@organon-methodology/tools 0.4.0 → 0.5.0

package/README.md

@@ -42,10 +42,10 @@ packages/tools/src/
 │   ├── suggest-tools.ts    ← Automation tier suggestions
 │   └── verify.ts       ← Gate registry orchestrator
 ├── cli/                ← Thin yargs adapter
-│   └── commands/       ← validate, generate, query, health, find, verify, mcp
+│   └── commands/       ← validate, generate, query, health, find, verify, export, mcp
 ├── mcp/                ← Thin MCP adapter
 │   ├── server.ts       ← stdio transport
-│   ├── tools.ts        ← 8 MCP tools
+│   ├── tools.ts        ← 9 MCP tools
 │   ├── resources.ts    ← 4 MCP resources
 │   └── prompts.ts      ← 4 MCP prompts
 └── index.ts            ← Public API
@@ -81,6 +81,10 @@ organon find --name=frontmatter
 organon verify
 organon verify --gate frontmatter triplets
 
+# Export knowledge graph as JSON
+organon export
+organon export --no-pretty
+
 # Start MCP server
 organon mcp
 ```
@@ -89,7 +93,7 @@ organon mcp
 
 Start with `organon mcp`. Exposes:
 
-**8 Tools:** `organon_validate_frontmatter`, `organon_generate_frontmatter`, `organon_query`, `organon_health`, `organon_find`, `organon_verify_triplets`, `organon_suggest_tools`, `organon_verify`
+**9 Tools:** `organon_validate_frontmatter`, `organon_generate_frontmatter`, `organon_query`, `organon_health`, `organon_find`, `organon_verify_triplets`, `organon_suggest_tools`, `organon_export`, `organon_verify`
 
 **4 Resources:** `organon://index`, `organon://file/{path}`, `organon://scope/{scope}`, `organon://health`
 

package/dist/cli/commands/export.d.ts

@@ -0,0 +1,12 @@
+/**
+ * organon export — Export knowledge graph as structured JSON.
+ */
+import type { CommandModule } from 'yargs';
+interface ExportArgs {
+    'project-root': string;
+    config?: string;
+    pretty: boolean;
+}
+export declare const exportCommand: CommandModule<{}, ExportArgs>;
+export {};
+//# sourceMappingURL=export.d.ts.map

package/dist/cli/commands/export.d.ts.map

@@ -0,0 +1 @@
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package/dist/cli/commands/export.js

@@ -0,0 +1,74 @@
+/**
+ * organon export — Export knowledge graph as structured JSON.
+ */
+import chalk from 'chalk';
+import { resolveConfig, resolveProjectRoot } from '../../core/config.js';
+import { exportKnowledgeGraph } from '../../core/export.js';
+import { NodeFileSystem } from '../../core/node-fs.js';
+export const exportCommand = {
+    command: 'export',
+    describe: 'Export organon knowledge graph as structured JSON',
+    builder: (yargs) => {
+        return yargs
+            .option('project-root', {
+            describe: 'Project root directory',
+            type: 'string',
+            default: process.cwd(),
+        })
+            .option('config', {
+            describe: 'Path to organon.config.json',
+            type: 'string',
+        })
+            .option('pretty', {
+            describe: 'Pretty-print JSON output',
+            type: 'boolean',
+            default: true,
+        })
+            .example('$0 export', 'Export knowledge graph as JSON')
+            .example('$0 export --no-pretty', 'Export compact JSON (for piping)');
