fix: keep only source-map extracted node_modules, exclude pnpm artifacts

Restore node_modules to exact state from cli.js.map extraction:
- Move .ignored/ and .ignored_* files back to original package paths
- Remove pnpm symlinks (replaced by real source-map directories)
- Update .gitignore: only exclude /dist/, .pnpm/, .bin/, .ignored* dirs
- All package dist/ folders are now preserved as part of source-map files

After clone, run `pnpm install` to get pnpm-managed symlinks for building.
The committed node_modules contains the original TypeScript/JS source files
as bundled in cli.js.

claude-code-source/node_modules/yaml/dist/schema/json/schema.js

@@ -0,0 +1,64 @@
+'use strict';
+
+var Scalar = require('../../nodes/Scalar.js');
+var map = require('../common/map.js');
+var seq = require('../common/seq.js');
+
+function intIdentify(value) {
+    return typeof value === 'bigint' || Number.isInteger(value);
+}
+const stringifyJSON = ({ value }) => JSON.stringify(value);
+const jsonScalars = [
+    {
+        identify: value => typeof value === 'string',
+        default: true,
+        tag: 'tag:yaml.org,2002:str',
+        resolve: str => str,
+        stringify: stringifyJSON
+    },
+    {
+        identify: value => value == null,
+        createNode: () => new Scalar.Scalar(null),
+        default: true,
+        tag: 'tag:yaml.org,2002:null',
+        test: /^null$/,
+        resolve: () => null,
+        stringify: stringifyJSON
+    },
+    {
+        identify: value => typeof value === 'boolean',
+        default: true,
+        tag: 'tag:yaml.org,2002:bool',
+        test: /^true$|^false$/,
+        resolve: str => str === 'true',
+        stringify: stringifyJSON
+    },
+    {
+        identify: intIdentify,
+        default: true,
+        tag: 'tag:yaml.org,2002:int',
+        test: /^-?(?:0|[1-9][0-9]*)$/,
+        resolve: (str, _onError, { intAsBigInt }) => intAsBigInt ? BigInt(str) : parseInt(str, 10),
+        stringify: ({ value }) => intIdentify(value) ? value.toString() : JSON.stringify(value)
+    },
+    {
+        identify: value => typeof value === 'number',
+        default: true,
+        tag: 'tag:yaml.org,2002:float',
+        test: /^-?(?:0|[1-9][0-9]*)(?:\.[0-9]*)?(?:[eE][-+]?[0-9]+)?$/,
+        resolve: str => parseFloat(str),
+        stringify: stringifyJSON
+    }
+];
+const jsonError = {
+    default: true,
+    tag: '',
+    test: /^/,
+    resolve(str, onError) {
+        onError(`Unresolved plain scalar ${JSON.stringify(str)}`);
+        return str;
+    }
+};
+const schema = [map.map, seq.seq].concat(jsonScalars, jsonError);
+
+exports.schema = schema;