Flatten MkDocs Structure + --module-is-source Support (#4)

# Merge Request: Flatten MkDocs Structure + `--module-is-source` Support

## Summary

This MR introduces structural improvements to the MkDocs generation pipeline to:

1. Ensure a root `docs/index.md` always exists
2. Flatten documentation structure (remove `docs/<module>/` nesting by default)
3. Add support for `--module-is-source` to treat the module as the documentation root
4. Align navigation (`docforge.nav.yml`) with the new flat layout
5. Regenerate MCP artifacts to reflect updated signatures and docstrings

This resolves static hosting issues (e.g., Nginx 403 due to missing `site/index.html`) and makes each generated MkDocs site deployable as a standalone static website.

---

## Motivation

Previously, documentation was generated under:

```
docs/<module>/...
```

Which resulted in:

```
site/<module>/index.html
```

When deployed at `/libs/<project>/`, this caused:

* Missing `site/index.html`
* Nginx returning 403 for root access
* Inconsistent static hosting behavior

This MR corrects the architecture so each MkDocs build is a valid static site with a root entry point.

---

## Key Changes

### 1️⃣ Flattened Docs Structure

**Before**

```
docs/docforge/index.md
```

**After**

```
docs/index.md
```

All documentation paths were updated accordingly:

* `docs/docforge/cli/...` → `docs/cli/...`
* `docs/docforge/models/...` → `docs/models/...`
* `docs/docforge/renderers/...` → `docs/renderers/...`

Navigation updated to match the flat layout.

---

### 2️⃣ Root Index Enforcement

`MkDocsRenderer` now guarantees:

* `docs/index.md` is always created
* Parent `index.md` files are auto-generated if missing
* Parent indexes link to child modules (idempotent behavior)

This ensures:

```
site/index.html
```

Always exists after `mkdocs build`.

---

### 3️⃣ New CLI Flag: `--module-is-source`

Added option:

```
--module-is-source
```

Behavior:

* Treats the provided module as the documentation root
* Removes the top-level module folder from generated paths
* Prevents redundant nesting when the module corresponds to the source root

Updated components:

* `cli.commands.build`
* `mkdocs_utils.generate_sources`
* `MkDocsRenderer.generate_sources`
* Stub files (`.pyi`)
* MCP JSON artifacts

---

### 4️⃣ Navigation Spec Update

`docforge.nav.yml` updated:

**Before**

```yaml
home: docforge/index.md
```

**After**

```yaml
home: index.md
```

All group paths adjusted to remove `docforge/` prefix.

---

### 5️⃣ MkDocs Config Update

`mkdocs.yml` updated to:

* Move `site_name` below theme/plugins
* Use flat navigation paths
* Point Home to `index.md`

---

### 6️⃣ MCP Artifact Regeneration

Updated:

* Function signatures (new parameter)
* Docstrings (reflect `module_is_source`)
* Renderer metadata
* Line numbers

Ensures MCP output matches updated API.

---

## Architectural Outcome

Each project now produces a **valid standalone static site**:

```
site/
  index.html
  assets/
  search/
```

Safe for deployment under:

```
/libs/<project>/
```

No Nginx rewrites required.
No directory-index issues.
No nested-site ambiguity.

---

## Backward Compatibility

* Existing CLI usage remains valid
* `--module-is-source` is optional
* Navigation spec format unchanged (only paths adjusted)

---

## Deployment Impact

After merge:

* Each library can be deployed independently
* Sites can be merged under a shared root without internal conflicts
* Static hosting is predictable and production-safe

---

## Testing

* Verified MkDocs build produces `site/index.html`
* Verified navigation renders correctly
* Verified parent index generation is idempotent
* Regenerated MCP docs and validated schema consistency

---

## Result

The documentation compiler now:

* Produces structurally correct static sites
* Supports flat and source-root modes
* Eliminates 403 root issues
* Scales cleanly across multiple repositories

This aligns doc-forge with proper static-site architectural invariants.