+    },
+    handler: async (args) => {
+        const fs = new NodeFileSystem();
+        const projectRoot = await resolveProjectRoot(args['project-root'], fs);
+        const config = await resolveConfig(projectRoot, fs, args.config);
+        // Read version: try package.json first, then methodology_version from config
+        let version = '0.0.0';
+        try {
+            const pkgContent = await fs.readFile(`${projectRoot}/package.json`);
+            const pkg = JSON.parse(pkgContent);
+            if (pkg.version) {
+                version = pkg.version;
+            }
+        }
+        catch {
+            // Fall through to config-based version
+        }
+        if (version === '0.0.0') {
+            try {
+                const cfgContent = await fs.readFile(`${projectRoot}/organon.config.json`);
+                const cfg = JSON.parse(cfgContent);
+                if (cfg.methodology_version) {
+                    version = cfg.methodology_version;
+                }
+            }
+            catch {
+                // Use default version
+            }
+        }
+        const result = await exportKnowledgeGraph({
+            projectRoot,
+            config,
+            fs,
+            version,
+        });
+        if (args.pretty) {
+            console.log(JSON.stringify(result, null, 2));
+        }
+        else {
+            console.log(JSON.stringify(result));
+        }
+        // Summary to stderr so it doesn't pollute JSON output
+        console.error(chalk.dim(`Exported: ${result.entities.length} entities, ${result.assertions.length} assertions, ${result.relationships.length} relationships, ${result.rules.length} rules`));
+    },
+};
+//# sourceMappingURL=export.js.map

package/dist/cli/commands/export.js.map

@@ -0,0 +1 @@
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package/dist/cli/commands/query.d.ts

@@ -12,6 +12,7 @@ interface QueryArgs {
     budget?: number;
     name?: string;
     related?: string;
+    category?: string;
     verbose?: boolean;
 }
 export declare const queryCommand: CommandModule<{}, QueryArgs>;

package/dist/cli/commands/query.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"query.d.ts","sourceRoot":"","sources":["../../../src/cli/commands/query.ts"],"names":[],"mappings":"AAAA;;GAEG;AAEH,OAAO,KAAK,EAAE,aAAa,EAAE,MAAM,OAAO,CAAC;AAM3C,UAAU,SAAS;IACjB,cAAc,EAAE,MAAM,CAAC;IACvB,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,KAAK,CAAC,EAAE,MAAM,CAAC;IACf,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,IAAI,CAAC,EAAE,MAAM,CAAC;IACd,OAAO,CAAC,EAAE,MAAM,CAAC;IACjB,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,OAAO,CAAC,EAAE,OAAO,CAAC;CACnB;AAED,eAAO,MAAM,YAAY,EAAE,aAAa,CAAC,EAAE,EAAE,SAAS,CA4GrD,CAAC"}

package/dist/cli/commands/query.js

@@ -49,6 +49,11 @@ export const queryCommand = {
             .option('related', {
             describe: 'Filter by related domain or feature',
             type: 'string',
+        })
+            .option('category', {
+            describe: 'Filter by epistemic category',
+            type: 'string',
+            choices: ['constraint', 'assertion', 'rule'],
