chore: bump version to 0.12.9

extensions/catalog.community.json

@@ -1,6 +1,6 @@
 {
   "schema_version": "1.0",
-  "updated_at": "2026-07-08T00:00:00Z",
+  "updated_at": "2026-07-07T00:00:00Z",
   "catalog_url": "https://raw.githubusercontent.com/github/spec-kit/main/extensions/catalog.community.json",
   "extensions": {
     "aide": {
@@ -854,10 +854,7 @@
       "requires": {
         "speckit_version": ">=0.9.5",
         "tools": [
-          {
-            "name": "python3",
-            "required": false
-          }
+          { "name": "python3", "required": false }
         ]
       },
       "provides": {
@@ -1111,8 +1108,8 @@
       "id": "docguard",
       "description": "The only doc-integrity engine with an MCP server, SARIF output, and a deterministic zero-LLM core. Validates, scores, and traces documentation against code — 24 validators, stable finding codes, GitHub Action with PR annotations, spec-kit hooks. Pure Node.js, one pinned dep.",
       "author": "raccioly",
-      "version": "0.31.0",
-      "download_url": "https://github.com/raccioly/docguard/releases/download/v0.31.0/spec-kit-docguard-v0.31.0.zip",
+      "version": "0.30.0",
+      "download_url": "https://github.com/raccioly/docguard/releases/download/v0.30.0/spec-kit-docguard-v0.30.0.zip",
       "repository": "https://github.com/raccioly/docguard",
       "homepage": "https://www.npmjs.com/package/docguard-cli",
       "documentation": "https://github.com/raccioly/docguard/blob/main/extensions/spec-kit-docguard/README.md",
@@ -1148,7 +1145,7 @@
       "downloads": 0,
       "stars": 0,
       "created_at": "2026-03-13T00:00:00Z",
-      "updated_at": "2026-07-08T00:00:00Z"
+      "updated_at": "2026-07-06T00:00:00Z"
     },
     "doctor": {
       "name": "Project Health Check",
@@ -1667,31 +1664,12 @@
       "requires": {
         "speckit_version": ">=0.1.0",
         "tools": [
-          {
-            "name": "bash",
-            "version": ">=4.4",
-            "required": true
-          },
-          {
-            "name": "git",
-            "required": true
-          },
-          {
-            "name": "curl",
-            "required": true
-          },
-          {
-            "name": "jq",
-            "required": true
-          },
-          {
-            "name": "gitleaks",
-            "required": false
-          },
-          {
-            "name": "trufflehog",
-            "required": false
-          }
+          { "name": "bash", "version": ">=4.4", "required": true },
+          { "name": "git", "required": true },
+          { "name": "curl", "required": true },
+          { "name": "jq", "required": true },
+          { "name": "gitleaks", "required": false },
+          { "name": "trufflehog", "required": false }
         ]
       },
       "provides": {
@@ -3886,14 +3864,8 @@
       "requires": {
         "speckit_version": ">=0.2.0",
         "tools": [
-          {
-            "name": "gh",
-            "required": true
-          },
-          {
-            "name": "python3",
-            "required": true
-          }
+          { "name": "gh", "required": true },
+          { "name": "python3", "required": true }
         ]
       },
       "provides": {
@@ -4187,27 +4159,11 @@
       "requires": {
         "speckit_version": ">=0.10.0",
         "tools": [
-          {
-            "name": "rtk",
-            "required": false
-          },
-          {
-            "name": "headroom",
-            "required": false
-          },
-          {
-            "name": "token-router",
-            "required": false
-          },
-          {
-            "name": "ollama",
-            "required": false
-          },
-          {
-            "name": "python",
-            "version": ">=3.10",
-            "required": false
-          }
+          { "name": "rtk", "required": false },
+          { "name": "headroom", "required": false },
+          { "name": "token-router", "required": false },
+          { "name": "ollama", "required": false },
+          { "name": "python", "version": ">=3.10", "required": false }
         ]
       },
       "provides": {

pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "specify-cli"
-version = "0.12.10.dev0"
+version = "0.12.9"
 description = "Specify CLI, part of GitHub Spec Kit. A tool to bootstrap your projects for Spec-Driven Development (SDD)."
 readme = "README.md"
 requires-python = ">=3.11"

