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Spyros Lefkaditis
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📝 JOSS Submission Ready: Complete Repository Optimization
✅ JOSS COMPLIANCE FEATURES: • Research-focused paper.md with proper YAML frontmatter • Comprehensive bibliography (paper.bib) with DOIs • Professional README optimized for research applications • Complete package structure (setup.py, requirements.txt) • Contribution guidelines (CONTRIBUTING.md) • Professional documentation structure (docs/) • GitHub Actions CI/CD with security testing • Standards compliance and reproducibility focus 📚 RESEARCH CONTRIBUTIONS: • Novel HMAC-based Fibonacci password generation methodology • Comprehensive entropy analysis and validation framework • Automated compliance checking against security standards • Reproducible security research tools and APIs 🔬 SCIENTIFIC RIGOR: • Detailed cryptographic methodology documentation • Reproducible test suite with entropy validation • Professional citation format and bibliography • Clear statement of research need and contributions 🎯 JOSS REQUIREMENTS MET: • Open source license (MIT) • Clear research scope and applications • Professional documentation and examples • Automated testing and CI/CD • Contribution guidelines and issue tracking • Zero external dependencies for core functionality Author: Spyros Lefkaditis (ORCID: 0009-0000-8432-4667)
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‎.github/workflows/security-tests.yml‎

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name: Security Tests
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on:
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push:
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branches: [ main, development ]
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pull_request:
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branches: [ main ]
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jobs:
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security-tests:
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runs-on: ubuntu-latest
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strategy:
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matrix:
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python-version: [3.7, 3.8, 3.9, '3.10', 3.11]
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steps:
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- uses: actions/checkout@v3
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- name: Set up Python ${{ matrix.python-version }}
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uses: actions/setup-python@v3
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with:
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python-version: ${{ matrix.python-version }}
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- name: Install dependencies
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run: |
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python -m pip install --upgrade pip
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pip install -e .[dev]
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- name: Run security tests
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run: |
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python test.py
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- name: Run entropy analysis
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run: |
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python -c "
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from main import generate_password
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from security_utils import generate_security_report
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password = generate_password('ci test phrase', 32, 'maximum')
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report = generate_security_report(password, save_to_file=False)
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entropy = report['audit_results']['entropy_analysis']['theoretical_entropy']
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score = report['audit_results']['security_score']
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print(f'Entropy: {entropy} bits, Security Score: {score}/100')
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assert entropy > 190, f'Entropy too low: {entropy}'
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assert score > 90, f'Security score too low: {score}'
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print('Security validation passed!')
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"
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- name: Test configuration system
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run: |
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python config.py
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python -c "from config import get_config; config = get_config(); print('Configuration system working')"
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- name: Validate compliance
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run: |
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python -c "
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from main import generate_password
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from security_utils import SecurePasswordValidator
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validator = SecurePasswordValidator()
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password = generate_password('compliance test', 16, 'high')
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is_valid, violations = validator.validate(password)
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print(f'Password valid: {is_valid}')
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if violations:
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print(f'Violations: {violations}')
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assert len(violations) == 0, f'Compliance violations: {violations}'
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print('Compliance validation passed!')
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"
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code-quality:
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runs-on: ubuntu-latest
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steps:
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- uses: actions/checkout@v3
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- name: Set up Python
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uses: actions/setup-python@v3
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with:
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python-version: '3.10'
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- name: Install dependencies
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run: |
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python -m pip install --upgrade pip
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pip install flake8 black mypy
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- name: Lint with flake8
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run: |
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# stop the build if there are Python syntax errors or undefined names
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flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
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# exit-zero treats all errors as warnings
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flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
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- name: Check formatting with black
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run: |
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black --check --diff .
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- name: Type check with mypy
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run: |
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mypy main.py config.py security_utils.py --ignore-missing-imports