         })
             .option('verbose', {
             describe: 'Show full file content',
@@ -57,7 +62,8 @@ export const queryCommand = {
         })
             .example('$0 query --scope=meta', 'List all meta-scope organons')
             .example('$0 query --budget=20000', 'Plan context loading within 20K tokens')
-            .example('$0 query --task=genesis_tool_impl', 'Find organons for a specific task');
+            .example('$0 query --task=genesis_tool_impl', 'Find organons for a specific task')
+            .example('$0 query --category=constraint', 'List all constraint (ETHOS) files');
     },
     handler: async (args) => {
         const fs = new NodeFileSystem();
@@ -75,6 +81,7 @@ export const queryCommand = {
             namePattern: args.name,
             relatedDomain: args.related,
             relatedFeature: args.related,
+            category: args.category,
             verbose: args.verbose,
         });
         console.log(chalk.blue('Organon Query'));

package/dist/cli/commands/query.js.map

@@ -1 +1 @@
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+{"version":3,"file":"query.js","sourceRoot":"","sources":["../../../src/cli/commands/query.ts"],"names":[],"mappings":"AAAA;;GAEG;AAGH,OAAO,KAAK,MAAM,OAAO,CAAC;AAC1B,OAAO,EAAE,aAAa,EAAE,kBAAkB,EAAE,MAAM,sBAAsB,CAAC;AACzE,OAAO,EAAE,KAAK,EAAE,MAAM,qBAAqB,CAAC;AAC5C,OAAO,EAAE,cAAc,EAAE,MAAM,uBAAuB,CAAC;AAgBvD,MAAM,CAAC,MAAM,YAAY,GAAiC;IACxD,OAAO,EAAE,OAAO;IAChB,QAAQ,EAAE,6CAA6C;IAEvD,OAAO,EAAE,CAAC,KAAK,EAAE,EAAE;QACjB,OAAO,KAAK;aACT,MAAM,CAAC,cAAc,EAAE;YACtB,QAAQ,EAAE,wBAAwB;YAClC,IAAI,EAAE,QAAQ;YACd,OAAO,EAAE,OAAO,CAAC,GAAG,EAAE;SACvB,CAAC;aACD,MAAM,CAAC,QAAQ,EAAE;YAChB,QAAQ,EAAE,6BAA6B;YACvC,IAAI,EAAE,QAAQ;SACf,CAAC;aACD,MAAM,CAAC,OAAO,EAAE;YACf,QAAQ,EAAE,iBAAiB;YAC3B,IAAI,EAAE,QAAQ;YACd,OAAO,EAAE,CAAC,SAAS,EAAE,QAAQ,EAAE,SAAS,EAAE,WAAW,EAAE,MAAM,EAAE,aAAa,CAAC;SAC9E,CAAC;aACD,MAAM,CAAC,MAAM,EAAE;YACd,QAAQ,EAAE,gBAAgB;YAC1B,IAAI,EAAE,QAAQ;YACd,OAAO,EAAE,CAAC,YAAY,EAAE,aAAa,EAAE,WAAW,EAAE,YAAY,EAAE,SAAS,CAAC;SAC7E,CAAC;aACD,MAAM,CAAC,UAAU,EAAE;YAClB,QAAQ,EAAE,yBAAyB;YACnC,IAAI,EAAE,QAAQ;YACd,OAAO,EAAE,CAAC,MAAM,EAAE,QAAQ,EAAE,KAAK,CAAC;SACnC,CAAC;aACD,MAAM,CAAC,MAAM,EAAE;YACd,QAAQ,EAAE,6BAA6B;YACvC,IAAI,EAAE,QAAQ;SACf,CAAC;aACD,MAAM,CAAC,QAAQ,EAAE;YAChB,QAAQ,EAAE,4BAA4B;YACtC,IAAI,EAAE,QAAQ;SACf,CAAC;aACD,MAAM,CAAC,MAAM,EAAE;YACd,QAAQ,EAAE,kCAAkC;YAC5C,IAAI,EAAE,QAAQ;SACf,CAAC;aACD,MAAM,CAAC,SAAS,EAAE;YACjB,QAAQ,EAAE,qCAAqC;YAC/C,IAAI,EAAE,QAAQ;SACf,CAAC;aACD,MAAM,CAAC,UAAU,EAAE;YAClB,QAAQ,EAAE,8BAA8B;YACxC,IAAI,EAAE,QAAQ;YACd,OAAO,EAAE,CAAC,YAAY,EAAE,WAAW,EAAE,MAAM,CAAC;SAC7C,CAAC;aACD,MAAM,CAAC,SAAS,EAAE;YACjB,QAAQ,EAAE,wBAAwB;YAClC,IAAI,EAAE,SAAS;YACf,OAAO,EAAE,KAAK;SACf,CAAC;aACD,OAAO,CAAC,uBAAuB,EAAE,8BAA8B,CAAC;aAChE,OAAO,CAAC,yBAAyB,EAAE,wCAAwC,CAAC;aAC5E,OAAO,CAAC,mCAAmC,EAAE,mCAAmC,CAAC;aACjF,OAAO,CAAC,gCAAgC,EAAE,mCAAmC,CAAC,CAAC;IACpF,CAAC;IAED,OAAO,EAAE,KAAK,EAAE,IAAI,EAAE,EAAE;QACtB,MAAM,EAAE,GAAG,IAAI,cAAc,EAAE,CAAC;QAChC,MAAM,WAAW,GAAG,MAAM,kBAAkB,CAAC,IAAI,CAAC,cAAc,CAAC,EAAE,EAAE,CAAC,CAAC;QACvE,MAAM,MAAM,GAAG,MAAM,aAAa,CAAC,WAAW,EAAE,EAAE,EAAE,IAAI,CAAC,MAAM,CAAC,CAAC;QAEjE,