src/specify_cli/__init__.py

@@ -141,9 +141,8 @@ def _install_shared_infra(
 
     Copies ``.specify/scripts/<variant>/`` and ``.specify/templates/`` from
     the bundled core_pack or source checkout, where ``<variant>`` is
-    ``bash`` when *script_type* is ``"sh"``, ``python`` when it is ``"py"``,
-    and ``powershell`` when it is ``"ps"``.  Tracks all installed files in
-    ``speckit.manifest.json``.
+    ``bash`` when *script_type* is ``"sh"`` and ``powershell`` when it is
+    ``"ps"``.  Tracks all installed files in ``speckit.manifest.json``.
 
     Shared scripts and page templates are processed to resolve
     ``__SPECKIT_COMMAND_<NAME>__`` placeholders using *invoke_separator*

src/specify_cli/shared_infra.py

@@ -403,7 +403,7 @@ def install_shared_infra(
     # manifest entries the core no longer ships (stale-script cleanup, #3076).
     seen_rels: set[str] = set()
     scripts_scanned = False
-    variant_dir = {"sh": "bash", "py": "python"}.get(script_type, "powershell")
+    variant_dir = "bash" if script_type == "sh" else "powershell"
 
     def _decide_overwrite(rel: str, dst: Path) -> tuple[bool, str | None]:
         """Return (write, bucket) where bucket is 'skip', 'preserved', or None."""
@@ -465,10 +465,6 @@ def install_shared_infra(
                     for src_path in variant_src.rglob("*"):
                         if not src_path.is_file():
                             continue
-                        # Python bytecode caches are local artifacts, not
-                        # workflow scripts — never install them.
-                        if "__pycache__" in src_path.parts:
-                            continue
                         # Mark scanned only once a real source file is seen. An
                         # empty (or symlink-skipped) variant keeps this False, so
                         # stale-cleanup is skipped — otherwise it would treat every

templates/commands/analyze.md

@@ -3,7 +3,6 @@ description: Perform a non-destructive cross-artifact consistency and quality an
 scripts:
   sh: scripts/bash/check-prerequisites.sh --json --require-tasks --include-tasks
   ps: scripts/powershell/check-prerequisites.ps1 -Json -RequireTasks -IncludeTasks
-  py: scripts/python/check_prerequisites.py --json --require-tasks --include-tasks
 ---
 
 ## User Input

templates/commands/checklist.md

@@ -3,7 +3,6 @@ description: Generate a custom checklist for the current feature based on user r
 scripts:
   sh: scripts/bash/check-prerequisites.sh --json
   ps: scripts/powershell/check-prerequisites.ps1 -Json
-  py: scripts/python/check_prerequisites.py --json
 ---
 
 ## Checklist Purpose: "Unit Tests for English"

templates/commands/clarify.md

@@ -7,7 +7,6 @@ handoffs:
 scripts:
    sh: scripts/bash/check-prerequisites.sh --json --paths-only
    ps: scripts/powershell/check-prerequisites.ps1 -Json -PathsOnly
-   py: scripts/python/check_prerequisites.py --json --paths-only
 ---
 
 ## User Input

templates/commands/converge.md

@@ -3,7 +3,6 @@ description: Assess the current codebase against the feature's spec, plan, and t
 scripts:
   sh: scripts/bash/check-prerequisites.sh --json --require-tasks --include-tasks
   ps: scripts/powershell/check-prerequisites.ps1 -Json -RequireTasks -IncludeTasks
-  py: scripts/python/check_prerequisites.py --json --require-tasks --include-tasks
 ---
 
 ## User Input

templates/commands/implement.md

@@ -3,7 +3,6 @@ description: Execute the implementation plan by processing and executing all tas
 scripts:
   sh: scripts/bash/check-prerequisites.sh --json --require-tasks --include-tasks
   ps: scripts/powershell/check-prerequisites.ps1 -Json -RequireTasks -IncludeTasks
-  py: scripts/python/check_prerequisites.py --json --require-tasks --include-tasks
 ---
 
