diff README.md @ 4:4aa511539199 draft default tip

planemo upload for repository https://github.com/goeckslab/Galaxy-Pycaret commit cf47efb521b91a9cb44ae5c5ade860627f9b9030
author goeckslab
date Tue, 03 Jun 2025 19:31:16 +0000
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+# Galaxy-Pycaret
+A library of Galaxy machine learning tools based on PyCaret — part of the Galaxy ML2 tools, aiming to provide simple, powerful, and robust machine learning capabilities for Galaxy users.
+
+# Install Galaxy-Pycaret into Galaxy
+
+* Update `tool_conf.xml` to include Galaxy-Pycaret tools. See [documentation](https://docs.galaxyproject.org/en/master/admin/tool_panel.html) for more details. This is an example:
+```
+<section id="pycaret" name="Pycaret Applications">
+  <tool file="galaxy-pycaret/tools/pycaret_train.xml" />
+</section>
+```
+
+* Configure the `job_conf.yml` under `lib/galaxy/config/sample` to enable the docker for the environment you want the Ludwig related job running in. This is an example:
+```
+execution:
+ default: local
+ environments:
+   local:
+     runner: local
+     docker_enabled: true
+```
+If you are using an older version of Galaxy, then `job_conf.xml` would be something you want to configure instead of `job_conf.yml`. Then you would want to configure destination instead of execution and environment. 
+See [documentation](https://docs.galaxyproject.org/en/master/admin/jobs.html#running-jobs-in-containers) for job_conf configuration. 
+* If you haven’t set `sanitize_all_html: false` in `galaxy.yml`, please set it to False to enable our HTML report functionality.
+* Should be good to go. 
+
+# Make contributions
+
+## Getting Started
+
+To get started, you’ll need to fork the repository, clone it locally, and create a new branch for your contributions.
+
+1. **Fork the Repository**: Click the "Fork" button at the top right of this page.
+2. **Clone the Fork**:
+  ```bash
+    git clone https://github.com/<your-username>/Galaxy-Pycaret.git
+    cd <your-repo>
+  ```
+3. **Create a Feature/hotfix/bugfix Branch**:
+  ```bash
+    git checkout -b feature/<feature-branch-name>
+  ```
+  or
+  ```bash
+    git checkout -b hotfix/<hoxfix-branch-name>
+  ```
+  or
+  ```bash
+    git checkout -b bugfix/<bugfix-branch-name>
+  ```
+
+## How We Manage the Repo
+
+We follow a structured branching and merging strategy to ensure code quality and stability.
+
+1. **Main Branches**:
+   - **`main`**: Contains production-ready code.
+   - **`dev`**: Contains code that is ready for the next release.
+
+2. **Supporting Branches**:
+   - **Feature Branches**: Created from `dev` for new features.
+   - **Bugfix Branches**: Created from `dev` for bug fixes.
+   - **Release Branches**: Created from `dev` when preparing a new release.
+   - **Hotfix Branches**: Created from `main` for critical fixes in production. 
+
+### Workflow
+
+- **Feature Development**: 
+  - Branch from `dev`.
+  - Work on your feature.
+  - Submit a Pull Request (PR) to `dev`.
+- **Hotfixes**: 
+  - Branch from `main`.
+  - Fix the issue.
+  - Merge back into both `main` and `dev`.
+
+## Contribution Guidelines
+
+We welcome contributions of all kinds. To make contributions easy and effective, please follow these guidelines:
+
+1. **Create an Issue**: Before starting work on a major change, create an issue to discuss it.
+2. **Fork and Branch**: Fork the repo and create a feature branch.
+3. **Write Tests**: Ensure your changes are well-tested if applicable.
+4. **Code Style**: Follow the project’s coding conventions.
+5. **Commit Messages**: Write clear and concise commit messages.
+6. **Pull Request**: Submit a PR to the `dev` branch. Ensure your PR description is clear and includes the issue number.
+
+### Submitting a Pull Request
+
+1. **Push your Branch**:
+    ```bash
+    git push origin feature/<feature-branch-name>
+    ```
+2. **Open a Pull Request**:
+   - Navigate to the original repository where you created your fork.
+   - Click on the "New Pull Request" button.
+   - Select `dev` as the base branch and your feature branch as the compare branch. 
+   - Fill in the PR template with details about your changes.
+
+3. **Rebase or Merge `dev` into Your Feature Branch**:
+    - Before submitting your PR or when `dev` has been updated, rebase or merge `dev` into your feature branch to ensure your branch is up to date:
+    
+4. **Resolve Conflicts**:
+    - If there are any conflicts during the rebase or merge, Git will pause and allow you to resolve the conflicts.
+
+5. **Review Process**: Your PR will be reviewed by a team member. Please address any feedback and update your PR as needed.
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