MAAM,MAAM,GAAG,MAAM,KAAK,CAAC;YACzB,WAAW;YACX,MAAM;YACN,EAAE;YACF,KAAK,EAAE,IAAI,CAAC,KAAY;YACxB,IAAI,EAAE,IAAI,CAAC,IAAW;YACtB,QAAQ,EAAE,IAAI,CAAC,QAAe;YAC9B,IAAI,EAAE,IAAI,CAAC,IAAI;YACf,MAAM,EAAE,IAAI,CAAC,MAAM;YACnB,WAAW,EAAE,IAAI,CAAC,IAAI;YACtB,aAAa,EAAE,IAAI,CAAC,OAAO;YAC3B,cAAc,EAAE,IAAI,CAAC,OAAO;YAC5B,QAAQ,EAAE,IAAI,CAAC,QAAe;YAC9B,OAAO,EAAE,IAAI,CAAC,OAAO;SACtB,CAAC,CAAC;QAEH,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,IAAI,CAAC,eAAe,CAAC,CAAC,CAAC;QACzC,OAAO,CAAC,GAAG,EAAE,CAAC;QAEd,IAAI,MAAM,CAAC,KAAK,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;YAC9B,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,MAAM,CAAC,2BAA2B,CAAC,CAAC,CAAC;QACzD,CAAC;aAAM,CAAC;YACN,KAAK,MAAM,CAAC,IAAI,MAAM,CAAC,KAAK,EAAE,CAAC;gBAC7B,MAAM,EAAE,GAAG,CAAC,CAAC,WAAW,CAAC;gBACzB,MAAM,MAAM,GAAG,EAAE,EAAE,cAAc,IAAI,GAAG,CAAC;gBACzC,MAAM,QAAQ,GAAG,EAAE,EAAE,aAAa,IAAI,GAAG,CAAC;gBAC1C,OAAO,CAAC,GAAG,CAAC,KAAK,KAAK,CAAC,KAAK,CAAC,CAAC,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;gBACxC,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,GAAG,CAAC,OAAO,EAAE,EAAE,IAAI,IAAI,GAAG,MAAM,EAAE,EAAE,KAAK,IAAI,GAAG,MAAM,MAAM,uBAAuB,QAAQ,EAAE,CAAC,CAAC,CAAC;gBAClH,IAAI,EAAE,EAAE,OAAO,EAAE,CAAC;oBAChB,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,GAAG,CAAC,OAAO,EAAE,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC;gBAC9C,CAAC;YACH,CAAC;QACH,CAAC;QAED,OAAO,CAAC,GAAG,EAAE,CAAC;QACd,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,GAAG,CAAC,GAAG,MAAM,CAAC,KAAK,CAAC,MAAM,cAAc,MAAM,CAAC,WAAW,eAAe,CAAC,CAAC,CAAC;QAE9F,KAAK,MAAM,CAAC,IAAI,MAAM,CAAC,QAAQ,EAAE,CAAC;YAChC,OAAO,CAAC,GAAG,CAAC,KAAK,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,OAAO,EAAE,CAAC,CAAC,CAAC;QAChD,CAAC;IACH,CAAC;CACF,CAAC"}

package/dist/cli/index.d.ts

@@ -14,6 +14,7 @@
  *   coverage       — Invariant coverage analysis
  *   generate-tests — Generate test scaffolds for uncovered invariants
  *   suggest        — Suggest automation tier upgrades
+ *   export         — Export knowledge graph as JSON
  *   release        — Version bump and release
  *   mcp            — Start MCP server
  */

package/dist/cli/index.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/cli/index.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;;;;;;;GAiBG"}
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/cli/index.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;;;;;;;;GAkBG"}

package/dist/cli/index.js

@@ -14,6 +14,7 @@
  *   coverage       — Invariant coverage analysis
  *   generate-tests — Generate test scaffolds for uncovered invariants
  *   suggest        — Suggest automation tier upgrades
+ *   export         — Export knowledge graph as JSON
  *   release        — Version bump and release
  *   mcp            — Start MCP server
  */
@@ -31,6 +32,7 @@ import { verifyCommand } from './commands/verify.js';
 import { coverageCommand } from './commands/coverage.js';
 import { generateTestsCommand } from './commands/generate-tests.js';
 import { suggestCommand } from './commands/suggest.js';
+import { exportCommand } from './commands/export.js';
 import { releaseCommand } from './commands/release.js';
