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Add local smoke test script and README quick-start note#11

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Add local smoke test script and README quick-start note#11
NguyenCuong1989 wants to merge 1 commit into
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codex/create-local-smoke-test-script

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@NguyenCuong1989 NguyenCuong1989 commented Feb 9, 2026

User description

Motivation

  • Provide a minimal, easy-to-run local smoke check that validates core imports and a single lifecycle step for quick local verification.

Description

  • Add scripts/local_smoke.py which updates sys.path, creates a DigitalGenome and DigitalOrganism, runs organism.live_cycle(time_delta=1.0), and prints OK on success.
  • Update the README quick start section to document running the smoke script with python scripts/local_smoke.py.

Testing

  • No automated tests were executed for this change.

Codex Task

Tóm tắt bởi Sourcery

Thêm một script kiểm thử smoke cục bộ đơn giản và hướng dẫn cách chạy nó trong phần hướng dẫn khởi động nhanh.

Tính năng mới:

  • Giới thiệu một script kiểm thử smoke cục bộ để kiểm tra các chức năng cốt lõi của DigitalGenome và DigitalOrganism và báo cáo kết quả thành công.

Tài liệu:

  • Cập nhật phần khởi động nhanh trong README với hướng dẫn chạy script kiểm thử smoke cục bộ.
Original summary in English

Tóm tắt bởi Sourcery

Thêm một script smoke test cục bộ đơn giản và tham chiếu nó từ tài liệu quick-start để dễ dàng kiểm tra các chức năng cốt lõi.

Tính năng mới:

  • Giới thiệu một script smoke test cục bộ khởi tạo các đối tượng framework cốt lõi, chạy một bước vòng đời cơ bản và báo cáo trạng thái thành công.

Tài liệu:

  • Ghi lại cách chạy script smoke test cục bộ mới trong phần quick-start của README.
Original summary in English

Summary by Sourcery

Add a simple local smoke test script and reference it from the quick-start documentation for easy verification of core functionality.

New Features:

  • Introduce a local smoke test script that instantiates core framework objects, runs a basic lifecycle step, and reports success.

Documentation:

  • Document how to run the new local smoke test script in the README quick-start section.

PR Type

Enhancement, Documentation


Description

  • Add local smoke test script for quick core functionality validation

  • Script creates DigitalGenome and DigitalOrganism, runs lifecycle step

  • Update README with instructions to run smoke test script


Diagram Walkthrough

flowchart LR
  A["New Script:<br/>local_smoke.py"] -- "validates core imports<br/>and lifecycle" --> B["DigitalGenome &<br/>DigitalOrganism"]
  C["README.md"] -- "documents how to run" --> A
  B -- "reports success" --> D["OK output"]
Loading

File Walkthrough

Relevant files
Enhancement
local_smoke.py
Local smoke test script for core functionality                     

scripts/local_smoke.py

  • New executable Python script for local smoke testing
  • Dynamically adds repository root to sys.path for imports
  • Creates DigitalGenome and DigitalOrganism instances
  • Executes organism.live_cycle(time_delta=1.0) and prints "OK" on
    success
+23/-0   
Documentation
README.md
Document local smoke test in README                                           

README.md

  • Add new "Run a local smoke check" section in quick-start guide
  • Provides bash command to execute the smoke test script
  • Positioned after main quick_start.py example
+6/-0     

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sourcery-ai Bot commented Feb 9, 2026

Hướng dẫn dành cho người review

Thêm một script kiểm thử smoke cục bộ tối thiểu để kiểm tra các chức năng cốt lõi của DigitalGenome/DigitalOrganism và tích hợp nó vào phần hướng dẫn khởi động nhanh trong README để dễ dàng tự kiểm tra thủ công.

