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class="bd-content"> <div class="bd-article-container"> <div class="bd-header-article d-print-none"> <div class="header-article-items header-article__inner"> <div class="header-article-items__start"> <div class="header-article-item"> <nav aria-label="Breadcrumb" class="d-print-none"> <ul class="bd-breadcrumbs"> <li class="breadcrumb-item breadcrumb-home"> <a href="index.html" class="nav-link" aria-label="Home"> <i class="fa-solid fa-home"></i> </a> </li> <li class="breadcrumb-item active" aria-current="page"><span class="ellipsis">Contributing</span></li> </ul> </nav> </div> </div> </div> </div> <div id="searchbox"></div> <article class="bd-article"> <section id="contributing"> <h1>Contributing<a class="headerlink" href="#contributing" title="Link to this heading">#</a></h1> <p>We welcome contributions from the community! This guide will help you get started with contributing to GeomFuM.</p> <section id="getting-started"> <h2>Getting Started<a class="headerlink" href="#getting-started" title="Link to this heading">#</a></h2> <section id="development-setup"> <h3>Development Setup<a class="headerlink" href="#development-setup" title="Link to this heading">#</a></h3> <p>The instructions in this section detail the step-by-step process on setting up your development environment before contribution.</p> <p>We recommend using <cite>Git</cite> for source control to allow collaboration. Typical interaction with the project involves using <cite>git</cite> to pull/push code and submitting bugs/feature requests to the <a class="reference external" href="https://github.com/DiG-AIR/geomfum">GeomFuM repository</a>.</p> <p>Be sure to follow the Git installation and configuration instructions for your respective operating system from the <a class="reference external" href="https://git-scm.com/book/en/v2/Getting-Started-Installing-Git">official Git documentation</a>, before you follow along the next section of this documentation.</p> <ol class="arabic"> <li><p><strong>Fork the repository</strong>: Visit <cite>https://github.com/DiG-AIR/geomfum</cite> and click “Fork”</p></li> <li><p><strong>Clone your fork</strong>: .. code-block:: bash</p> <blockquote> <div><p>git clone <a class="github reference external" href="https://github.com">github</a>/<your-username>/geomfum.git cd geomfum</p> </div></blockquote> </li> <li><p><strong>Install in development mode</strong>: .. code-block:: bash</p> <blockquote> <div><p>pip install -e .[test,,plotting-all]</p> </div></blockquote> </li> </ol> </section> <section id="development-environment"> <h3>Development Environment<a class="headerlink" href="#development-environment" title="Link to this heading">#</a></h3> <p>We recommend using a virtual environment to manage dependencies:</p> <div class="highlight-bash notranslate"><div class="highlight"><pre><span></span><span class="c1"># Create virtual environment</span> python<span class="w"> </span>-m<span class="w"> </span>venv<span class="w"> </span>geomfum_env <span class="nb">source</span><span class="w"> </span>geomfum_env/bin/activate<span class="w"> </span><span class="c1"># On Windows: geomfum_env\Scripts\activate</span> <span class="c1"># Install development dependencies</span> pip<span class="w"> </span>install<span class="w"> </span>-e<span class="w"> </span>.<span class="o">[</span>test,test-scripts,plotting-all<span class="o">]</span> </pre></div> </div> </section> </section> <section id="code-style"> <h2>Code Style<a class="headerlink" href="#code-style" title="Link to this heading">#</a></h2> <p>We follow PEP 8 and use several tools to maintain code quality:</p> <section id="formatting"> <h3>Formatting<a class="headerlink" href="#formatting" title="Link to this heading">#</a></h3> <p>We use <cite>ruff</cite> for code formatting and linting. We recommend downloading the extension for your preferred IDE editor.</p> </section> <section id="documentation"> <h3>Documentation<a class="headerlink" href="#documentation" title="Link to this heading">#</a></h3> <p>The documentation is written in <cite>rst</cite> format and is located in the <cite>docs/</cite> directory. The documentation is built using <cite>sphinx</cite> and is located in <cite>https://DiG-AIR.github.io/geomfum.github.io/</cite> directory. The documentation is viewable in a web browser.