 import { mcpCommand } from './commands/mcp.js';
 async function main() {
@@ -48,6 +50,7 @@ async function main() {
         .command(coverageCommand)
         .command(generateTestsCommand)
         .command(suggestCommand)
+        .command(exportCommand)
         .command(releaseCommand)
         .command(mcpCommand)
         .demandCommand(1, chalk.red('Please specify a command'))

package/dist/cli/index.js.map

@@ -1 +1 @@
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+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/cli/index.ts"],"names":[],"mappings":";AACA;;;;;;;;;;;;;;;;;;GAkBG;AAEH,OAAO,KAAK,MAAM,OAAO,CAAC;AAC1B,OAAO,EAAE,OAAO,EAAE,MAAM,eAAe,CAAC;AACxC,OAAO,KAAK,MAAM,OAAO,CAAC;AAE1B,OAAO,EAAE,WAAW,EAAE,MAAM,oBAAoB,CAAC;AACjD,OAAO,EAAE,cAAc,EAAE,MAAM,uBAAuB,CAAC;AACvD,OAAO,EAAE,eAAe,EAAE,MAAM,wBAAwB,CAAC;AACzD,OAAO,EAAE,eAAe,EAAE,MAAM,wBAAwB,CAAC;AACzD,OAAO,EAAE,YAAY,EAAE,MAAM,qBAAqB,CAAC;AACnD,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AACrD,OAAO,EAAE,WAAW,EAAE,MAAM,oBAAoB,CAAC;AACjD,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AACrD,OAAO,EAAE,eAAe,EAAE,MAAM,wBAAwB,CAAC;AACzD,OAAO,EAAE,oBAAoB,EAAE,MAAM,8BAA8B,CAAC;AACpE,OAAO,EAAE,cAAc,EAAE,MAAM,uBAAuB,CAAC;AACvD,OAAO,EAAE,aAAa,EAAE,MAAM,sBAAsB,CAAC;AACrD,OAAO,EAAE,cAAc,EAAE,MAAM,uBAAuB,CAAC;AACvD,OAAO,EAAE,UAAU,EAAE,MAAM,mBAAmB,CAAC;AAE/C,KAAK,UAAU,IAAI;IACjB,MAAM,KAAK,CAAC,OAAO,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC;SAC/B,UAAU,CAAC,SAAS,CAAC;SACrB,KAAK,CAAC,wBAAwB,CAAC;SAC/B,OAAO,CAAC,WAAW,CAAC;SACpB,OAAO,CAAC,cAAc,CAAC;SACvB,OAAO,CAAC,eAAe,CAAC;SACxB,OAAO,CAAC,eAAe,CAAC;SACxB,OAAO,CAAC,YAAY,CAAC;SACrB,OAAO,CAAC,aAAa,CAAC;SACtB,OAAO,CAAC,WAAW,CAAC;SACpB,OAAO,CAAC,aAAa,CAAC;SACtB,OAAO,CAAC,eAAe,CAAC;SACxB,OAAO,CAAC,oBAAoB,CAAC;SAC7B,OAAO,CAAC,cAAc,CAAC;SACvB,OAAO,CAAC,aAAa,CAAC;SACtB,OAAO,CAAC,cAAc,CAAC;SACvB,OAAO,CAAC,UAAU,CAAC;SACnB,aAAa,CAAC,CAAC,EAAE,KAAK,CAAC,GAAG,CAAC,0BAA0B,CAAC,CAAC;SACvD,IAAI,EAAE;SACN,KAAK,CAAC,GAAG,EAAE,MAAM,CAAC;SAClB,OAAO,EAAE;SACT,KAAK,CAAC,GAAG,EAAE,SAAS,CAAC;SACrB,MAAM,EAAE;SACR,KAAK,EAAE,CAAC;AACb,CAAC;AAED,IAAI,EAAE,CAAC,KAAK,CAAC,CAAC,KAAK,EAAE,EAAE;IACrB,OAAO,CAAC,KAAK,CAAC,KAAK,CAAC,GAAG,CAAC,QAAQ,CAAC,EAAE,KAAK,CAAC,OAAO,CAAC,CAAC;IAClD,OAAO,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;AAClB,CAAC,CAAC,CAAC"}

package/dist/core/config.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"config.d.ts","sourceRoot":"","sources":["../../src/core/config.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAE,aAAa,EAAE,MAAM,YAAY,CAAC;AAU5D,QAAA,MAAM,gBAAgB;;;;;;;;;;;;;kBASX,CAAC;AAEZ,MAAM,MAAM,UAAU,GAAG,CAAC,CAAC,KAAK,CAAC,OAAO,gBAAgB,CAAC,CAAC;AA+B1D;;GAEG;AACH,wBAAsB,aAAa,CACjC,WAAW,EAAE,MAAM,EACnB,EAAE,EAAE,UAAU,EACd,UAAU,CAAC,EAAE,MAAM,GAClB,OAAO,CAAC,aAAa,CAAC,CAyBxB;AAqCD;;;GAGG;AACH,wBAAgB,QAAQ,CAAC,GAAG,QAAQ,EAAE,MAAM,EAAE,GAAG,MAAM,CAKtD;AAED;;GAEG;AACH,wBAAgB,OAAO,CAAC,IAAI,EAAE,MAAM,GAAG,MAAM,CAK5C;AAED;;GAEG;AACH,wBAAgB,QAAQ,CAAC,IAAI,EAAE,MAAM,GAAG,MAAM,CAI7C;AAED;;;GAGG;AACH,wBAAsB,eAAe,CACnC,QAAQ,EAAE,MAAM,EAChB,EAAE,EAAE,UAAU,GACb,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CA0BxB;AAED;;;;GAIG;AACH,wBAAsB,kBAAkB,CACtC,YAAY,EAAE,MAAM,GAAG,SAAS,EAChC,EAAE,EAAE,UAAU,GACb,OAAO,CAAC,MAAM,CAAC,CASjB"}