Biểu đồ tuần tự cho việc chạy script kiểm thử smoke cục bộ

sequenceDiagram
    actor Developer
    participant Shell
    participant PythonInterpreter
    participant LocalSmokeScript as local_smoke_py
    participant DigitalGenome
    participant DigitalOrganism

    Developer->>Shell: run_command python scripts/local_smoke.py
    Shell->>PythonInterpreter: invoke_script scripts/local_smoke.py
    PythonInterpreter->>LocalSmokeScript: execute_main
    LocalSmokeScript->>LocalSmokeScript: set_REPO_ROOT_and_update_sys_path
    LocalSmokeScript->>DigitalGenome: init
    DigitalGenome-->>LocalSmokeScript: genome_instance
    LocalSmokeScript->>DigitalOrganism: init name local_smoke_organism genome
    DigitalOrganism-->>LocalSmokeScript: organism_instance
    LocalSmokeScript->>DigitalOrganism: live_cycle time_delta 1_0
    DigitalOrganism-->>LocalSmokeScript: lifecycle_completed
    LocalSmokeScript-->>Shell: print OK
    Shell-->>Developer: display OK
Loading

Biểu đồ luồng cho các bước thực thi local_smoke.py

flowchart TD
    A[Start local_smoke_py] --> B[Resolve REPO_ROOT from script path]
    B --> C[Insert REPO_ROOT at beginning of sys_path]
    C --> D[Import DigitalGenome and DigitalOrganism]
    D --> E[Create DigitalGenome instance]
    E --> F[Create DigitalOrganism with name local_smoke_organism and genome]
    F --> G[Call organism_live_cycle with time_delta 1_0]
    G --> H[Print OK]
    H --> I[End]
Loading

Các thay đổi ở cấp độ file

Thay đổi Chi tiết File
Giới thiệu một kiểm thử smoke cục bộ độc lập để xác nhận việc import framework lõi và một bước vòng đời cơ bản của organism.
  • Thêm một entry-point scripts/local_smoke.py điều chỉnh sys.path để bao gồm thư mục gốc của repo, giúp có thể import mã nguồn cục bộ mà không cần cài đặt
  • Khởi tạo DigitalGenomeDigitalOrganism, thực thi organism.live_cycle với một time_delta nhỏ, và in ra sentinel đơn giản OK để báo hiệu thành công
  • Cấu trúc script với một hàm main() và một guard chuẩn __main__ để có thể chạy trực tiếp từ CLI
scripts/local_smoke.py
Tài liệu hóa cách chạy kiểm thử smoke cục bộ từ luồng khởi động nhanh.
  • Mở rộng mục khởi động nhanh trong README với một đoạn mã “Run a local smoke check” gọi python scripts/local_smoke.py
  • Giữ phần hướng dẫn smoke-check nằm cạnh phần sử dụng quick_start.py hiện có để workflow dễ dàng được tìm thấy
README.md

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Nhận hỗ trợ

Original review guide in English

Reviewer's Guide

Adds a minimal local smoke test script that exercises core DigitalGenome/DigitalOrganism functionality and wires it into the README quick-start instructions for easy manual validation.

Sequence diagram for running the local smoke test script

sequenceDiagram
    actor Developer
    participant Shell
    participant PythonInterpreter
    participant LocalSmokeScript as local_smoke_py
    participant DigitalGenome
    participant DigitalOrganism

    Developer->>Shell: run_command python scripts/local_smoke.py
    Shell->>PythonInterpreter: invoke_script scripts/local_smoke.py
    PythonInterpreter->>LocalSmokeScript: execute_main
    LocalSmokeScript->>LocalSmokeScript: set_REPO_ROOT_and_update_sys_path
    LocalSmokeScript->>DigitalGenome: init
    DigitalGenome-->>LocalSmokeScript: genome_instance
    LocalSmokeScript->>DigitalOrganism: init name local_smoke_organism genome
    DigitalOrganism-->>LocalSmokeScript: organism_instance
    LocalSmokeScript->>DigitalOrganism: live_cycle time_delta 1_0
    DigitalOrganism-->>LocalSmokeScript: lifecycle_completed
    LocalSmokeScript-->>Shell: print OK
    Shell-->>Developer: display OK
Loading

Flow diagram for local_smoke.py execution steps

flowchart TD
    A[Start local_smoke_py] --> B[Resolve REPO_ROOT from script path]
    B --> C[Insert REPO_ROOT at beginning of sys_path]
    C --> D[Import DigitalGenome and DigitalOrganism]
    D --> E[Create DigitalGenome instance]
    E --> F[Create DigitalOrganism with name local_smoke_organism and genome]
    F --> G[Call organism_live_cycle with time_delta 1_0]
    G --> H[Print OK]
    H --> I[End]
Loading

