,CAAC,EAAE,eAAe,CAAC;IACvB,mDAAmD;IACnD,IAAI,CAAC,EAAE,MAAM,CAAC;CACf;AAMD,wBAAsB,IAAI,CAAC,OAAO,EAAE,WAAW,GAAG,OAAO,CAAC,UAAU,CAAC,CA2DpE"}
+{"version":3,"file":"find.d.ts","sourceRoot":"","sources":["../../src/core/find.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAKH,OAAO,KAAK,EAEV,UAAU,EAEV,UAAU,EACV,gBAAgB,EAChB,eAAe,EACf,aAAa,EAEd,MAAM,YAAY,CAAC;AAMpB,MAAM,WAAW,WAAW;IAC1B,WAAW,EAAE,MAAM,CAAC;IACpB,MAAM,EAAE,aAAa,CAAC;IACtB,EAAE,EAAE,UAAU,CAAC;IACf,+CAA+C;IAC/C,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,4CAA4C;IAC5C,KAAK,CAAC,EAAE,gBAAgB,CAAC;IACzB,qCAAqC;IACrC,IAAI,CAAC,EAAE,eAAe,CAAC;IACvB,mDAAmD;IACnD,IAAI,CAAC,EAAE,MAAM,CAAC;CACf;AAMD,wBAAsB,IAAI,CAAC,OAAO,EAAE,WAAW,GAAG,OAAO,CAAC,UAAU,CAAC,CA2DpE"}

package/dist/core/find.js

@@ -13,6 +13,7 @@
  */
 import { parseOrganonFile } from './frontmatter-parser.js';
 import { joinPath, dirName } from './config.js';
+import { discoverOrganonFiles } from './discover.js';
 // ---------------------------------------------------------------------------
 // Main
 // ---------------------------------------------------------------------------
@@ -172,20 +173,4 @@ function isRootFile(path) {
     const normalized = path.replace(/\\/g, '/');
     return !normalized.includes('/') || normalized.split('/').length <= 2;
 }
-async function discoverOrganonFiles(projectRoot, config, fs) {
-    const allFiles = new Set();
-    for (const organonPath of config.organonPaths) {
-        for (const pattern of config.organonGlobs) {
-            const fullPattern = organonPath === '.' ? pattern : `${organonPath}/${pattern}`;
-            const matches = await fs.glob(fullPattern, {
-                cwd: projectRoot,
-                ignore: config.ignorePatterns,
-            });
-            for (const m of matches) {
-                allFiles.add(m);
-            }
-        }
-    }
-    return [...allFiles].sort();
-}
 //# sourceMappingURL=find.js.map

package/dist/core/find.js.map

@@ -1 +1 @@
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package/dist/core/find.test.js

@@ -4,7 +4,7 @@ import { MemoryFileSystem, makeEthos, makeReadme } from './test-helpers.js';
 function makeConfig(projectRoot) {
     return {
         projectRoot,
-        organonPaths: ['.'],
+        organonPaths: ['.', 'organon'],
         organonGlobs: ['**/ETHOS.md', '**/README.md'],
         ignorePatterns: [],
         workflowPaths: {},

package/dist/core/find.test.js.map

@@ -1 +1 @@
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package/dist/core/generate-tests.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"generate-tests.d.ts","sourceRoot":"","sources":["../../src/core/generate-tests.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AAKH,OAAO,EAGL,KAAK,kBAAkB,EACxB,MAAM,yBAAyB,CAAC;AACjC,OAAO,KAAK,EACV,UAAU,EAEV,aAAa,EACd,MAAM,YAAY,CAAC;AAMpB,MAAM,WAAW,oBAAoB;IACnC,WAAW,EAAE,MAAM,CAAC;IACpB,MAAM,EAAE,aAAa,CAAC;IACtB,EAAE,EAAE,UAAU,CAAC;IACf,oDAAoD;IACpD,YAAY,CAAC,EAAE,MAAM,EAAE,CAAC;IACxB,8CAA8C;IAC9C,MAAM,CAAC,EAAE,MAAM,CAAC;CACjB;AAED,MAAM,WAAW,aAAa;IAC5B,qCAAqC;IACrC,SAAS,EAAE,kBAAkB,CAAC;IAC9B,mCAAmC;IACnC,SAAS,EAAE,MAAM,CAAC;IAClB,mCAAmC;IACnC,IAAI,EAAE,MAAM,CAAC;IACb,yBAAyB;IACzB,QAAQ,EAAE,MAAM,CAAC;CAClB;AAED,MAAM,WAAW,mBAAmB;IAClC,+CAA+C;IAC/C,SAAS,EAAE,aAAa,EAAE,CAAC;IAC3B,iDAAiD;IACjD,cAAc,EAAE,kBAAkB,EAAE,CAAC;IACrC,0CAA0C;IAC1C,aAAa,EAAE,kBAAkB,EAAE,CAAC;CACrC;AA4ID;;GAEG;AACH,wBAAsB,aAAa,CACjC,OAAO,EAAE,oBAAoB,GAC5B,OAAO,CAAC,mBAAmB,CAAC,CA8D9B"}

package/dist/core/generate-tests.js

@@ -7,6 +7,7 @@
  */
 import { parseFrontmatter } from './frontmatter-parser.js';
 import { joinPath } from './config.js';
+import { discoverOrganonFiles } from './discover.js';
 import { extractInvariants, scanTestAnnotations, } from './invariant-coverage.js';
 function matchAssertion(invariant) {
     const name = invariant.name.toLowerCase();
@@ -129,29 +130,17 @@ describe('${inv.id}', () => {
 export async function generateTests(options) {
     const { projectRoot, config, fs, invariantIds } = options;
     // 1. Discover organon files and extract invariants
-    const seenPaths = new Set();
+    const discoveredFiles = await discoverOrganonFiles(projectRoot, config, fs);
     const parsedFiles = [];
-    for (const organonPath of config.organonPaths) {
-        for (const pattern of config.organonGlobs) {
-            const fullPattern = organonPath === '.' ? pattern : `${organonPath}/${pattern}`;
-            const matches = await fs.glob(fullPattern, {
-                cwd: projectRoot,
-                ignore: config.ignorePatterns,
-            });
-            for (const file of matches) {
-                if (seenPaths.has(file))
-                    continue;
-                seenPaths.add(file);
-                const absPath = joinPath(projectRoot, file);
-                try {
-                    const content = await fs.readFile(absPath);
-                    const { frontmatter } = parseFrontmatter(content);
-                    parsedFiles.push({ path: file, frontmatter });
-                }
-                catch {
-                    // Skip unreadable files
-                }
-            }
+    for (const file of discoveredFiles) {
+        const absPath = joinPath(projectRoot, file);
+        try {
+            const content = await fs.readFile(absPath);
+            const { frontmatter } = parseFrontmatter(content);
+            parsedFiles.push({ path: file, frontmatter });
+        }
+        catch {
+            // Skip unreadable files
         }
     }
     const allInvariants = extractInvariants(parsedFiles);

package/dist/core/generate-tests.js.map

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