+{"version":3,"file":"config.d.ts","sourceRoot":"","sources":["../../src/core/config.ts"],"names":[],"mappings":"AAAA;;;;;;;GAOG;AAEH,OAAO,EAAE,CAAC,EAAE,MAAM,KAAK,CAAC;AACxB,OAAO,KAAK,EAAE,UAAU,EAAE,aAAa,EAAE,MAAM,YAAY,CAAC;AAU5D,QAAA,MAAM,gBAAgB;;;;;;;;;;;;;kBASX,CAAC;AAEZ,MAAM,MAAM,UAAU,GAAG,CAAC,CAAC,KAAK,CAAC,OAAO,gBAAgB,CAAC,CAAC;AAiC1D;;GAEG;AACH,wBAAsB,aAAa,CACjC,WAAW,EAAE,MAAM,EACnB,EAAE,EAAE,UAAU,EACd,UAAU,CAAC,EAAE,MAAM,GAClB,OAAO,CAAC,aAAa,CAAC,CAyBxB;AAqCD;;;GAGG;AACH,wBAAgB,QAAQ,CAAC,GAAG,QAAQ,EAAE,MAAM,EAAE,GAAG,MAAM,CAKtD;AAED;;GAEG;AACH,wBAAgB,OAAO,CAAC,IAAI,EAAE,MAAM,GAAG,MAAM,CAK5C;AAED;;GAEG;AACH,wBAAgB,QAAQ,CAAC,IAAI,EAAE,MAAM,GAAG,MAAM,CAI7C;AAED;;;GAGG;AACH,wBAAsB,eAAe,CACnC,QAAQ,EAAE,MAAM,EAChB,EAAE,EAAE,UAAU,GACb,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,CA0BxB;AAED;;;;GAIG;AACH,wBAAsB,kBAAkB,CACtC,YAAY,EAAE,MAAM,GAAG,SAAS,EAChC,EAAE,EAAE,UAAU,GACb,OAAO,CAAC,MAAM,CAAC,CASjB"}

package/dist/core/config.js

@@ -30,6 +30,8 @@ const DEFAULT_ORGANON_GLOBS = [
     '**/PROTOCOLS.md',
     '**/README.md',
     '**/components.md',
+    '**/observations/*.md',
+    '**/rfcs/*.md',
 ];
 const DEFAULT_IGNORE_PATTERNS = [
     '**/node_modules/**',

package/dist/core/config.js.map

@@ -1 +1 @@
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package/dist/core/discover.d.ts

@@ -0,0 +1,12 @@
+/**
+ * Shared organon file discovery.
+ *
+ * Resolves organonPaths × organonGlobs into a deduplicated, sorted list of
+ * organon file paths.  When the organon path is "." (project root),
+ * recursive glob prefixes are stripped so that only root-level files match — this
+ * prevents false-positive frontmatter checks on non-organon markdown files
+ * buried deeper in the project tree.
+ */
+import type { FileSystem, OrganonConfig } from './types.js';
+export declare function discoverOrganonFiles(projectRoot: string, config: OrganonConfig, fs: FileSystem): Promise<string[]>;
+//# sourceMappingURL=discover.d.ts.map

package/dist/core/discover.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"discover.d.ts","sourceRoot":"","sources":["../../src/core/discover.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAEH,OAAO,KAAK,EAAE,UAAU,EAAE,aAAa,EAAE,MAAM,YAAY,CAAC;AAE5D,wBAAsB,oBAAoB,CACxC,WAAW,EAAE,MAAM,EACnB,MAAM,EAAE,aAAa,EACrB,EAAE,EAAE,UAAU,GACb,OAAO,CAAC,MAAM,EAAE,CAAC,CAqBnB"}

package/dist/core/discover.js

@@ -0,0 +1,30 @@
+/**
+ * Shared organon file discovery.
+ *
+ * Resolves organonPaths × organonGlobs into a deduplicated, sorted list of
+ * organon file paths.  When the organon path is "." (project root),
+ * recursive glob prefixes are stripped so that only root-level files match — this
+ * prevents false-positive frontmatter checks on non-organon markdown files
+ * buried deeper in the project tree.
+ */
+export async function discoverOrganonFiles(projectRoot, config, fs) {
+    const allFiles = new Set();
+    for (const organonPath of config.organonPaths) {
+        for (const pattern of config.organonGlobs) {
+            // "." means project root — match root-level files only (no recursion).