File-Level Changes

Change Details Files
Introduce a standalone local smoke test that validates core framework imports and a basic organism lifecycle step.
  • Add a scripts/local_smoke.py entry-point that adjusts sys.path to include the repo root so local sources are importable without installation
  • Instantiate DigitalGenome and DigitalOrganism, execute organism.live_cycle with a small time_delta, and print a simple OK sentinel to signal success
  • Structure the script with a main() function and a standard main guard for direct CLI execution
scripts/local_smoke.py
Document how to run the local smoke test from the quick-start flow.
  • Extend the README quick-start section with a Run a local smoke check snippet that invokes python scripts/local_smoke.py
  • Keep the smoke-check instructions adjacent to existing quick_start.py usage to make the workflow discoverable
README.md

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Getting Help

@NguyenCuong1989 NguyenCuong1989 marked this pull request as ready for review February 10, 2026 17:48
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PR Compliance Guide 🔍

Below is a summary of compliance checks for this PR:

Security Compliance
Import path manipulation

Description: The script prepends REPO_ROOT to sys.path (sys.path.insert(0, ...)), which can enable
import-hijacking/shadowing if a malicious module/package exists in the repository root (or
if REPO_ROOT is not what the user expects), causing from digital_ai_organism_framework ...
(and other imports) to resolve to unintended code when the smoke test is executed.
local_smoke.py [9-12]

Referred Code
REPO_ROOT = Path(__file__).resolve().parents[1]
sys.path.insert(0, str(REPO_ROOT))

from digital_ai_organism_framework import DigitalGenome, DigitalOrganism
Ticket Compliance
🎫 No ticket provided
  • Create ticket/issue
Codebase Duplication Compliance
Codebase context is not defined

Follow the guide to enable codebase context checks.

Custom Compliance
🟢
Generic: Comprehensive Audit Trails

Objective: To create a detailed and reliable record of critical system actions for security analysis
and compliance.

Status: Passed

Learn more about managing compliance generic rules or creating your own custom rules

Generic: Meaningful Naming and Self-Documenting Code

Objective: Ensure all identifiers clearly express their purpose and intent, making code
self-documenting

Status: Passed

Learn more about managing compliance generic rules or creating your own custom rules

Generic: Secure Logging Practices

Objective: To ensure logs are useful for debugging and auditing without exposing sensitive
information like PII, PHI, or cardholder data.

Status: Passed

Learn more about managing compliance generic rules or creating your own custom rules

Generic: Security-First Input Validation and Data Handling

Objective: Ensure all data inputs are validated, sanitized, and handled securely to prevent
vulnerabilities

Status: Passed

Learn more about managing compliance generic rules or creating your own custom rules

Generic: Robust Error Handling and Edge Case Management

Objective: Ensure comprehensive error handling that provides meaningful context and graceful
degradation

Status:
Missing error handling: The smoke script performs imports and executes organism.live_cycle(time_delta=1.0) without
handling likely failure points (import/runtime errors), so failures will surface as
uncontextualized exceptions rather than actionable, graceful output.

Referred Code
REPO_ROOT = Path(__file__).resolve().parents[1]
sys.path.insert(0, str(REPO_ROOT))

from digital_ai_organism_framework import DigitalGenome, DigitalOrganism


def main() -> None:
    genome = DigitalGenome()
    organism = DigitalOrganism(name="local_smoke_organism", genome=genome)
    organism.live_cycle(time_delta=1.0)
    print("OK")

Learn more about managing compliance generic rules or creating your own custom rules

Generic: Secure Error Handling

Objective: To prevent the leakage of sensitive system information through error messages while
providing sufficient detail for internal debugging.

Status:
Stack trace exposure: If the import or lifecycle call fails, the script will emit a full Python stack trace to
the console, potentially exposing internal file paths and implementation details rather
than a generic user-facing error message.