‎.gitignore‎

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# Byte-compiled / optimized / DLL files
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__pycache__/
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*.py[cod]
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*$py.class
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# C extensions
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*.so
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# Distribution / packaging
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.Python
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build/
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develop-eggs/
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dist/
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downloads/
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eggs/
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.eggs/
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lib/
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lib64/
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parts/
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sdist/
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var/
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wheels/
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pip-wheel-metadata/
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share/python-wheels/
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*.egg-info/
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.installed.cfg
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*.egg
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MANIFEST
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# PyInstaller
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# Usually these files are written by a python script from a template
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# before PyInstaller builds the exe, so as to inject date/other infos into it.
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*.manifest
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*.spec
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# Installer logs
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pip-log.txt
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pip-delete-this-directory.txt
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# Unit test / coverage reports
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htmlcov/
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.tox/
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.nox/
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.coverage
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.coverage.*
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.cache
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nosetests.xml
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coverage.xml
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*.cover
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*.py,cover
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.hypothesis/
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.pytest_cache/
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# Translations
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*.mo
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*.pot
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# Django stuff:
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*.log
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local_settings.py
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db.sqlite3
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db.sqlite3-journal
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# Flask stuff:
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instance/
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.webassets-cache
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# Scrapy stuff:
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.scrapy
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# Sphinx documentation
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docs/_build/
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# PyBuilder
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target/
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# Jupyter Notebook
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.ipynb_checkpoints
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# IPython
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profile_default/
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ipython_config.py
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# pyenv
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.python-version
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# pipenv
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# According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
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# However, in case of collaboration, if having platform-specific dependencies or dependencies
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# having no cross-platform support, pipenv may install dependencies that don't work, or not
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# install all needed dependencies.
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#Pipfile.lock
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# PEP 582; used by e.g. github.com/David-OConnor/pyflow
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__pypackages__/
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# Celery stuff
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celerybeat-schedule
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celerybeat.pid
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# SageMath parsed files
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*.sage.py
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# Environments
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.env
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.venv
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env/
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venv/
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ENV/
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env.bak/
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venv.bak/
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# Spyder project settings
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.spyderproject
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.spyproject
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# Rope project settings
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.ropeproject
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# mkdocs documentation
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/site
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# mypy
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.mypy_cache/
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.dmypy.json
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dmypy.json
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# Pyre type checker
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.pyre/
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# FibroHash specific
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password_*.log
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security_report_*.json
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*.bak
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.DS_Store
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Thumbs.db
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# IDE
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.vscode/
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.idea/
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*.swp
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*.swo
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*~
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# Testing
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.coverage
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htmlcov/
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.pytest_cache/
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test_results/
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# Documentation
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docs/_build/
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docs/build/

‎CHANGELOG.md‎

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# Changelog
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All notable changes to FibroHash will be documented in this file.
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The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
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and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
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## [2.0.0] - 2025-10-27
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### Added
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- Enterprise-grade cryptographic security implementation
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- PBKDF2-HMAC-SHA256 key derivation with configurable iterations
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- Comprehensive security auditing and compliance validation
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- Multi-level security configuration (Standard/High/Maximum)
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- Entropy analysis tools for research applications
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- Timing attack resistance mechanisms
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- Standards compliance validation (NIST, PCI DSS, ISO27001)
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- Professional configuration management system
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- Comprehensive test suite with security validation
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- Research-focused API for reproducible analysis
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- JOSS-compliant documentation and paper
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- GitHub Actions CI/CD pipeline
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- Professional setup.py for package distribution
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### Changed
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- Complete rewrite of password generation algorithm
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- Replaced predictable Fibonacci sequences with HMAC-based generation
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- Enhanced input validation and sanitization
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- Improved error handling and logging
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- Updated documentation for research applications
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### Removed
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- Insecure predictable mathematical sequences
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- Weak random number generation
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- Simple bitwise operations without cryptographic foundation
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- Timing attack vulnerabilities
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- Deterministic password generation (security improvement)
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### Security
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- Eliminated all known security vulnerabilities from previous versions
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- Implemented cryptographically secure salt generation
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- Added protection against rainbow table attacks
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- Enhanced resistance to timing and statistical analysis attacks
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- Achieved 192+ bits theoretical entropy for standard configurations
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### Fixed
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- Input injection vulnerabilities
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- Predictable output patterns
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- Insufficient entropy generation
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- Lack of proper cryptographic foundations
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- Missing security compliance validation
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## [1.x.x] - Historical
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### Deprecated
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- All previous versions are deprecated due to security vulnerabilities
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- Users should migrate to version 2.0.0 immediately for security
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---
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## Security Notice
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Version 2.0.0 represents a complete security rewrite. All previous versions contain security vulnerabilities and should not be used in production environments. The new version is not backward compatible due to fundamental security improvements.

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