+            // Named paths like "organon" or "book-llms" keep recursive ** globs.
+            const fullPattern = organonPath === '.'
+                ? pattern.replace(/^\*\*\//, '')
+                : `${organonPath}/${pattern}`;
+            const matches = await fs.glob(fullPattern, {
+                cwd: projectRoot,
+                ignore: config.ignorePatterns,
+            });
+            for (const m of matches) {
+                allFiles.add(m);
+            }
+        }
+    }
+    return [...allFiles].sort();
+}
+//# sourceMappingURL=discover.js.map

package/dist/core/discover.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"discover.js","sourceRoot":"","sources":["../../src/core/discover.ts"],"names":[],"mappings":"AAAA;;;;;;;;GAQG;AAIH,MAAM,CAAC,KAAK,UAAU,oBAAoB,CACxC,WAAmB,EACnB,MAAqB,EACrB,EAAc;IAEd,MAAM,QAAQ,GAAG,IAAI,GAAG,EAAU,CAAC;IAEnC,KAAK,MAAM,WAAW,IAAI,MAAM,CAAC,YAAY,EAAE,CAAC;QAC9C,KAAK,MAAM,OAAO,IAAI,MAAM,CAAC,YAAY,EAAE,CAAC;YAC1C,uEAAuE;YACvE,qEAAqE;YACrE,MAAM,WAAW,GAAG,WAAW,KAAK,GAAG;gBACrC,CAAC,CAAC,OAAO,CAAC,OAAO,CAAC,SAAS,EAAE,EAAE,CAAC;gBAChC,CAAC,CAAC,GAAG,WAAW,IAAI,OAAO,EAAE,CAAC;YAChC,MAAM,OAAO,GAAG,MAAM,EAAE,CAAC,IAAI,CAAC,WAAW,EAAE;gBACzC,GAAG,EAAE,WAAW;gBAChB,MAAM,EAAE,MAAM,CAAC,cAAc;aAC9B,CAAC,CAAC;YACH,KAAK,MAAM,CAAC,IAAI,OAAO,EAAE,CAAC;gBACxB,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC;YAClB,CAAC;QACH,CAAC;IACH,CAAC;IAED,OAAO,CAAC,GAAG,QAAQ,CAAC,CAAC,IAAI,EAAE,CAAC;AAC9B,CAAC"}

package/dist/core/discover.test.d.ts

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

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

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

package/dist/core/discover.test.js

@@ -0,0 +1,135 @@
+/**
+ * Tests for shared organon file discovery.
+ *
+ * @organon-invariant INV-TOOLS-2 every-command-has-tests
+ */
+import { describe, it, expect } from 'vitest';
+import { discoverOrganonFiles } from './discover.js';
+import { MemoryFileSystem } from './test-helpers.js';
+function makeConfig(overrides) {
+    return {
+        projectRoot: '/project',
+        organonPaths: ['.', 'organon'],
+        organonGlobs: ['**/ETHOS.md', '**/PHILOSOPHY.md', '**/README.md'],
+        ignorePatterns: [],
+        workflowPaths: {},
+        freshnessThresholdHours: 24,
+        ...overrides,
+    };
+}
+describe('discoverOrganonFiles', () => {
+    it('discovers files in named organon paths recursively', async () => {
+        const fs = new MemoryFileSystem({
+            '/project/organon/ETHOS.md': 'ethos',
+            '/project/organon/domains/tools/ETHOS.md': 'ethos nested',
+            '/project/organon/domains/tools/PHILOSOPHY.md': 'philosophy nested',
+        });
+        const config = makeConfig({ organonPaths: ['organon'] });
+        const result = await discoverOrganonFiles('/project', config, fs);
+        expect(result).toEqual([
+            'organon/ETHOS.md',
+            'organon/domains/tools/ETHOS.md',
+            'organon/domains/tools/PHILOSOPHY.md',
+        ]);
+    });
+    it('discovers root-level files via "." path', async () => {
+        const fs = new MemoryFileSystem({
+            '/project/ETHOS.md': 'root ethos',
+            '/project/README.md': 'root readme',
+        });
+        const config = makeConfig({ organonPaths: ['.'] });
+        const result = await discoverOrganonFiles('/project', config, fs);
+        expect(result).toContain('ETHOS.md');
+        expect(result).toContain('README.md');
+    });
+    it('does NOT discover nested files via "." path (the fix)', async () => {
+        const fs = new MemoryFileSystem({
+            '/project/README.md': 'root readme — organon file',
+            '/project/ETHOS.md': 'root ethos — organon file',
+            '/project/experiments/001/README.md': 'experiment readme — NOT organon',
+            '/project/modules/app/README.md': 'module readme — NOT organon',
+            '/project/research/README.md': 'research readme — NOT organon',
+        });
+        const config = makeConfig({ organonPaths: ['.'] });
+        const result = await discoverOrganonFiles('/project', config, fs);
+        expect(result).toContain('README.md');