Referred Code
from digital_ai_organism_framework import DigitalGenome, DigitalOrganism


def main() -> None:
    genome = DigitalGenome()
    organism = DigitalOrganism(name="local_smoke_organism", genome=genome)
    organism.live_cycle(time_delta=1.0)
    print("OK")

Learn more about managing compliance generic rules or creating your own custom rules

Compliance status legend 🟢 - Fully Compliant
🟡 - Partial Compliant
🔴 - Not Compliant
⚪ - Requires Further Human Verification
🏷️ - Compliance label

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Chào bạn - Tôi đã để lại một số phản hồi tổng quan:

  • Thay vì thay đổi sys.path trong local_smoke.py, hãy cân nhắc chạy script như một module (ví dụ: python -m digital_ai_organism_framework.scripts.local_smoke) hoặc dựa vào một package đã được cài đặt để tránh sự phụ thuộc mong manh vào đường dẫn.
  • Hãy để smoke script thoát với mã trạng thái khác 0 khi có lỗi (ví dụ: bọc main() trong một khối try/except và dùng sys.exit(1)) để có thể sử dụng đáng tin cậy hơn trong các kiểm tra tự động.
Prompt dành cho AI Agents
Please address the comments from this code review:

## Overall Comments
- Instead of mutating `sys.path` in `local_smoke.py`, consider invoking the script as a module (e.g., `python -m digital_ai_organism_framework.scripts.local_smoke`) or relying on an installed package to avoid path brittleness.
- Have the smoke script exit with a non-zero status code on failure (e.g., wrapping `main()` in a try/except and using `sys.exit(1)`) so it can be more reliably used in automated checks.

Sourcery miễn phí cho open source - nếu bạn thấy hữu ích, hãy cân nhắc chia sẻ các review của chúng tôi ✨
Hãy giúp tôi trở nên hữu ích hơn! Vui lòng bấm 👍 hoặc 👎 trên từng bình luận và tôi sẽ sử dụng phản hồi đó để cải thiện các review cho bạn.
Original comment in English

Hey - I've left some high level feedback:

  • Instead of mutating sys.path in local_smoke.py, consider invoking the script as a module (e.g., python -m digital_ai_organism_framework.scripts.local_smoke) or relying on an installed package to avoid path brittleness.
  • Have the smoke script exit with a non-zero status code on failure (e.g., wrapping main() in a try/except and using sys.exit(1)) so it can be more reliably used in automated checks.
Prompt for AI Agents
Please address the comments from this code review:

## Overall Comments
- Instead of mutating `sys.path` in `local_smoke.py`, consider invoking the script as a module (e.g., `python -m digital_ai_organism_framework.scripts.local_smoke`) or relying on an installed package to avoid path brittleness.
- Have the smoke script exit with a non-zero status code on failure (e.g., wrapping `main()` in a try/except and using `sys.exit(1)`) so it can be more reliably used in automated checks.

Sourcery is free for open source - if you like our reviews please consider sharing them ✨
Help me be more useful! Please click 👍 or 👎 on each comment and I'll use the feedback to improve your reviews.

@NguyenCuong1989 NguyenCuong1989 added bug Something isn't working documentation Improvements or additions to documentation duplicate This issue or pull request already exists enhancement New feature or request good first issue Good for newcomers Review effort 2/5 Review effort 3/5 labels Feb 10, 2026
@NguyenCuong1989 NguyenCuong1989 self-assigned this Feb 10, 2026
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qodo-code-review Bot commented Feb 10, 2026

PR Code Suggestions ✨

Explore these optional code suggestions:

CategorySuggestion                                                                                                                                    Impact
High-level
Use standard packaging over sys.path manipulation

Instead of manipulating sys.path in the smoke test, make the project installable
by adding a pyproject.toml. This allows for standard installation (pip install
-e .) and removes the need for path adjustments in scripts.

Examples:

scripts/local_smoke.py [9-12]
REPO_ROOT = Path(__file__).resolve().parents[1]
sys.path.insert(0, str(REPO_ROOT))

from digital_ai_organism_framework import DigitalGenome, DigitalOrganism

Solution Walkthrough:

Before:

# scripts/local_smoke.py
import sys
from pathlib import Path

# Manually add project root to Python path
REPO_ROOT = Path(__file__).resolve().parents[1]
sys.path.insert(0, str(REPO_ROOT))

# Import from the project
from digital_ai_organism_framework import DigitalGenome, DigitalOrganism

def main():
    # ... create organism and run lifecycle ...
    print("OK")

if __name__ == "__main__":
    main()

After:

# pyproject.toml (new file)
[project]
name = "digital_ai_organism_framework"
version = "0.1.0"

[tool.setuptools]
py-modules = ["digital_ai_organism_framework"]

# scripts/local_smoke.py (after `pip install -e .`)
# No sys.path manipulation needed
from digital_ai_organism_framework import DigitalGenome, DigitalOrganism

def main():
    # ... create organism and run lifecycle ...
    print("OK")

if __name__ == "__main__":
    main()
Suggestion importance[1-10]: 7

__

Why: The suggestion correctly identifies the fragile sys.path manipulation and proposes a robust, standard packaging solution, which is a significant architectural improvement for the project's maintainability.