</p> </section> <section id="writing-documentation"> <h3>Writing Documentation<a class="headerlink" href="#writing-documentation" title="Link to this heading">#</a></h3> <ol class="arabic simple"> <li><p><strong>API Documentation</strong>: Add docstrings to all public functions</p></li> <li><p><strong>Tutorials</strong>: Create Jupyter notebooks in <cite>notebooks/</cite></p></li> <li><p><strong>Concept Documentation</strong>: Add theoretical explanations in <cite>docs/concepts/</cite></p></li> </ol> <p>Example docstring:</p> <div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="k">def</span><span class="w"> </span><span class="nf">zoomout_refinement</span><span class="p">(</span> <span class="n">functional_map</span><span class="p">:</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">,</span> <span class="n">mesh1</span><span class="p">:</span> <span class="n">Mesh</span><span class="p">,</span> <span class="n">mesh2</span><span class="p">:</span> <span class="n">Mesh</span><span class="p">,</span> <span class="n">iterations</span><span class="p">:</span> <span class="nb">int</span> <span class="o">=</span> <span class="mi">5</span> <span class="p">)</span> <span class="o">-></span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">:</span> <span class="w"> </span><span class="sd">"""Apply ZoomOut refinement to functional map.</span> <span class="sd"> ZoomOut is a spectral upsampling technique that improves</span> <span class="sd"> correspondence quality by iteratively refining the functional map.</span> <span class="sd"> Parameters</span> <span class="sd"> ----------</span> <span class="sd"> functional_map : np.ndarray</span> <span class="sd"> Input functional map matrix</span> <span class="sd"> mesh1 : Mesh</span> <span class="sd"> First mesh</span> <span class="sd"> mesh2 : Mesh</span> <span class="sd"> Second mesh</span> <span class="sd"> iterations : int, optional</span> <span class="sd"> Number of refinement iterations, by default 5</span> <span class="sd"> Returns</span> <span class="sd"> -------</span> <span class="sd"> np.ndarray</span> <span class="sd"> Refined functional map</span> <span class="sd"> References</span> <span class="sd"> ----------</span> <span class="sd"> .. [1] Melzi, S., et al. "ZoomOut: Spectral Upsampling for Efficient</span> <span class="sd"> Shape Correspondence." ACM TOG 38.6 (2019): 155.</span> <span class="sd"> """</span> <span class="k">pass</span> </pre></div> </div> </section> </section> <section id="pull-request-process"> <h2>Pull Request Process<a class="headerlink" href="#pull-request-process" title="Link to this heading">#</a></h2> <ol class="arabic"> <li><p><strong>Create a feature branch</strong>: .. code-block:: bash</p> <blockquote> <div><p>git checkout -b feature/your-feature-name</p> </div></blockquote> </li> <li><p><strong>Make your changes</strong>: - Write code following our style guidelines - Add tests for new functionality - Update documentation</p></li> <li><p><strong>Run tests and checks</strong>: .. code-block:: bash</p> <blockquote> <div><p># Run tests pytest</p> </div></blockquote> </li> <li><p><strong>Commit your changes</strong>: .. code-block:: bash</p> <blockquote> <div><p>git add . git commit -m “Add feature: brief description”</p> <p># Use conventional commit format: # feat: add new functional map refinement # fix: resolve memory leak in laplacian computation # docs: update installation instructions</p> </div></blockquote> </li> <li><p><strong>Push and create PR</strong>: .. code-block:: bash</p> <blockquote> <div><p>git push origin feature/your-feature-name</p> </div></blockquote> </li> <li><p><strong>Create Pull Request</strong>: - Use the PR template - Describe your changes clearly - Link related issues - Request reviews from maintainers</p></li> <li><p><strong>Wait for review</strong>: - Address feedback from maintainers - Make changes as requested - Re-request review when ready - Ensure all checks pass before merging - Merge when approved</p></li> </ol> </section> <section id="code-review"> <h2>Code Review<a class="headerlink" href="#code-review" title="Link to this heading">#</a></h2> <section id="review-process"> <h3>Review Process<a class="headerlink" href="#review-process" title="Link to this heading">#</a></h3> <ol class="arabic simple"> <li><p><strong>Automated checks</strong> must pass: - Tests - Code style - Documentation build - Type checking</p></li> <li><p><strong>Manual review</strong> by maintainers: - Code quality - Algorithm correctness - Performance considerations - Documentation quality</p></li> <li><p><strong>Address feedback</strong>: - Respond to review comments - Make requested changes - Re-request review when ready</p></li> </ol> </section> <section id="review-guidelines"> <h3>Review Guidelines<a class="headerlink" href="#review-guidelines" title="Link to this heading">#</a></h3> <p>When reviewing code:</p> <ol class="arabic simple"> <li><p><strong>Check correctness</strong>: Is the algorithm implemented correctly?