+        expect(result).toContain('ETHOS.md');
+        expect(result).not.toContain('experiments/001/README.md');
+        expect(result).not.toContain('modules/app/README.md');
+        expect(result).not.toContain('research/README.md');
+    });
+    it('combines "." root-only with named path recursive discovery', async () => {
+        const fs = new MemoryFileSystem({
+            '/project/README.md': 'root readme',
+            '/project/ETHOS.md': 'root ethos',
+            '/project/experiments/README.md': 'should be excluded',
+            '/project/organon/ETHOS.md': 'organon ethos',
+            '/project/organon/domains/tools/ETHOS.md': 'nested organon ethos',
+        });
+        const config = makeConfig({ organonPaths: ['.', 'organon'] });
+        const result = await discoverOrganonFiles('/project', config, fs);
+        expect(result).toEqual([
+            'ETHOS.md',
+            'README.md',
+            'organon/ETHOS.md',
+            'organon/domains/tools/ETHOS.md',
+        ]);
+    });
+    it('applies ignorePatterns', async () => {
+        const fs = new MemoryFileSystem({
+            '/project/organon/ETHOS.md': 'ethos',
+            '/project/organon/vendor/ETHOS.md': 'vendor ethos',
+        });
+        const config = makeConfig({
+            organonPaths: ['organon'],
+            ignorePatterns: ['**/vendor/**'],
+        });
+        const result = await discoverOrganonFiles('/project', config, fs);
+        expect(result).toEqual(['organon/ETHOS.md']);
+        expect(result).not.toContain('organon/vendor/ETHOS.md');
+    });
+    it('deduplicates files matched by multiple paths', async () => {
+        const fs = new MemoryFileSystem({
+            '/project/organon/ETHOS.md': 'ethos',
+        });
+        // Both paths could match the same file
+        const config = makeConfig({
+            organonPaths: ['organon', 'organon'],
+        });
+        const result = await discoverOrganonFiles('/project', config, fs);
+        expect(result).toEqual(['organon/ETHOS.md']);
+    });
+    it('returns sorted results', async () => {
+        const fs = new MemoryFileSystem({
+            '/project/organon/domains/z/ETHOS.md': 'z',
+            '/project/organon/domains/a/ETHOS.md': 'a',
+            '/project/organon/ETHOS.md': 'root',
+        });
+        const config = makeConfig({ organonPaths: ['organon'] });
+        const result = await discoverOrganonFiles('/project', config, fs);
+        expect(result).toEqual([
+            'organon/ETHOS.md',
+            'organon/domains/a/ETHOS.md',
+            'organon/domains/z/ETHOS.md',
+        ]);
+    });
+    it('returns empty array when no files match', async () => {
+        const fs = new MemoryFileSystem({});
+        const config = makeConfig();
+        const result = await discoverOrganonFiles('/project', config, fs);
+        expect(result).toEqual([]);
+    });
+    it('handles globs without **/ prefix via "." path unchanged', async () => {
+        // A glob like "ETHOS.md" (no **/ prefix) should work as-is
+        const fs = new MemoryFileSystem({
+            '/project/ETHOS.md': 'ethos',
+        });
+        const config = makeConfig({
+            organonPaths: ['.'],
+            organonGlobs: ['ETHOS.md'],
+        });
+        const result = await discoverOrganonFiles('/project', config, fs);
+        expect(result).toEqual(['ETHOS.md']);
+    });
+});
+//# sourceMappingURL=discover.test.js.map

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

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

@@ -0,0 +1,17 @@
+/**
+ * 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 type { ExportResult, FileSystem, OrganonConfig } from './types.js';
+export interface ExportOptions {
+    projectRoot: string;
+    config: OrganonConfig;
+    fs: FileSystem;
+    /** Package version to include in export metadata */
+    version?: string;
+}
+export declare function exportKnowledgeGraph(options: ExportOptions): Promise<ExportResult>;
+//# sourceMappingURL=export.d.ts.map

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

@@ -0,0 +1 @@
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