Medium
General
Add assertion to verify state change

In scripts/local_smoke.py, add an assertion to the main function to verify that
the organism's age increases after live_cycle is called, making the smoke test
more meaningful.

scripts/local_smoke.py [15-19]

 def main() -> None:
     genome = DigitalGenome()
     organism = DigitalOrganism(name="local_smoke_organism", genome=genome)
-    organism.live_cycle(time_delta=1.0)
+    initial_age = organism.age
+    time_delta = 1.0
+    organism.live_cycle(time_delta=time_delta)
+    assert organism.age == initial_age + time_delta, (
+        f"Organism age did not increment. "
+        f"Expected {initial_age + time_delta}, got {organism.age}"
+    )
     print("OK")
  • Apply / Chat
Suggestion importance[1-10]: 7

__

Why: This suggestion correctly identifies that the smoke test is too basic and proposes a specific, valuable assertion to verify the core logic of the live_cycle method, significantly improving the test's effectiveness.

Medium
Make repository root detection more robust

In scripts/local_smoke.py, make repository root detection more robust by
searching upwards for a .git directory instead of using a fixed parent level
(parents[1]).

scripts/local_smoke.py [9-10]

-REPO_ROOT = Path(__file__).resolve().parents[1]
+def find_repo_root(path: Path) -> Path:
+    """Find the repository root from a given path."""
+    for parent in path.parents:
+        if (parent / ".git").exists():
+            return parent
+    raise RuntimeError("Repository root with .git directory not found.")
+
+REPO_ROOT = find_repo_root(Path(__file__).resolve())
 sys.path.insert(0, str(REPO_ROOT))
  • Apply / Chat
Suggestion importance[1-10]: 6

__

Why: The suggestion correctly points out a fragility in how the repository root is located and proposes a standard, more robust solution that improves the script's maintainability.

Low
Possible issue
Return non-zero on failures

Wrap the main() call in a try...except block to catch exceptions, print an error
message, and exit with a non-zero status code to make failures CI-friendly.

scripts/local_smoke.py [22-23]

 if __name__ == "__main__":
-    main()
+    try:
+        main()
+    except Exception as exc:
+        print(f"Smoke test failed: {exc}", file=sys.stderr)
+        raise SystemExit(1) from exc
  • Apply / Chat
Suggestion importance[1-10]: 8

__

Why: This is a significant improvement for a smoke test script, making it suitable for CI/CD pipelines by ensuring it exits with a non-zero status code on failure, which is standard practice for automation.

Medium
Eliminate probabilistic test flakiness

Add random.seed(0) to the main function to ensure the smoke test is
deterministic and avoids flaky behavior caused by the probabilistic
self-modification in live_cycle.

scripts/local_smoke.py [15-19]

 def main() -> None:
+    import random
+
+    random.seed(0)
+
     genome = DigitalGenome()
     organism = DigitalOrganism(name="local_smoke_organism", genome=genome)
     organism.live_cycle(time_delta=1.0)
     print("OK")
  • Apply / Chat
Suggestion importance[1-10]: 7

__

Why: The suggestion correctly identifies a source of non-determinism in the live_cycle method and proposes a standard solution to make the smoke test reliable, preventing potential flaky failures.

Medium
General
Prevent duplicate import path entries

Conditionally add the repository root to sys.path only if it is not already
present to prevent duplicate entries.

scripts/local_smoke.py [9-10]

 REPO_ROOT = Path(__file__).resolve().parents[1]
-sys.path.insert(0, str(REPO_ROOT))
+repo_root_str = str(REPO_ROOT)
+if repo_root_str not in sys.path:
+    sys.path.insert(0, repo_root_str)
  • Apply / Chat
Suggestion importance[1-10]: 4

__

Why: The suggestion improves the script's robustness by preventing duplicate entries in sys.path, which is a good practice, although the impact is minor for a simple smoke test.

Low
  • More

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