 ## User Input

templates/commands/taskstoissues.md

@@ -4,7 +4,6 @@ tools: ['github/github-mcp-server/list_issues', 'github/github-mcp-server/issue_
 scripts:
   sh: scripts/bash/check-prerequisites.sh --json --require-tasks --include-tasks
   ps: scripts/powershell/check-prerequisites.ps1 -Json -RequireTasks -IncludeTasks
-  py: scripts/python/check_prerequisites.py --json --require-tasks --include-tasks
 ---
 
 ## User Input

tests/test_command_template_py_scripts.py

@@ -1,96 +0,0 @@
-"""Command templates with a py: script line must render for --script py.
-
-Covers #3283: ``py:`` lines in the ``scripts:`` frontmatter of
-``templates/commands/*.md`` reference Python scripts that exist in the repo,
-and ``process_template`` turns them into a valid Python invocation
-(interpreter-prefixed, path rewritten to the ``.specify`` tree).
-
-``plan.md`` and ``tasks.md`` gain their ``py:`` lines together with
-``setup_plan.py``/``setup_tasks.py`` in the core-scripts port (#3280); the
-existence check below enforces that ordering.
-"""
-
-import re
-from pathlib import Path
-
-import pytest
-
-from specify_cli.integrations.base import IntegrationBase
-
-REPO_ROOT = Path(__file__).parent.parent
-TEMPLATES_DIR = REPO_ROOT / "templates" / "commands"
-
-_PY_LINE = re.compile(r"^\s*py: (scripts/python/\S+\.py)", re.MULTILINE)
-
-
-def _py_script(name: str) -> str | None:
-    match = _PY_LINE.search((TEMPLATES_DIR / name).read_text(encoding="utf-8"))
-    return match.group(1) if match else None
-
-
-PY_TEMPLATES = sorted(
-    p.name for p in TEMPLATES_DIR.glob("*.md") if _py_script(p.name)
-)
-
-
-@pytest.fixture(autouse=True)
-def _pin_interpreter(monkeypatch):
-    monkeypatch.setattr(
-        "specify_cli.integrations.base.shutil.which",
-        lambda name: "/usr/bin/python3" if name == "python3" else None,
-    )
-
-
-def test_py_templates_discovered():
-    # Guard: the glob must find the known py-scripted templates, otherwise
-    # the parametrized tests below would silently pass on an empty set.
-    assert "implement.md" in PY_TEMPLATES
-    assert "clarify.md" in PY_TEMPLATES
-
-
-@pytest.mark.parametrize("name", PY_TEMPLATES)
-def test_referenced_python_script_exists(name: str):
-    # A py: line must never point at a script the repo does not ship —
-    # rendering would produce a broken invocation at runtime.
-    script = _py_script(name)
-    assert (REPO_ROOT / script).is_file(), f"{name} references missing {script}"
-
-
-@pytest.mark.parametrize("name", PY_TEMPLATES)
-def test_template_renders_python_invocation(name: str):
-    content = (TEMPLATES_DIR / name).read_text(encoding="utf-8")
-    result = IntegrationBase.process_template(content, "agent", "py")
-    assert "{SCRIPT}" not in result
-    assert re.search(
-        r"python3 \.specify/scripts/python/\w+\.py(?: --[\w-]+)*", result
-    ), f"{name} did not render a Python invocation"
-
-
-@pytest.mark.parametrize("name", PY_TEMPLATES)
-def test_sh_rendering_unchanged(name: str):
-    # Negative: adding py: lines must not leak into sh rendering.
-    content = (TEMPLATES_DIR / name).read_text(encoding="utf-8")
-    result = IntegrationBase.process_template(content, "agent", "sh")
-    assert "{SCRIPT}" not in result
-    assert "scripts/python" not in result
-
-
-def test_install_shared_infra_copies_python_scripts(tmp_path):
-    # --script py must install scripts/python/ into .specify/scripts/python/
-    # so the rendered invocations point at files that exist.
-    from rich.console import Console
-
-    from specify_cli.shared_infra import install_shared_infra
-
-    install_shared_infra(
-        tmp_path,
-        "py",
-        version="0.0.0",
-        core_pack=None,
-        repo_root=REPO_ROOT,
-        console=Console(quiet=True),
-        force=False,
-    )
-    dest = tmp_path / ".specify" / "scripts" / "python"
-    assert (dest / "check_prerequisites.py").is_file()
-    assert not (tmp_path / ".specify" / "scripts" / "powershell").exists()