Reviewed-on: #4
Co-authored-by: Vishesh 'ironeagle' Bangotra <aetoskia@gmail.com>
Co-committed-by: Vishesh 'ironeagle' Bangotra <aetoskia@gmail.com>

mcp_docs/modules/docforge.renderers.mkdocs_renderer.json

@@ -2,7 +2,7 @@
   "module": "docforge.renderers.mkdocs_renderer",
   "content": {
     "path": "docforge.renderers.mkdocs_renderer",
-    "docstring": "This module implements the MkDocsRenderer, which generates Markdown source files\ncompatible with the MkDocs 'material' theme and 'mkdocstrings' extension.",
+    "docstring": "MkDocsRenderer\n\nGenerates Markdown source files compatible with MkDocs Material\nand mkdocstrings, ensuring:\n\n- Root index.md always exists\n- Parent package indexes are created automatically\n- Child modules are linked in parent index files",
     "objects": {
       "Path": {
         "name": "Path",
@@ -62,36 +62,6 @@
           }
         }
       },
-      "MkDocsRenderer": {
-        "name": "MkDocsRenderer",
-        "kind": "class",
-        "path": "docforge.renderers.mkdocs_renderer.MkDocsRenderer",
-        "signature": "<bound method Class.signature of Class('MkDocsRenderer', 11, 91)>",
-        "docstring": "Renderer that generates Markdown source files formatted for the MkDocs\n'mkdocstrings' plugin.",
-        "members": {
-          "name": {
-            "name": "name",
-            "kind": "attribute",
-            "path": "docforge.renderers.mkdocs_renderer.MkDocsRenderer.name",
-            "signature": null,
-            "docstring": null
-          },
-          "generate_sources": {
-            "name": "generate_sources",
-            "kind": "function",
-            "path": "docforge.renderers.mkdocs_renderer.MkDocsRenderer.generate_sources",
-            "signature": "<bound method Function.signature of Function('generate_sources', 19, 38)>",
-            "docstring": "Produce a set of Markdown files in the output directory based on the\nprovided Project models.\n\nArgs:\n    project: The project models to render.\n    out_dir: Target directory for documentation files."
-          }
-        }
-      },
-      "Set": {
-        "name": "Set",
-        "kind": "alias",
-        "path": "docforge.renderers.mkdocs_renderer.Set",
-        "signature": "<bound method Alias.signature of Alias('Set', 'typing.Set')>",
-        "docstring": null
-      },
       "Module": {
         "name": "Module",
         "kind": "class",
@@ -142,6 +112,29 @@
             "docstring": "Get all top-level objects in the module.\n\nReturns:\n    An iterable of DocObject instances."
           }
         }
+      },
+      "MkDocsRenderer": {
+        "name": "MkDocsRenderer",
+        "kind": "class",
+        "path": "docforge.renderers.mkdocs_renderer.MkDocsRenderer",
+        "signature": "<bound method Class.signature of Class('MkDocsRenderer', 16, 168)>",
+        "docstring": "Renderer that generates Markdown source files formatted for the MkDocs\n'mkdocstrings' plugin.",
+        "members": {
+          "name": {
+            "name": "name",
+            "kind": "attribute",
+            "path": "docforge.renderers.mkdocs_renderer.MkDocsRenderer.name",
+            "signature": null,
+            "docstring": null
+          },
+          "generate_sources": {
+            "name": "generate_sources",
+            "kind": "function",
+            "path": "docforge.renderers.mkdocs_renderer.MkDocsRenderer.generate_sources",
+            "signature": "<bound method Function.signature of Function('generate_sources', 27, 60)>",
+            "docstring": "Produce a set of Markdown files in the output directory based on the\nprovided Project models.\n\nArgs:\n    project: The project models to render.\n    out_dir: Target directory for documentation files.\n    module_is_source: Module is the source folder and to be treated as the root folder."
+          }
+        }
       }
     }
   }