</p></li> <li><p><strong>Check performance</strong>: Are there performance issues?</p></li> <li><p><strong>Check style</strong>: Does the code follow our conventions?</p></li> <li><p><strong>Check documentation</strong>: Is the documentation clear and complete?</p></li> <li><p><strong>Check tests</strong>: Are there adequate tests?</p></li> </ol> </section> </section> <section id="areas-for-contribution"> <h2>Areas for Contribution<a class="headerlink" href="#areas-for-contribution" title="Link to this heading">#</a></h2> <p>We welcome contributions in these areas:</p> <section id="algorithms"> <h3>Algorithms<a class="headerlink" href="#algorithms" title="Link to this heading">#</a></h3> <ul class="simple"> <li><p>New functional map algorithms</p></li> <li><p>Improved refinement techniques</p></li> <li><p>Novel shape descriptors</p></li> <li><p>Deep learning approaches</p></li> </ul> </section> <section id="performance"> <h3>Performance<a class="headerlink" href="#performance" title="Link to this heading">#</a></h3> <ul class="simple"> <li><p>GPU acceleration</p></li> <li><p>Parallel processing</p></li> <li><p>Memory optimization</p></li> <li><p>Sparse matrix operations</p></li> </ul> </section> <section id="id1"> <h3>Documentation<a class="headerlink" href="#id1" title="Link to this heading">#</a></h3> <ul class="simple"> <li><p>Tutorials and examples</p></li> <li><p>API documentation</p></li> <li><p>Theoretical explanations</p></li> <li><p>Performance benchmarks</p></li> </ul> </section> <section id="testing"> <h3>Testing<a class="headerlink" href="#testing" title="Link to this heading">#</a></h3> <ul class="simple"> <li><p>Unit tests</p></li> <li><p>Integration tests</p></li> <li><p>Performance tests</p></li> <li><p>Documentation tests</p></li> </ul> </section> <section id="tools-and-utilities"> <h3>Tools and Utilities<a class="headerlink" href="#tools-and-utilities" title="Link to this heading">#</a></h3> <ul class="simple"> <li><p>Visualization tools</p></li> <li><p>Data processing utilities</p></li> <li><p>Evaluation metrics</p></li> <li><p>Benchmarking tools</p></li> </ul> </section> </section> <section id="getting-help"> <h2>Getting Help<a class="headerlink" href="#getting-help" title="Link to this heading">#</a></h2> <p>If you need help:</p> <ol class="arabic simple"> <li><p><strong>Check existing issues</strong>: Search for similar problems</p></li> <li><p><strong>Join Discord</strong>: <cite>https://discord.gg/6sYmEbUp</cite></p></li> <li><p><strong>Create an issue</strong>: For bugs or feature requests</p></li> <li><p><strong>Ask questions</strong>: In GitHub Discussions</p></li> </ol> </section> <section id="community-guidelines"> <h2>Community Guidelines<a class="headerlink" href="#community-guidelines" title="Link to this heading">#</a></h2> <p>We are committed to providing a welcoming and inclusive environment:</p> <ol class="arabic simple"> <li><p><strong>Be respectful</strong>: Treat everyone with respect</p></li> <li><p><strong>Be helpful</strong>: Help others learn and contribute</p></li> <li><p><strong>Be patient</strong>: Everyone learns at their own pace</p></li> <li><p><strong>Be constructive</strong>: Provide constructive feedback</p></li> </ol> <section id="code-of-conduct"> <h3>Code of Conduct<a class="headerlink" href="#code-of-conduct" title="Link to this heading">#</a></h3> <p>We follow the Contributor Covenant Code of Conduct. Please read it at: <cite>https://www.contributor-covenant.org/version/2/0/code_of_conduct.html</cite></p> </section> </section> <section id="recognition"> <h2>Recognition<a class="headerlink" href="#recognition" title="Link to this heading">#</a></h2> <p>Contributors are recognized in:</p> <ol class="arabic simple"> <li><p><strong>GitHub contributors list</strong></p></li> <li><p><strong>Documentation acknowledgments</strong></p></li> <li><p><strong>Release notes</strong></p></li> <li><p><strong>Academic citations</strong> (for significant contributions)</p></li> </ol> <p>Thank you for contributing to GeomFuM! 🎉</p> </section> </section> </article> <footer class="prev-next-footer d-print-none"> <div class="prev-next-area"> <a class="left-prev" href="notebooks/how_to/17_vis_dist.html" title="previous page"> <i class="fa-solid fa-angle-left"></i> <div class="prev-next-info"> <p class="prev-next-subtitle">previous</p> <p class="prev-next-title">How to visualize distance to a point in a 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