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/zod-to-json-schema/dist/esm/parsers/nullable.js

@@ -0,0 +1,33 @@
+import { parseDef } from "../parseDef.js";
+import { primitiveMappings } from "./union.js";
+export function parseNullableDef(def, refs) {
+    if (["ZodString", "ZodNumber", "ZodBigInt", "ZodBoolean", "ZodNull"].includes(def.innerType._def.typeName) &&
+        (!def.innerType._def.checks || !def.innerType._def.checks.length)) {
+        if (refs.target === "openApi3") {
+            return {
+                type: primitiveMappings[def.innerType._def.typeName],
+                nullable: true,
+            };
+        }
+        return {
+            type: [
+                primitiveMappings[def.innerType._def.typeName],
+                "null",
+            ],
+        };
+    }
+    if (refs.target === "openApi3") {
+        const base = parseDef(def.innerType._def, {
+            ...refs,
+            currentPath: [...refs.currentPath],
+        });
+        if (base && "$ref" in base)
+            return { allOf: [base], nullable: true };
+        return base && { ...base, nullable: true };
+    }
+    const base = parseDef(def.innerType._def, {
+        ...refs,
+        currentPath: [...refs.currentPath, "anyOf", "0"],
+    });
+    return base && { anyOf: [base, { type: "null" }] };
+}